item: #1 of 647 id: cord-000010-prsvv6l9 author: Qin, Jian title: Studying copy number variations using a nanofluidic platform date: 2008-08-18 words: 4997 flesch: 44 summary: DNA Amplification: Current Technologies and Applications Mathematical analysis of copy number variation in a DNA sample using digital PCR on a nanofluidic device Real-time reverse transcriptionpolymerase chain reaction assay for SARS-associated coronavirus Structure and transcription of a human gene for H1 RNA, the RNA component of human RNase P The effect of cytochrome P450 metabolism on drug response, interactions, and adverse effects Overview of enzymes of drug metabolism The clinical role of genetic polymorphisms in drug-metabolizing enzymes Individualized drug therapy The prevalence and clinical relevance of cytochrome P450 polymorphisms Pharmacogenetics and adverse drug reactions CYP2D6 polymorphisms and the impact on tamoxifen therapy Clinical implications of CYP2D6 genetic polymorphism during treatment with antipsychotic drugs Deletion of the entire cytochrome P450 CYP2D6 gene as a cause of impaired drug metabolism in poor metabolizers of the debrisoquine/sparteine polymorphism Ultrarapid metabolizers of debrisoquine: characterization and PCR-based detection of alleles with duplication of the CYP2D6 gene CYP2D6 genotyping strategy based on gene copy number determination by TaqMan real-time PCR Determination of cytochrome P450 2D6 (CYP2D6) gene copy number by real-time quantitative PCR Pharmacogenetic screening of the gene deletion and duplications of CYP2D6 The human debrisoquine 4-hydroxylase (CYP2D) locus: sequence and identification of the polymorphic CYP2D6 gene, a related gene, and a pseudogene Ultrarapid drug metabolism: PCR-based detection of CYP2D6 gene duplication Human breast cancer: correlation of relapse and survival with amplification of the HER-2/neu oncogene Studies of the HER-2/neu proto-oncogene in human breast and ovarian cancer Detection and quantitation of HER-2/neu gene amplification in human breast cancer archival material using fluorescence in situ hybridization Prognostic and predictive value of HER2/neu oncogene in breast cancer ERBB2 oncogene in human breast cancer and its clinical significance Use of chemotherapy plus a monoclonal antibody against HER2 for metastatic breast cancer that overexpresses HER2 Ongoing adjuvant trials with trastuzumab in breast cancer Trastuzumab after adjuvant chemotherapy in HER2-positive breast cancer ) 2-year follow-up of trastuzumab after adjuvant chemotherapy in HER2-positive breast cancer: a randomised controlled trial Prognostic and predictive value of HER2/neu oncogene in breast cancer HER2 testing: a review of detection methodologies and their clinical performance Recent duplication, domain accretion and the dynamic mutation of the human genome Detection of large-scale variation in the human genome Large-scale copy number polymorphism in the human genome Segmental duplications and copy-number variation in the human genome Structural variation in the human genome Challenges and standards in integrating surveys of structural variation Autosomal-dominant microtia linked to five tandem copies of a copy-number-variable region at chromosome 4p16 A comprehensive analysis of common copynumber variations in the human genome New perspectives for the elucidation of genetic disorders Genomic rearrangements and sporadic disease Global variation in copy number in the human genome Methods and strategies for analyzing copy number variation using DNA microarrays Challenges and standards in integrating surveys of structural variation CYP2D6 genotyping strategy based on gene copy number determination by TaqMan real-time PCR Determination of cytochrome P450 2D6 (CYP2D6) gene copy number by real-time quantitative PCR Pharmacogenetic screening of the gene deletion and duplications of CYP2D6 HER-2/neu gene copy number quantified by real-time PCR: comparison of gene amplification, heterozygosity, and immunohistochemical status in breast cancer tissue Reliability and discriminant validity of HER2 gene quantification and chromosome 17 aneusomy analysis by real-time PCR in primary breast cancer Digital PCR for the molecular detection of fetal chromosomal aneuploidy Human breast cancer: correlation of relapse and survival with amplification of the HER-2/neu oncogene We have evaluated the digital array's performance using a model system, to show that this technology is exquisitely sensitive, capable of differentiating as little as a 15% difference in gene copy number (or between 6 and 7 copies of a target gene). keywords: able; amplification; analysis; array; breast; cancer; cell; chambers; clinical; cnv; copies; copy; copy number; cyp2d6; cyp2d6 gene; data; detection; digital; digital array; diploid; dna; duplication; erbb2; figure; gene; gene copy; genome; genomic; her2; high; human; human genome; interest; large; molecules; multiple; neu; number; panel; pcr; platform; polymorphism; positive; quantitative; ratio; reaction; real; reference; relative; results; rnase; rpp30; samples; single; sta; study; system; taqman; target; technologies; time; use; variation cache: cord-000010-prsvv6l9.txt plain text: cord-000010-prsvv6l9.txt item: #2 of 647 id: cord-000012-p56v8wi1 author: Bigot, Yves title: Molecular evidence for the evolution of ichnoviruses from ascoviruses by symbiogenesis date: 2008-09-18 words: 6431 flesch: 40 summary: Since parasitoid wasps are able to vector different viruses [44, 45] , this second scenario opens the exciting possibility that virus genes involved in the ichnovirus biology might correspond to a gene patchwork resulting from transfers from viruses belonging to different NCLDV and non-NCLVD families. Indeed, they match an evolutionary scenario of endosymbiogenesis during which, from a single integration event of symbiotic virus genome, viral genes were lost and/or translocated from the provirus to other chromosomal regions (Fig. 5 ). keywords: acc; acid; additional; amino; analysis; ascoviral; ascovirus; bacterial; biology; blast; chromosomal; civ; closest; cluster; conserved; csiv; data; date; defence; dna; domain; dpav4; endoparasitic; eukaryotic; evidence; evolution; evolutionary; example; family; fig; genes; genomes; genomic; gfiv; homologs; host; hypothesis; ichneumonid; ichnovirus; immune; insect; iridovirus; large; lateral; like; mcp; models; molecular; ncldv; new; non; orfs; origin; orthologs; parasitoid; particles; passive; phycodnaviruses; polydnavirus; pox; proteins; proviral; recombination; related; relationships; relatives; replication; residues; results; sequence; sfav1a; similar; species; structural; studies; symbiogenesis; transfers; types; viral; virions; viruses; wasp cache: cord-000012-p56v8wi1.txt plain text: cord-000012-p56v8wi1.txt item: #3 of 647 id: cord-000049-rl7sdzd7 author: Lee, David title: Detection of genetically modified organisms (GMOs) using isothermal amplification of target DNA sequences date: 2009-02-02 words: 2901 flesch: 50 summary: This work shows that GMO detection can be carried out using LAMP for routine screening as well as for specific events detection. We have tested the upper limits of DNA that LAMP reactions can tolerate and found that up to 200 ng DNA in a 20 μl reaction, positive detection is reproducible. keywords: amplification; assays; background; border; data; detection; dna; event; figure; food; gmo; gmos; isothermal; lamp; loop; method; ms8; non; nos; number; oilseed; p-35s; pcr; plant; plasmid; primers; products; promoter; rape; reactions; ready; rf3; right; roundup; sample; sensitivity; sequences; specific; table; target; template; testing; transgene; use cache: cord-000049-rl7sdzd7.txt plain text: cord-000049-rl7sdzd7.txt item: #4 of 647 id: cord-000050-tfcerilc author: Rao, Srinivas title: Multivalent HA DNA Vaccination Protects against Highly Pathogenic H5N1 Avian Influenza Infection in Chickens and Mice date: 2008-06-18 words: 5614 flesch: 39 summary: A DNA prime-Mycobacterium bovis BCG boost vaccination strategy for cattle induces protection against bovine tuberculosis Immune response in mice and cattle after immunization with a Boophilus microplus DNA vaccine containing bm86 gene Immunization of pigs to prevent disease in humans: construction and protective efficacy of a Salmonella enterica serovar Typhimurium live negative-marker vaccine Humoral response to West Nile virus vaccination in alpacas and llamas Preliminary results of an anticircumsporozoite DNA vaccine trial for protection against avian malaria in captive African black-footed penguins (Spheniscus demersus) Recombinant influenza A virus vaccines for the pathogenic human A/Hong Kong/97 (H5N1) viruses Immunization of turkeys with a DNA vaccine expressing either the F or N gene of avian metapneumovirus Protection of turkeys against Chlamydophila psittaci challenge by DNA and rMOMP vaccination and evaluation of the immunomodulating effect of 1 alpha DNA vaccination in the avian Cross-protection among lethal H5N2 influenza viruses induced by DNA vaccine to the hemagglutinin Enhanced protective efficacy of H5 subtype avian influenza DNA vaccine with codon optimized HA gene in a pCAGGS plasmid vector Characterization of H5N1 influenza viruses that continue to circulate in geese in southeastern Control and prevention of avian influenza in an evolving scenario Genesis of pandemic influenza Containing pandemic influenza at the source The next influenza pandemic: can it be predicted viruses and vaccines Scientific barriers to developing vaccines against avian influenza viruses Overview of avian influenza DIVA test strategies Emergence and predominance of an H5N1 influenza variant in China A human T-cell leukemia virus type 1 regulatory element enhances the immunogenicity of human immunodeficiency virus type 1 DNA vaccines in mice and nonhuman primates Immunization by avian H5 influenza hemagglutinin mutants with altered receptor binding specificity Protective immunity to lethal challenge of the 1918 pandemic influenza virus by vaccination Crossprotectiveness and immunogenicity of influenza A/Duck/Singapore/3/97(H5) vaccines against infection with A/Vietnam/1203/04(H5N1) virus in ferrets Vesicular stomatitis virus vectors expressing avian influenza H5 HA induce cross-neutralizing antibodies and long-term protection Efficacy of the AGRO-JET MIT-II NEEDLE-LESS JET INJECTOR for Iron Dextran Administration in Piglets Molecular determinants within the surface proteins involved in the pathogenicity of H5N1 influenza viruses in chickens Are we ready for pandemic influenza? For the two 5 plasmid combination groups pCMV/R 8kB-HA Biological features of genetic immunization DNA vaccines DNA vaccines: immunology, application, and optimization Strategies for inducing protection against avian influenza A virus subtypes with DNA vaccines A DNA vaccine induces SARS coronavirus neutralization and protective immunity in mice Immunotargeting with CD154 (CD40 ligand) enhances DNA vaccine responses in ducks Development and application of reference antisera against 15 hemagglutinin subtypes of influenza virus by DNA vaccination of chickens Effects of DDA, CpG-ODN, and plasmid-encoded chicken IFN-gamma on protective immunity by a DNA vaccine against IBDV in chickens Principles for vaccine protection in chickens and domestic waterfowl against avian influenza: emphasis on Asian H5N1 high pathogenicity avian influenza Association of serologic and protective responses of avian influenza vaccines in chickens Effect of plasmid DNA vaccine design and in vivo electroporation on the resulting vaccine-specific immune responses in rhesus macaques Route and method of delivery of DNA vaccine influence immune responses in mice and non-human primates Needle-free injection of DNA vaccines: a brief overview and methodology keywords: ability; addition; agro; animals; antibodies; antibody; assay; avian; breadth; cell; challenge; chickens; control; days; delivery; device; differences; different; dilutions; disease; dna; dose; effective; expression; fig; free; groups; h5n1; heterologous; hpai; human; immune; immunity; immunization; immunized; immunogens; infectious; influenza; injectate; injection; jeth; lethal; methods; mice; minutes; multiple; multivalent; needle; neutralization; neutralizing; pandemic; pathogenic; pcmv; plasmid; post; poultry; pressure; protection; responses; serum; set; significant; species; strains; study; subcutaneous; survival; test; titers; transmission; trivalent; vaccination; vaccine; vectors; vietnam/1203/2004; viral; virus; viruses; week cache: cord-000050-tfcerilc.txt plain text: cord-000050-tfcerilc.txt item: #5 of 647 id: cord-000083-3p81yr4n author: None title: Poster Exhibition date: 2009-01-31 words: 113010 flesch: 51 summary: From this group of HBV patients 35 (98%) have had elevated urinal Dol excreation (45,8±5,2 g/ml vs . 3% and 47.4 respectively in HCC patients, 60.3% and 39.7 in LC patients, 55% and 40 in CHB patients, 55% and 40 in ACLF patients. keywords: 1,2; 2008; abbott; abdominal; ability; ablation; abnormal; absence; accuracy; acid; aclf; aclf patients; activation; active; activity; acute; acute hepatitis; acute liver; addition; adefovir; adiponectin; administration; adult; adv; advanced; advanced hcc; adverse; afp; age; agent; ahb; aids patients; aim; aims; alanine; albumin; alcoholic; alfa-2a; allele; alpha; alt; alt group; alt levels; alternative; amino; aminotransferase; amplicor; analogues; analysis; anemia; angiogenesis; angiogenic; animals; anti; antibody; antigen; antioxidant; antiviral; antiviral therapy; antiviral treatment; apoptosis; apoptotic; approach; area; arm; arterial; ascites; asian; asian patients; assay; assessment; associated; association; ast; asymptomatic; available; average; b virus; background; bangladesh; basal; baseline; baseline hbv; basic; bcaa; bcp; beijing; benefit; better; bile; biliary; bilirubin; binding; biochemical; biomarkers; biopsies; bleeding; blood; blot; bmi; body; breakthrough; calculated; cancer; cancer patients; carcinoma; carcinoma patients; carriers; cases; caspase; cause; cccdna; cd25; cd4; cd8; cells; center; ceus; chain; change; characteristics; characterized; chb patients; chc; chemotherapy; chen; child; children; china; chinese patients; cholesterol; chronic hbv; chronic hepatitis; chronic liver; chronic viral; cirrhosis group; cirrhotic patients; cisplatin; classification; cld; clearance; clevudine; clinical; clinical study; clones; cobas; cohort; colon; combination; combination therapy; combination treatment; combined; common; comparable; comparison; complete; complications; concentration; conclusion; condition; consecutive patients; content; continued; contrast; contribute; control; control group; conventional; copies; copper; correlation; cost; countries; counts; course; cox; criteria; cross; crp; crucial; culture; cumulative; curative; curve; cycle; cytokines; cytometry; daily; damage; data; days; dcp; death; december; decline; decreased; degree; dendritic; density; department; detection; determined; developed; developing; development; diabetes; diabetic patients; diagnosis; diameter; diet; differences; different; difficult; dipivoxil; direct; diseases; distribution; divided; dna levels; dna load; dna negative; dna positive; donors; dose; double; drug; duration; dynamic; dysfunction; early; effect; effective; effectiveness; efficacy; elder patients; elecsys; elevated; elevation; elisa; emergence; encephalopathy; end; endoscopic; endpoint; enhanced; entecavir; entry; enzyme; esophageal; essential; established; ethanol; etiology; etv; evaluation; events; evidence; evr; examination; excretion; experienced; experimental; exposure; expression; expression level; extent; extract; factors; failure; fatty liver; features; fed; female; fetoprotein; fibrosis; fibrotic; findings; flare; flow; fold; follow; following; formation; free; frequency; frequent; function; gallbladder; gallstones; gastric; gender; gene; general; genetic; genome; genomic; genotype; genotyping; ggt; glucose; glutathione; good; gpc-3; grade; greater; group; group b; growth; hand; hav; hbc; hbeag; hbeag level; hbeag negative; hbeag positive; hbeag seroconversion; hbs; hbv carriers; hbv cccdna; hbv dna; hbv genotype; hbv group; hbv infection; hbv reactivation; hbv replication; hbv therapy; hbv treatment; hbv viral; hbvdna; hcc cases; hcc cell; hcc group; hcc patients; hcclm3; hccs; hcv; hcv rna; healthy; hepatectomy; hepatic; hepatic fibrosis; hepatic hbv; hepatitis b; hepatitis group; hepatitis patients; hepatocarcinogenesis; hepatocellular; hepatocellular carcinoma; hepatocytes; hepatoma; hepg2; hev; hfgl2; high hbv; high serum; higher; histological; history; hiv; hla; hospital; host; hours; hscs; human; hvpg; hypertension; ifn; igg4; iii; il-10; il-6; il-8; images; imaging; immune; immunohistochemical; impact; important; improved; improvement; inactive; incidence; increase; independent; index; india; individuals; induction; infected; inflammation; inflammatory; influence; inhibited; inhibitor; initial; injection; injury; institute; insulin; intensity; interferon; interval; intrahepatic; intrahepatic hbv; introduction; invasion; invasive; investigation; iron; isolated; january; japan; jaundice; july; key; kidney; kinase; klf8; known; korea; laboratory; lamivudine; lamivudine group; lamivudine treatment; large; later; ldt; leading; length; leptin; lesions; levels; like; limited; linear; lines; lipid; lipiodol; liver; liver biopsy; liver cancer; liver cells; liver cirrhosis; liver damage; liver disease; liver failure; liver function; liver injury; liver stiffness; liver tissue; liver transplantation; liver tumor; load; local; log10; long; loss; low; lower; lsm; lvd; lymphocytes; lymphoma patients; main; major; majority; male; male patients; malignant; management; markers; mars; mass; materials; mean; mean age; mean hbv; measurement; mechanism; median; medical; medicine; medium; meld; metabolic; metastasis; methods; mice; microarray; mild; mixed; model; molecular; molecules; monitoring; monotherapy; months; mortality; mouse; mrna; multiple; multivariate; muscle; mutant; mutation; mvi; nafld patients; nash; nash patients; national; naïve patients; nbnc; necessary; necrosis; need; needle; negative chronic; negative hbv; negative patients; neovascularization; new; nodules; non; nonalcoholic; normal; normal alt; normal liver; normalization; novel; npv; nuclear; nucleos(t)ide; nucleoside; number; obese; objective; observed; occult hbv; odds; old; order; outcome; overall; overexpression; overlapping; oxidative; p<0.001; p<0.05; parameters; partial; pathogenesis; pathological; pathway; patients; patients chronic; patients genotype; patients group; patterns; pbmcs; pcr; pd-1; peak; peg; peg10; peginterferon; pegylated; people; percentage; percutaneous; performance; period; peripheral; phase; phc patients; phg; phylogenetic; placebo; plasma; plasmid; platelet; play; plt; plus; point; polymerase; polymorphism; poor; population; portal; positive cells; positive chb; positive chronic; positive patients; positive rate; possibility; possible; post; poster; potential; ppv; practice; predictive; predictors; pregnant; presence; present; present study; pressure; pretreatment; prevalence; previous; primary; prior; problem; procedure; profile; prognosis; progression; proliferation; prolonged; promoter; proportion; prospective; protein; protein expression; prothrombin; pugh; purpose; quality; quantification; quantitative; quantity; rabbits; radiofrequency; randomized; range; rapid; rate; ratio; rats; reaction; reactive; real; recent; receptor; recipients; recombinant; records; recurrence; reduced; reduction; refractory patients; region; regulation; regulatory; relapse; related; relationship; relative; replication; reported; reports; research; resection; resistance; resistant hbv; resistant patients; respectively; response; response rate; results; retrospective; reverse; rfa; ribavirin; risk; risk patients; rna; roche; role; rosiglitazone; routine; rvr; sae; safety; saline; samples; sbp; score; screening; sensitive; sensitivity; sequence; sequencing; sera; seroconversion; serological; serum alt; serum hbv; serum levels; session; severe; severity; sex; signal; signaling; significance; significant difference; significant fibrosis; significantly; similar; simple; simulation; single; sirna; site; size; small; sodium; somani; sonazoid; south; specific; specificity; spleen; splenic; stable; stage; staining; standard; statistical; status; steatohepatitis; steatosis; stellate; step; strain; stress; studies; study; study group; study patients; subjects; substitutions; suppression; surface; surgery; surveillance; survival; sustained; svr; svr patients; switching; syndrome; system; t cells; t12; tace; taiwan; target; technique; telbivudine; terlipressin; test; testing; therapeutic; therapies; therapy; therapy group; time; tissue; tlr2; tlr4; tnf; total; total hbv; toxicity; transaminase; transcription; transmission; transplantation; treatment; treatment group; treatment patients; treatment response; treatment results; treg; trials; tumor; tvr; types; ultrasonography; underwent; undetectable; undetectable hbv; univariate; university; unknown; untreated; urine; use; useful; vaccination; vaccine; value; variables; variations; variceal; varices; vascular; vegf; vein; venous; viral; viral hepatitis; viral load; virologic; virus; vitro; vivo; volume; wang; wd patients; weeks; weight; western; wild; withdrawal; women; workers; years; young patients; younger; zhang; zinc cache: cord-000083-3p81yr4n.txt plain text: cord-000083-3p81yr4n.txt item: #6 of 647 id: cord-000104-3b8b8p61 author: McWhirter, Sarah M. title: A host type I interferon response is induced by cytosolic sensing of the bacterial second messenger cyclic-di-GMP date: 2009-08-31 words: 8591 flesch: 47 summary: These observations indicate that c-di-GMP can stimulate cytokine and NK cell responses in vivo, and these responses require the IRF3/7 transcription factors. DAI was expressed in other cell types, such as mouse embryonic fibroblasts (MEFs), but was dispensable for the response to cytosolic DNA in these cell types, suggesting that additional uncharacterized nucleic acid sensor proteins also exist . keywords: acid; activation; adjuvant; anti; antiviral; bacterial; bone; cells; cyclic; cytosolic; dai; data; deficient; distinct; dna; double; et al; experiments; expression; factors; fig; gene; gmp; host; hsa; human; ifn; ifns; immune; immunity; independent; induced; induction; innate; interferon; irf3; irf3/7; irf7; ishii; karaolis; kinase; ligands; like; lps; macrophages; map; marrow; mavs; mda5; medzhitov; messenger; mice; molecule; mouse; myd88; nf-b; novel; nuclear; nucleic; pathogens; pathway; pcr; pda; production; protein; receptor; recognition; response; results; rig; rna; role; second; sensing; sensors; signaling; significant; similar; stetson; stimulated; student; system; tbk1; test; transcription; trif; trigger; type; university; vaccines; vivo; wild; / cache: cord-000104-3b8b8p61.txt plain text: cord-000104-3b8b8p61.txt item: #7 of 647 id: cord-000248-zueoyesj author: Berretta, Regina title: Cancer Biomarker Discovery: The Entropic Hallmark date: 2010-08-18 words: 33640 flesch: 32 summary: implications for Dunnigan-type familial partial lipodystrophy A-type lamins: guardians of the soma? Downregulation of human X-box binding protein 1 (hXBP-1) expression correlates with tumor progression in human prostate cancers The proapoptotic kinase Mst1 and its caspase cleavage products are direct inhibitors of Akt1 Gene network and canonical pathway analysis in prostate cancer: a microarray study Biomarker expression patterns that correlate with high grade features in treatment naive, organ-confined prostate cancer NF-kappaB2 processing and p52 nuclear accumulation after androgenic stimulation of LNCaP prostate cancer cells Diverse effects of zinc on NF-kappaB and AP-1 transcription factors: implications for prostate cancer progression Nuclear factor-kappaB nuclear localization is predictive of biochemical recurrence in patients with positive margin prostate cancer Id-1 expression promotes cell survival through activation of NF-kappaB signalling pathway in prostate cancer cells Suppression of hormone-refractory prostate cancer by a novel nuclear factor kappaB inhibitor in nude mice Mechanisms of constitutive NF-kappaB activation in human prostate cancer cells Bcl-2 suppresses apoptosis resulting from disruption of the NF-kappa B survival pathway Gene expression profiling of human prostate cancer stem cells reveals a proinflammatory phenotype and the importance of extracellular matrix interactions Molecular imaging of NF-kappaB in prostate tissue after systemic administration of IL-1 beta TNF/IL-1/NIK/NF-kappa B transduction pathway: a comparative study in normal and pathological human prostate (benign hyperplasia and carcinoma) Proteasome inhibitors induce apoptosis of prostate cancer cells by inducing nuclear translocation of IkappaBalpha Targeting the receptor activator of nuclear factor-kappaB (RANK) ligand in prostate cancer bone metastases Pomegranate extract inhibits androgen-independent prostate cancer growth through a nuclear factor-kappaB-dependent mechanism The nuclear factor-kappaB pathway controls the progression of prostate cancer to androgenindependent growth A new prostate cancer therapeutic approach: combination of androgen ablation with COX-2 inhibitor Inhibitory effect of snake venom toxin from Vipera lebetina turanica on hormone-refractory human prostate cancer cell growth: induction of apoptosis through inactivation of nuclear factor kappaB Prostate cancer chemoprevention by silibinin: bench to bedside Genistein inhibits radiation-induced activation of NF-kappaB in prostate cancer cells promoting apoptosis and G2/M cell cycle arrest NF-kappaB inhibition increases chemosensitivity to trichostatin A-induced cell death of Ki-Ras-transformed human prostate epithelial cells Involvement of the TNF-alpha autocrine-paracrine loop, via NF-kappaB and YY1, in the regulation of tumor cell resistance to Fas-induced apoptosis Estrogens and antiestrogens as etiological factors and therapeutics for prostate cancer NF-kappaB activation upregulates fibroblast growth factor 8 expression in prostate cancer cells Anticancer potential of silymarin: from bench to bed side Blockage of NF-kappaB induces serine 15 phosphorylation of mutant p53 by JNK kinase in prostate cancer cells Skp2 enhances polyubiquitination and degradation of TIS21/BTG2/PC3, tumor suppressor protein, at the downstream of FoxM1 Triiodothyronine modulates cell proliferation of human prostatic carcinoma cells by downregulation of the B-cell translocation gene 2 B cell translocation gene 2 enhances susceptibility of HeLa cells to doxorubicin-induced oxidative damage TIS21 (/BTG2/PC3) as a link between ageing and cancer: cell cycle regulator and endogenous cell death molecule Expression of B-cell translocation gene 2 protein in normal human tissues Antiproliferative B cell translocation gene 2 protein is down-regulated posttranscriptionally as an early event in prostate carcinogenesis Identification of genes associated with stromal hyperplasia and glandular atrophy of the prostate by mRNA differential display Role of connective tissue growth factor in fibronectin synthesis in cultured human prostate stromal cells Stromal expression of connective tissue growth factor promotes angiogenesis and prostate cancer tumorigenesis Analysis of gene expression during staurosporine-induced neuronal differentiation of human prostate cancer cells Profiling molecular targets of TGF-beta1 in prostate fibroblast-to-myofibroblast transdifferentiation Expression of androgen receptor coregulatory proteins in prostate cancer and stromal-cell culture models FHL2, a novel tissue-specific coactivator of the androgen receptor Four and a Half LIM Domain 2 alters the impact of Aryl Hydrocarbon Receptor on Androgen Receptor transcriptional activity Differently regulated androgen receptor transcriptional complex in prostate cancer compared with normal prostate Suppression of FOXO1 activity by FHL2 through SIRT1-mediated deacetylation The transcriptional coactivator FHL2 transmits Rho signals from the cell membrane into the nucleus Functional epigenomics identifies genes frequently silenced in prostate cancer Expression level and DNA methylation status of glutathione-S-transferase genes in normal murine prostate and TRAMP tumors Function of JunB in transient amplifying cell senescence and progression of human prostate cancer KAI1 promoter activity is dependent on p53, junB and AP2: evidence for a possible mechanism underlying loss of KAI1 expression in cancer cells Inhibition of prostate tumor growth by overexpression of NudC, a microtubule motorassociated protein Control of androgen receptor signaling in prostate cancer by the cochaperone small glutamine rich tetratricopeptide repeat containing protein alpha Signal transducer and activator of transcription-6 (STAT6) is a constitutively expressed survival factor in human prostate cancer Robust prostate cancer marker genes emerge from direct integration of inter-study microarray data Molecular features of the transition from prostatic intraepithelial neoplasia (PIN) to prostate cancer: genome-wide gene-expression profiles of prostate cancers and PINs Analysis of integrin alpha7 mutations in prostate cancer, liver cancer, glioblastoma multiforme, and leiomyosarcoma The biology of cancer The chromosomal basis of cancer Gene panel model predictive of outcome in men at high-risk of systemic progression and death from prostate cancer after radical retropubic prostatectomy Aneuploidy and rapid cell proliferation in recurrent prostate cancers with androgen receptor gene amplification Prognostic value of DNA analysis of prostate adenocarcinoma: correlation to clinicopathologic predictors Heterogeneity in prostate cancer: Identification of cdk activating kinase (CAK) as an androgen receptor NH(2)-terminal associated coactivator Alphamethylacyl-CoA racemase-an 'obscure' metabolic enzyme takes centre stage Biopsy tissue microarray study of Ki-67 expression in untreated, localized prostate cancer managed by active surveillance Alpha-methylacyl-CoA racemase (P504S) expression in evolving carcinomas within benign prostatic hyperplasia and in cancers of the transition zone Expression of alpha-methylacyl-CoA racemase (P504s) in various malignant neoplasms and normal tissues: astudy of 761 cases Using an AMACR (P504S)/34betaE12/p63 cocktail for the detection of small focal prostate carcinoma in needle biopsy specimens Diagnostic utility of alpha-methylacyl CoA racemase (P504S) on prostate needle biopsy Discovery and clinical application of a novel prostate cancer marker: alpha-methylacyl CoA racemase (P504S) Alphamethylacyl-CoA racemase: a multi-institutional study of a new prostate cancer marker Quantitative immunohistochemical detection of the molecular expression patterns in proliferative inflammatory atrophy The importance of determining the aggressiveness of prostate cancer using serum and tissue molecular markers GOLPH2 protein expression as a novel tissue biomarker for prostate cancer: implications for tissue-based diagnostics Optimization of laser capture microdissection and RNA amplification for gene expression profiling of prostate cancer ) alpha-Methylacyl-CoA racemase: expression levels of this novel cancer biomarker depend on tumor differentiation Elevated alpha-methylacyl-CoA racemase enzymatic activity in prostate cancer Comparison of monoclonal antibody (P504S) and polyclonal antibody to alpha methylacyl-CoA racemase (AMACR) in the work-up of prostate cancer Immunohistochemical detection of carcinoma in radical prostatectomy specimens following hormone therapy Basal cell subpopulation as putative human prostate carcinoma stem cells A statistical method for identifying differential gene-gene co-expression patterns Alphamethylacyl-CoA racemase (AMACR/P504S) protein expression in urothelial carcinoma of the upper urinary tract correlates with tumour progression Sequence variation in alpha-methylacyl-CoA racemase and risk of early-onset and familial prostate cancer Malignant transformation of human benign prostate epithelial cells by high linear energy transfer alpha-particles Expression of alpha-methylacylcoenzyme A racemase in dysplastic Barrett's epithelium Quantitative analysis of a panel of gene expression in prostate cancer-with emphasis on NPY expression analysis The value of using an AMACR/34betaE12/p63 cocktail double staining for diagnosis of prostate carcinoma Decreased gene expression of steroid 5 alpha-reductase 2 in human prostate cancer: implications for finasteride therapy of prostate carcinoma Alpha-methylacyl-CoA racemase: a new molecular marker for prostate cancer Alpha-methylacyl-CoA racemase: a variably sensitive immunohistochemical marker for the diagnosis of small prostate cancer foci on needle biopsy Neoadjuvant docetaxel treatment for locally advanced prostate cancer: a clinicopathologic study Biomarkers for Prostate Cancer Method for quantification of a prostate cancer biomarker in urine without sample preparation Effects of the dual 5 alpha-reductase inhibitor dutasteride on apoptosis in primary cultures of prostate cancer epithelial cells and cell lines Routine immunohistochemical staining for high-molecular weight cytokeratin 34-beta and alpha-methylacyl CoA racemase (P504S) in postirradiation prostate biopsies Search for residual prostate cancer on pT0 radical prostatectomy after positive biopsy Branched fatty acids in dairy and beef products markedly enhance alpha-methylacyl-CoA racemase expression in prostate cancer cells in vitro Alpha-methyl CoA racemase expression in renal cell carcinomas Diagnostic utility of a p63/alpha-methyl-CoA-racemase (p504s) cocktail in atypical foci in the prostate Value of new prostate cancer markers: alpha methylacyl CoA racemase (P504S) and p63 Evaluation of p63 and p504s markers for the diagnosis of prostate cancer keywords: activation; activity; ada; addition; adenocarcinoma; adenosine; adhesion; alpha; alphamethylacyl; alterations; altered; amacr; analysis; androgen; aneuploidy; antigen; apoptosis; approach; aqp3; aquaporin; assembly; associated; authors; average; axis; basal; bayes; benign; beta; binding; biological; biology; biomarkers; biopsy; bone; brca1; breast; breast cancer; cancer cells; cancer dataset; cancer expression; cancer progression; cancer samples; cancers; carcinogenesis; carcinoma; case; ccl2; cd40; cd59; cdk4; cell; cell cycle; cell growth; cell lines; cell proliferation; cellular; chain; changes; channels; chromosomal; cldn1; clinical; cluster; coa; coa racemase; coding; common; comparison; complexity; consequence; context; control; correlate; correlation; corresponding; current; cycle; cyclin; damage; dataset; deaminase; death; demon; dendritic; dependent; detection; development; diagnosis; different; differentiation; discussion; disease; disorder; distribution; divergence; dna; doi:10.1371; domain; downregulation; dynamics; dysfunction; early; endothelial; entropy values; epidermis; epithelial; epithelial cells; essential; et al; event; evidence; example; experimental; expression; expression patterns; expression profile; expression values; factor; family; figure; following; fos; foxm1; function; gather; gene; gene expression; genetic; genome; genomic; gleason; global; gradual; group; growth; growth factor; hallmark; high; higher; human; human cancer; human melanoma; human prostate; identification; immunohistochemical; implications; important; increase; induced; induction; information; inhibitor; inhibits; instability; integrity; interaction; interesting; invasion; investigation; jensen; junctions; kappab; key; kinase; klk3; lamin; lapointe; large; length; lesions; levels; like; lines; list; lmna; localization; localized; long; loss; lower; lung; lymph; major; malignant; materials; mathematical; maxwell; measure; mechanism; melanocytes; melanoma; melanoma cells; melanoma progression; member; membrane; metabolic; metastasis; metastasis samples; methodology; methods; methylacyl; mice; microarray; migration; mitochondrial; mitotic; modified; molecular; mouse; mpr; mrna; murine; mutations; natural; negative; nevi; new; node; noncoding; normal expression; normal prostate; normal samples; normal skin; normalized shannon; note; novel; nuclear; number; observed; ontology; order; organization; original; osteopontin; osteopontin expression; outliers; p504s; p53; p63; panel; paper; paraspeckles; particular; pathway; patients; pattern; pearson; perspective; phase; phenotype; pkp1; plakophilin; plane; plk1; polo; position; positive; possible; potential; present; primary; primary prostate; probability; probes; processes; profile; profiling; prognostic; progression; proliferation; promoter; prostate cancer; prostate carcinoma; prostate epithelial; prostatectomy; prostatic; protein; protein expression; proton; psa; psf; putative; quantifiers; quantitative; racemase; racemase expression; radical; ranking; receptor; reduction; reference; region; regulation; regulatory; relatively; relevance; reported; research; researchers; response; results; risk; rna; rnas; role; samples; section; selection; serum; sfpq; shannon; shannon divergence; shannon entropy; signaling; significant; skin; small; sox9; spearman; species; specific; spindle; splicing; spp1; stage; states; statistical; statistical complexity; stem; stress; structure; studies; study; suppressor; surprisal; survival; system; table; telomere; temperature; theory; therapy; thermodynamic; throughput; tight; time; tissue; tp53; tp63; transcriptional; transcriptome; transition; treatment; trend; true; tumor; tumorigenesis; tumours; type; uniform; unifying; use; useful; uveal; values; variation; vascular; water; work cache: cord-000248-zueoyesj.txt plain text: cord-000248-zueoyesj.txt item: #8 of 647 id: cord-000269-v4jochbe author: Wittekindt, Nicola E. title: Nodeomics: Pathogen Detection in Vertebrate Lymph Nodes Using Meta-Transcriptomics date: 2010-10-18 words: 5897 flesch: 40 summary: A comparison of the three methods used to detect bacteria in mule deer lymph node samples is shown for MD 257 in Figure 2 and for MD 80228 and MD OCT-pool in Figure S1 . The microbial community of mule deer lymph nodes Detection of protein-coding and ribosomal RNA transcripts provides strong support for the presence of viable and replicating microorganisms. keywords: 16s; acinetobacter; ambion; amplicon; analysis; animals; applied; approach; archaea; bacterial; biosystems; bonner; cdna; coding; commensal; communities; community; comparison; database; deer; detection; disease; diversity; environmental; fig; figure; gamma; genera; genomic; healthy; helicobacter; host; human; identification; individual; infections; kit; libraries; library; lymph; md oct; megan; members; meta; methods; microbial; microorganisms; mule; mule deer; new; nodes; novel; number; oct; pathogens; pcr; poly(a; pool; potential; present; protein; pyrosequencing; retropharyngeal; retrovirus; ribosomal; rna; rrna; runs; samples; sequences; sequencing; single; soil; species; studies; study; table; tags; taxonomic; tissue; total; transcripts; version; viable; viral; viruses; wildlife cache: cord-000269-v4jochbe.txt plain text: cord-000269-v4jochbe.txt item: #9 of 647 id: cord-000293-pc4x5e24 author: Yu, Chien-Hung title: Stimulation of ribosomal frameshifting by antisense LNA date: 2010-08-06 words: 3906 flesch: 40 summary: To demonstrate that the enhanced effect of LNA oligonucleotides is a general feature we designed another construct (SF462) in which the target sequence was replaced by an unrelated sequence ( Figure 4 ). However, the excellent affinity of LNA oligonucleotides could be a double-edged sword in certain cases. keywords: acid; activity; affinity; antisense; applications; complementary; construct; data; different; dna; dna18; downstream; effect; efficiency; experiments; figure; frameshifting; gene; high; higher; induced; length; levels; lna; lna2; lna6; lower; mechanical; mechanism; mers; mix; modifications; mrna; nucleic; number; oligonucleotides; optimal; position; programmed; pseudoknot; reading; results; ribosomal; ribosome; rna; sequence; signal; site; slippery; small; stability; stimulating; structure; substitutions; thermodynamic; type cache: cord-000293-pc4x5e24.txt plain text: cord-000293-pc4x5e24.txt item: #10 of 647 id: cord-000403-vzbh457k author: Zhang, Weijun title: Identification of CD8(+ )cytotoxic T lymphocyte epitopes from porcine reproductive and respiratory syndrome virus matrix protein in BALB/c mice date: 2011-05-30 words: 4280 flesch: 44 summary: A multiple amino acid sequence alignment among different PRRSV M proteins indicates that these two peptides are strongly conserved across multiple PRRSV strains and therefore should be considered for further research. We screened peptides derived from the PRRSV M protein for their ability to induce interferon (IFN)-γ in splenocytes harvested from BALB/ c mice following DNA vaccination and a booster vaccination with recombinant vaccinia virus expressing M protein. keywords: additional; analysis; antibody; balb; booster; cd3; cd8; cells; control; ctl; days; different; dna; epitopes; expression; fig; file; fitsrcrl; fusion; group; gymtfvhf; identification; ifn; immune; infection; m protein; mice; number; pbs; peptides; plasmid; porcine; protein; prrsv; psc11; purified; pvax1; recombinant; reproductive; research; respiratory; responses; rwr; sequence; significant; specific; splenocytes; strain; syndrome; table; vaccinated; vaccination; vaccinia; vector; virus cache: cord-000403-vzbh457k.txt plain text: cord-000403-vzbh457k.txt item: #11 of 647 id: cord-000436-k1hwh640 author: Amidi, Maryam title: Antigen-expressing immunostimulatory liposomes as a genetically programmable synthetic vaccine date: 2010-10-26 words: 5898 flesch: 37 summary: with AnExIL-IN, AnExIL-ON, pCMV-Lac-Z encapsulated in liposomes (further referred to as liposomal DNA vaccine), b-galactosidase encapsulated in liposomes (further referred to as liposomal protein vaccines) and b-galactosidase coencapsulated with pDNA (pIVEX-Lac-Z) in liposomes (further referred to as liposomal protein/DNA vaccines). Here, we show that AnExILs expressing b-galactosidase are well tolerated after i.m. injection and were capable of inducing strong systemic immune responses, which were superior to that of liposomal DNA or protein vaccines encoding the same antigen. Egg-derived L-a-phosphatidylcholine (EPC), 1,2-distearoyl-sn-glycero-3-phosphoethanolamine-polyethylene glycol (PEG) 5000 (DSPE-PEG 5000) and 1,2-dioleoyl-sn-glycero-3-([N(5-amino-1-carboxypentyl) iminodi-acetic acid] succinyl) (DOGS-NTA) were purchased from Avanti Polar Lipids, Inc. (Alabaster, Alabama, USA). keywords: amidi; anexils; antibodies; antibody; antigen; artificial; bacterial; biology; booster; buffer; cell; chol; coli; concentration; control; design; dna; efficient; encoding; enzyme; epc; et al; expressed; expression; extract; fig; formulations; free; galactosidase; genetic; goat; higher; i.m; igg1; igg2a; immune; immunization; immunostimulatory; induced; ivtt; lipid; liposomal; liposomes; membrane; mice; min; mix; new; nta; order; pbs; pdna; peg; plates; platform; production; protein; rabbit; reaction; responses; s30; serum; single; specific; strain; strong; studies; surface; synthesis; synthetic; system; systemic; titers; total; translation; tween; usa; vaccination; vaccines; viral cache: cord-000436-k1hwh640.txt plain text: cord-000436-k1hwh640.txt item: #12 of 647 id: cord-000452-1gd006zy author: Kim, Y. C. title: Delivery Systems for Intradermal Vaccination date: 2011-04-07 words: 12403 flesch: 32 summary: However, some ID delivery devices in development offer additional desirable features such as needle-free delivery or improved ease of administration, which may be drivers for further adoption of ID vaccine delivery even if there is no net immunologic benefit. Other vaccine trials of ID vaccine delivery are planned for other applications including BCG, IPV, varicella zoster virus, H1N1 and yellow fever (PATH 2009). keywords: abrasion; acid; addition; adjuvant; administration; adults; antibody; antigen; application; approach; array; bcg; cells; cellular; challenge; chemical; clinical; coated; coating; control; conventional; corneum; cost; courtesy; delivery; dermis; development; device; different; diphtheria; disposable; dissolving; dna; dose; drug; effect; effective; efficacy; elderly; electroporation; enhanced; enhancers; epidermal; epidermis; equivalent; eradication; et al; fig; formulation; free; hai; health; hemagglutinin; hepatitis; high; hollow; human; hypodermic; igg; immune; immune response; immunity; immunization; immunized; immunogenicity; improved; inactivated; increase; influenza; influenza vaccine; injection; insertion; intradermal; intramuscular; jet; kim; langerhans; laurent; lethal; low; lung; mantoux; measles; methods; mice; microneedles; model; new; non; novel; number; papania; patch; penetration; permeability; personnel; phase; post; potential; prausnitz; preclinical; pretreatment; protection; rabies; reduced; response; results; routes; safety; seroconversion; sharp; significant; similar; skin; smallpox; solid; sparing; specific; stratum; studies; study; superior; surface; syringe; system; tattooing; technique; technologies; technology; tetanus; thermal; titer; training; transcutaneous; transdermal; transport; trial; ultrasound; use; vaccination; vaccine; vaccine delivery; virus; vivo; weniger cache: cord-000452-1gd006zy.txt plain text: cord-000452-1gd006zy.txt item: #13 of 647 id: cord-000575-g1ob16b9 author: Xie, Xiao-li title: Protein sequence analysis based on hydropathy profile of amino acids date: 2012-01-27 words: 2183 flesch: 40 summary: In order to plot amino acid sequence, 20 amino acids in protein sequences are divided into different types, including protein sequence regarded as a word with three, four, or five different letters. A 2-D graphical representation of protein sequences based on nucleotide triplet codons A representation of DNA primary sequences by random walk A 3D graphical representation of RNA secondary structures based on chaos game representation Novel DNA sequence representation H curves, a novel method of representation of nucleotide series especially suited for long DNA sequences 2-D graphical representation of protein sequences and its application to coronavirus phylogeny Simplification of protein sequence and alignment-free sequence analysis Analysis of similarity of DNA sequences based on 3D graphical representation Application of 2D graphical representation of DNA sequence Protein-based phylogenetic analysis by using hydropathy profile of amino acids Enzymes/non-enzymes classification model complexity based on composition, sequence, 3D and topological indices A new graphical representation and analysis of DNA sequence structure: I. Methodology and application to globin genes Two-dimensional graphical representation of DNA sequences and intron-exon discrimination in intronrich sequences Simple numerical descriptor for quantifying effect of toxic substances on DNA sequences Mathematical descriptors of DNA sequences: development and applications Molecular Evolution and Phylogenetics A probabilistic measure for alignment-free sequence comparison Condensed representation of DNA primary sequences 2-D Graphical representation of proteins based on physico-chemical properties of amino acids Characterization of 3-D sequences of proteins On a four-dimensional representation of DNA primary sequences On the characterization of DNA primary sequences by triplet of nucleic acid bases Alignment-free sequence comparison-a review A 2D graphical representation of protein sequence and its numerical characterization Analysis of similarity/dissimilarity of protein sequences Similarity/dissimilarity studies of protein sequences based on a new 2D graphical representation A protein map and its application The Z curve database: a graphic representation of genome sequences We would like to thank Dr. Jian-gang WANG (College of Animal Science and Technology, Northwest A&F University, China), Jian-zhong LUO (Department of Foreign languages, Northwest A&F University, China), Feng AN and Dr. Jun-li DU (College of Sciences, Northwest A&F University, China) for their helpful suggestions. keywords: acids; alignment; ambivalent; amino; amino acids; analysis; conditional; curves; different; dna; external; free; graphical; group; hydropathy; internal; method; nd6; new; primary; probability; profile; protein; representation; sequence; similarity; vectors cache: cord-000575-g1ob16b9.txt plain text: cord-000575-g1ob16b9.txt item: #14 of 647 id: cord-000625-cpjlzutk author: Ablordey, Anthony title: Detection of Mycobacterium ulcerans by the Loop Mediated Isothermal Amplification Method date: 2012-04-03 words: 3678 flesch: 44 summary: None of the IS2404 PCR negative samples were positive in both types of LAMP assays. Thirty clinical specimens from suspected Buruli ulcer patients were investigated by the modified LAMP (or pocket warmer LAMP) and the conventional LAMP, as well as IS2404 PCR, a reference method for the detection of Mycobacterium ulcerans. keywords: 60uc; amplification; areas; assays; buruli; buruli ulcer; cases; clinical; confirmation; conventional; copies; crude; detection; diagnosis; disease; dna; endemic; extracts; health; infection; is2404; isothermal; laboratory; lamp; loop; method; min; mycobacterium; mycobacterium ulcerans; patients; pcr; pocket; positive; purified; pwlamp; rapid; reaction; results; sensitivity; specimens; study; temperature; test; treatment; ulcerans; unboiled; use; warmer cache: cord-000625-cpjlzutk.txt plain text: cord-000625-cpjlzutk.txt item: #15 of 647 id: cord-000718-7whai7nr author: None title: ESP Abstracts 2012 date: 2012-08-22 words: 166798 flesch: 44 summary: Of those, 11 were also positive for tumor cells on cytological smears. At the papillary thyroid cancer progression matrix metalloprotease and specific tissue inhibitors of metalloprotease (TIMP-2) increased in the cytoplasm of tumor cells, but the concentration of TIMP-1 decreased. keywords: 003; 007; 1st; abbott; abc; abdomen; abdominal; abnormal; abnormalities; absence; absent; abundant; accounts; accumulation; accuracy; accurate; acid; acth; actin; actinomycosis; activation; active; activity; acute; adc; additional; adenocarcinoma; adenoid; adenomas; adenomatous; adenomyoma; adenosquamous; adequate; adhesion; adipose; adjacent; administration; adrenal; adult; advanced; adverse; ae1; ae3; affected; age; aged; agents; aggressive; agreement; aim; aims; akt; akt1; alive; alk; alkaline; allelic; alpha; alterations; altered; alternative; alveolar; amacr; aml; amplification; amplified; amr; amyloidosis; analysis; anaplastic; anatomia; anatomy; androgen; angiogenesis; angiogenic; animals; ankara; anomalies; anterior; antibodies; antibody; antigen; apart; apoptosis; apoptotic; appearance; appendiceal; appendix; applied; approach; appropriate; archival; archive; areas; arterial; arteries; artery; aspiration; assay; assessment; associated; association; astrocytoma; asymptomatic; ataturk; athens; atherosclerosis; atrophy; atypia; atypical; atypical cells; authors; autoimmune; automated; autopsies; autopsy; available; average; axillary; b cell; background; basal; basal cell; base; basis; bcc; bcl-2; bcl2; bcs; behavior; benign; benign tumor; bern; best; beta; better; bilateral; bile; biliary; biochemical; biological; biomarkers; biopsies; biopsy; biopsy results; biphasic; bladder; bladder cancer; bleeding; blocks; blood; blot; blue; bone; borderline; bowel; braf; brain; brazil objective; break; breast; breast cancer; breast carcinoma; breast tumor; broad; bronchial; brown; btn; bucharest; budding; buds; c4d; cadherin; cadherin expression; caix; calcification; calretinin; cancer; cancer cases; cancer cell; cancer patients; capable; capillaries; capsule; carcinogenesis; carcinoid; carcinoid tumor; carcinoma; carcinoma cases; carcinoma objective; carcinoma patients; cardiac; case report; cases; cases a.; cases g.; cases objective; categories; catenin; cause; cavity; caxii; ccrcc; cd10; cd117; cd15; cd1a; cd20; cd30; cd31; cd34; cd44; cd56; cd68; cd8; cd99; cdx2; cdx2 expression; cea; cell adhesion; cell carcinoma; cell cycle; cell lines; cell lung; cell lymphoma; cell neuroendocrine; cell proliferation; cell type; cellular; cellularity; center; central; centre; cep17; certain; cervical; cervix; chain; challenge; challenging; changes; characteristics; characterization; characterized; chd; chemokines; chemotherapy; chest; childhood; children; cholecystitis; chromatin; chromogranin; chromosomal; chronic; circumscribed; cish; ck14; ck19; ck20; ck5/6; ck7; classical; classification; classified; clear cell; clinical; clinical diagnosis; clinicopathological; clonality; clone; clusters; cmv; coefficient; cohort; colitis; collagen; collected; colon; colonic; colorectal; colorectal cancer; colv; combination; combined; common; comparative; compare; comparison; compatible; complete; complex; complicated; complications; component; concentration; conclusion; concordance; condition; confirmation; confused; congenital; consecutive; consecutive cases; consensus; consistent; context; contrast; control; control group; controversial; conventional; copy; coronary; correct; correlate; correlation; corresponding; cortical; costa; count; counting; course; cox-2; crc; crc cases; crcs; creatine; criteria; critical; crucial; ctcs; cuboidal; culture; current; cutaneous; cxcr4; cycle; cyclin; cystic; cystic carcinoma; cysts; cytokeratin; cytological; cytology; cytoplasmic; cytoplasmic expression; czech; dako; damage; data; database; date; days; dcis; dcs; death; december; decision; decrease; deep; deficiency; definitive; degeneration; degree; deletion; dense; density; department; deposition; deposits; dept; dermal; dermis; desmin; desmoids; detection; determination; developing; development; diabetes; diabetic; diagnose; diagnosis; diameter; differences; different; different tumor; differential; differential diagnosis; differential expression; differentiation; difficult; diffuse; diffusely; digestive; digital; dilatation; direct; discordant cases; disease; disorder; distal; distant; distinct; distinction; distribution; dlbcl; dna; dominant; double; drug; dss; ductal; ductal carcinoma; ducts; duodenal; duodenum; duration; dysfunction; dysplasia; early; easy; eber; ebv; ectopic; edema; effective; effects; egfr; egfr expression; electron; elements; elevated; endometrial; endoscopic; endothelial; enlarged; entities; entity; enzyme; eosinophilic; epcam; epidermal; epithelial; epithelial cells; epithelial tumor; epithelioid; equivocal; erb; ercc1; ercc1 expression; erg; essential; established; estradiol; estrogen; etiology; evaluated; evaluation; event; evidence; evident; ewing; exact; examination; excellent; excision; exhibit; exon; experience; experimental; exposure; expression; expression analysis; expression levels; expression patterns; expression profile; extended; extensive; extent; external; extracellular; extraction; ezh2; factor; faculty; failure; family; fas; fat; fatty; favorable; features; female; female patients; fetal; fever; ffpe; fgfr1; fibers; fibroblasts; fibrosis; fibrous; field; figures; files; final; findings; fine; fish; fixation; fixed; fli-1; fluid; fluorescence; fna; focal; foci; focus; fold; follicle; follicular; follow; following; formalin; forms; fraction; fragments; france; free; frequency; frequent; frozen; function; fusion; future; für; gallbladder; gamma; gastric; gastric cancer; gastritis; gastrointestinal; gender; gene; gene expression; general; genetic; genomic; genotype; germany objective; gfap; giant; giant cells; gland; glandular; glass; gleason; glioblastomas; glomerular; glomerulosclerosis; gold; good; gpc3; grade; grading; graft; gram; granular; granulocytic; granulomas; granulomatous; greater; greece objective; grey; gross; group; growing; growth; gse; h&e; hamartoma; hcc; head; healing; healthy; heart; heavy; help; helpful; hemangioma; hematoxylin; hemodialysis; hemorrhagic; hent1; heparanase; hepatic; hepatitis; hepatoblastoma; hepatocellular; hepatocellular carcinoma; her-2; her2; hereditary; heterogeneous; hif-1α; high; high expression; high grade; higher; highest; histiocytes; histiocytosis; histogenesis; histological; histological examination; histological features; histological grade; histological type; histology; histopathological; histopathology; history; hiv; hnscc; hodgkin; hormone; hospital; hot; house; hpf; hpv; human; hurp; hyaline; hybridization; hyperchromatic; hypermethylation; hyperplasia; hypertension; hypothesis; hypoxia; hysterectomy; ibd; identification; idiopathic; igf2; igg4; ihc; iii; images; imaging; immature; immobilized; immune; immunoexpression; immunofluorescence; immunoglobulin; immunohistochemical; immunohistochemical analysis; immunohistochemical expression; immunohistochemical results; immunohistochemical staining; immunohistochemical study; immunophenotype; immunoreactivity; immunostained; immunostaining; impact; important; improved; improvement; incidence; increase; increasing; independent; index; india; indolent; induced; induction; infection; infiltrate; infiltration; inflammation; inflammatory; inflammatory cells; influence; information; inguinal; inhibition; inhibitors; initial; injury; instability; institute; intense; intensity; interest; intermediate; internal; international; interpretation; interstitial; intestinal; intraductal; intraepithelial; intraoperative; intrauterine; invasion; invasive; invasive breast; invasive carcinoma; investigation; involved; involvement; ipf; ipmns; iran; iron; irregular; ischemic; isolated; istanbul; italy objective; iugr; izmir; january; kappa; ki67; kidney; kinase; kingdom objective; kit; knowledge; known; kras; laboratories; laboratory; lack; lamina; langerhans; large; large cell; largest; laryngeal; later; layers; lch; leading; left; length; leptin; lesions; leukemia; levels; leydig; lichen; ligand; like; likely; limited; lines; lipoma; liposarcoma; literature; little; liver; lms; lns; lobe; lobular; localization; localized; location; long; loss; low; low expression; low grade; lower; luminal; lung; lung cancer; lung carcinoma; lung tissue; lupus; lymph; lymph node; lymphadenopathy; lymphatic; lymphocytes; lymphoid; lymphoma; lymphoma cases; lymphoproliferative; macrophages; magnetic; main; maintenance; majority; making; male; malformations; malignancies; malignant; malignant cells; malignant tumor; malt; mammary; management; mandatory; manifestation; mantle; marginal; margins; marked; markers; marrow; mass; masses; massive; mast; mast cells; material; matrix; maturation; mature; mcl; mean; measuring; mechanisms; median; mediastinal; medical; medicine; medium; melanocytic; melanoma; mellitus; membrane; membranous; meningioma; mesenchymal; mesenteric; mesothelioma; metabolic; metaplasia; metastases; metastasizing; metastatic; metastatic tumor; method; methylation; mfs; mgmt; mice; microarray; microenvironment; micropneumatosis; micrornas; microsatellite; microscopic; microvascular; microvessel; middle; mild; minimal; mir-21; mirnas; mismatch; mitoses; mitotic; mlh1; mm2; mmp-2; mmr; model; moderate; molecular; molecules; monoclonal; mononuclear; months; morphological; morphology; morphometric; mortality; moscow; mpc; mri; mrna; mscs; msh2; msh6; msi; mtap; mtc; mtor; muc1; mucinous; mucoepidermoid; mucosa; multifocal; multiple; multivariate; muscle; mutant; mutated; mutation; mvd; mvid; myc; myeloid; myocardial; myoepithelial; myofibroblastic; myofibroblastic tumor; myxoid; n=1; n=2; n=5; n=9; napsin; nasopharynx; national; ncam; necessary; neck; necrosis; necrotic; needle; needs; negative; negative breast; negative cases; negative results; negativity; neoadjuvant; neoplasm; neoplastic; neoplastic cells; nephrectomy; nephropathy; nerve; nervous; nests; network; neuroblastoma; neuroendocrine; neuronal; new; new method; nhl; nodal; node; nodular; nodules; non; noninvasive; normal; novel; novo; nsclc; nsclc patients; nuclear; nuclear expression; nuclei; nucleoli; nucleus; number; numerous; objective; observations; observed; obstruction; ofp-03; old; old male; old woman; oncocytic; oncogene; oncology; ones; onset; operation; optimal; order; organs; origin; osna; outcome; oval; ovarian; overall; overexpression; oxidative; p16; p27; p53; p53 expression; p63; p<0.001; p<0.05; pain; pakt; palpable; pancreas; pancreatic; panel; papillary; paraffin; parameters; parenchyma; parotid; parp-1; partial; particular; pas; past; pathogenesis; pathological; pathologists; pathology; pathology diagnosis; pathology results; pathway; patients; patológica; pattern; paulo; pca; pcr; pediatric; pelvic; percentage; performance; period; peripheral; phase; phenotype; phh3; phosphatase; physical; pi3k; pik3ca; pituitary; placentas; plasma; plasma cells; platform; pleomorphic; pleural; pneumonia; point; polygonal; polymerase; polymorphism; polypoid; polyps; poor; population; portal; porto; portugal objective; positive; positive cases; positive cells; positive expression; positive patients; positive tumor; positivity; possibility; possible; post; postmenopausal; postoperative; potential; practice; precancerous; predictive; predominance; preeclampsia; pregnancies; pregnancy; preliminary; preliminary results; prenatal; preoperative; presence; present; present study; presentation; pressure; prevalence; previous; primary; primary breast; primary tumor; primitive; prior; probe; problem; problematic; procedures; process; processes; profile; progesterone; prognostic; progression; project; proliferation; prominent; promising; promoter; properties; proportion; propria; prospective; prostate; prostate cancer; prostatectomy; prostatic; protein expression; proteins; protocol; psa; ptc; ptcs; pten; ptld; pulmonary; purpose; qrt; quality; quantification; quantitative; rabbit; rac1b; radiation; radical; radiological; radiotherapy; randomly; range; rare; rare case; rare disease; rate; rats; reaction; reactive; rearrangement; receiving; recent; receptor; receptor expression; recognition; records; recurrence; reduced; reduction; reference; region; regional; regulated; regulation; regulatory; relapse; related; relationship; relative; relevance; relevant; reliable; renal; renal cell; renal tumors; repair; replication; report; reported; reporting; reproducibility; republic; republic objective; research; resected; resection; residual; resistance; resolution; resonance; respectively; respiratory; response; responsible; results; retroperitoneal; retrospective; retrospective study; review; right; ring; ring cell; risk; rkip; role; romania objective; round; routine; rpa1; russia objective; s-100; s100; s3ko; salivary; samples; sampling; santos; sarcoma; sarcomatoid; scan; scar; scattered; scc; school; schwannoma; sclerosing; score; scoring; screening; sdc; second; secondary; sections; seen; semi; semiquantitative; sensitive; sensitivity; sentinel; sepsis; september; sequence; sequencing; sequential; series; serous; serum; severe; severity; sex; sft; share; sheets; shorter; showing; shows; signaling; signature; signet; significant; signs; similar; simple; single; sish; site; situ; size; skin; slides; slovakia objective; slow; small; small cell; smaller; smears; smoking; smooth; snail; sod; soft; software; solid; solitary; spaces; spain objective; special; specific; specificity; specimens; spectrum; spinal; spindle; spindle cells; spleen; splenic; sporadic; squamous; squamous cell; square; stable; stage; staging; staining; stains; standard; statistical; status; stem cells; step; stomach; stratification; stratified; stress; stromal; stromal cells; stromal tumor; strong; structures; studies; study; study group; subgroups; subjects; submucosal; subsequent; subset; subtypes; subtyping; suggestive; support; suppressor; surface; surgery; surgical; surgical pathology; survival; survivin; survivin expression; suspicious; swelling; switzerland objective; symptoms; synaptophysin; syndrome; synovial; system; systemic; são; target; targeted; technical; technique; term; terminal; test; testicular; testing; testis; testosterone; therapeutic; therapies; therapy; thickness; thin; thoracic; thymic; thyroid; thyroid carcinoma; time; timp-1; tissue; tle1; tma; tmprss2; tnbc; tnm; tomography; tool; total; tract; transcription; transformation; translocation; transmission; transplantation; transverse; trastuzumab; treatment; trend; triple; true; tsr; tuberculosis; tubular; tubules; tumor budding; tumor buds; tumor cases; tumor cells; tumor center; tumor features; tumor grade; tumor group; tumor growth; tumor markers; tumor progression; tumor samples; tumor size; tumor stage; tumor tissue; tumor types; tumoral; tumorigenesis; tumors; tumour; tunisia; turkey objective; type; ultrasonography; ultrasound; ultrastructural; ump; unclear; uncommon; underlying; understanding; underwent; undifferentiated; uniform; unique; united; univariate; university; unknown; unusual; upper; urethane; urinary; urothelial; urothelial carcinoma; usa; useful; uterine; uveal; v600e; valuable; value; variability; variable; variant; varied; variety; vascular; vasculitis; vegf; venous; ventricular; vessels; villi; villous; vimentin; viral; virus; volume; vs.; vulvar; wall; weak; weeks; weight; western; white; wide; wild; wilms; wistar; women; work; worse; wt1; wts; years; years old; yellow; yilmaz; young; younger; zone cache: cord-000718-7whai7nr.txt plain text: cord-000718-7whai7nr.txt item: #16 of 647 id: cord-000765-r7y1cqou author: Chang, Yu-Ming title: Functional Studies of ssDNA Binding Ability of MarR Family Protein TcaR from Staphylococcus epidermidis date: 2012-09-21 words: 5795 flesch: 46 summary: Moreover, to investigate possible pH effect of ssDNA binding activity of TcaR, a series of buffers with increasing pH were tested for their potential interfere in TcaR-ssDNA binding. In contrast, such ssDNA binding properties were not observed for other MarR family protein and TetR family protein, suggesting that the results from our studies are not an artifact due to simple charge interactions between TcaR and ssDNA. keywords: ability; activity; affinity; analysis; antibiotics; assay; association; aureus; bacteriophage; binding; biofilm; buffer; cell; chip; coli; complex; concentration; crystal; different; dna1; domain; effect; emsa; epidermidis; family; figure; formation; fragments; gc33; gc33 ssdna; hcl; helix; higher; icar; infection; interaction; locus; m13; marr; marr family; mechanism; min; multiple; nacl; negative; order; phage; plaque; probe; protein; rate; reaction; regulator; replication; repressor; resistance; results; rich; role; room; sar2349; single; specific; ssdna; staphylococcus; structure; surface; system; tcar; temperature; therapy; transcription; tris; usa; viral; wx174 cache: cord-000765-r7y1cqou.txt plain text: cord-000765-r7y1cqou.txt item: #17 of 647 id: cord-000826-nuwvge0t author: Nagels Durand, Astrid title: A MultiSite Gateway(TM )vector set for the functional analysis of genes in the model Saccharomyces cerevisiae date: 2012-09-20 words: 3890 flesch: 43 summary: One of the assets of MultiSite Gateway TM destination vectors is that any promoter of interest can be used, provided it is available as an entry clone flanked by attL4 and attR1 sites. However, to our knowledge no three-segment MultiSite Gateway TM pDEST vectors exist for S. cerevisiae to date. keywords: analysis; appropriate; arabidopsis; available; biology; cerevisiae; clones; cloning; codon; coli; collections; compatible; complex; constructs; destination; different; dna; entry; epitope; experimental; expression; figure; functional; fusions; gateway; gateway(tm; gene; high; interaction; invitrogen; jasmonate; jaz; model; molecular; multisite; multisite gateway; ninja; pcr; pdest; pentr; plant; present; promoter; protein; reaction; reading; recombination; research; segment; selection; set; single; sites; stop; system; tag; tags; terminal; throughput; tpl; translational; vectors; yeast cache: cord-000826-nuwvge0t.txt plain text: cord-000826-nuwvge0t.txt item: #18 of 647 id: cord-000830-jiy4cp4n author: Cobo, Fernando title: Application of Molecular Diagnostic Techniques for Viral Testing date: 2012-11-30 words: 7970 flesch: 35 summary: An international collaborative study to establish a World Health Organization international standard for hepatitis B virus DNA nucleic acid amplification techniques The clinical implications of hepatitis B virus genotype: recent advances Hepatitis C virus RNA assays: current and emerging technologies and their clinical applications Identifying women with cervical neoplasia: Using human papillomavirus DNA testing for equivocal Papanicolaou results Declared none. Both ligated products can then serve as templates for the next reaction cycle, leading to an exponential amplification process similar to PCR amplification. keywords: acid; adenovirus; advantages; amplification; analysis; application; area; array; assays; available; b19; bdna; capture; cerebrospinal; chain; clinical; cmv; cns; comparison; contamination; conventional; cost; csf; culture; cycling; detection; development; diagnosis; different; disease; dna; ebv; fluid; genotypes; hcv; hepatitis; herpes; high; hiv; hpv; hsv; human; hybridization; infection; influenza; introduction; isothermal; laboratories; laboratory; lamp; load; loop; main; methods; molecular; monitoring; multiplex; nucleic; nucleic acid; number; oligonucleotide; parvovirus; patients; pcr; plasma; polymerase; primers; probe; product; quantification; quantitative; range; rapid; reaction; real; respiratory; results; reverse; rna; samples; sensitive; sensitivity; sequence; signal; simplex; single; specific; specificity; specimens; system; target; techniques; technology; testing; tests; therapy; time; time pcr; transcription; type; useful; viral; virology; virus; viruses; work cache: cord-000830-jiy4cp4n.txt plain text: cord-000830-jiy4cp4n.txt item: #19 of 647 id: cord-000865-rrscfo33 author: Hu, Tingsong title: Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD) date: 2012-12-27 words: 3791 flesch: 49 summary: Getah virus, belonging to the family Togaviridae in the genus Alphavirus, is a mosquito-borne enveloped RNA virus that was identified using the Virus-Discovery-cDNA RAPD (VIDISCR) method. Getah virus (GETV) is a mosquito-borne enveloped RNA virus belonging to the Semliki Forest virus (SFV) complex in the genus Alphavirus keywords: 3'-utr; acid; alphaviruses; alpv_m1; analysis; brain; capsid; cdna; china; dna; figure; fragments; gene; genome; getah; getv; getv_m1; hb0234; hebei; identification; identity; isolates; malaysia; method; mice; min; mm2021; molecular; mosquitoes; new; non; novel; nsp3; nucleic; nucleotide; pcr; phylogenetic; primers; protein; protein gene; random; rapd; rna; sequence; species; strain; structural; study; suckling; supernatant; table; technique; unknown; vidiscr; virus; viruses; yn0540; yn08 cache: cord-000865-rrscfo33.txt plain text: cord-000865-rrscfo33.txt item: #20 of 647 id: cord-000937-8vk89i4h author: Law, John title: Identification of Hepatotropic Viruses from Plasma Using Deep Sequencing: A Next Generation Diagnostic Tool date: 2013-04-17 words: 6656 flesch: 45 summary: To a lesser extent (about one read per million), we also detected sequences resembling RNA viruses in our DNA libraries (Supplemental Tables S15-S28 ). This may represent alignment inaccuracies or stretches of unknown DNA viruses that resemble RNA viruses. keywords: abundant; acids; acute; additional; aih; aihp01; alignments; amino; assembly; bacteria; blastx; cases; cell; chronic; circovirus; classified; concentrated; coverage; database; detection; diagnosis; different; discovery; disease; dna; ends; figure; gbv; genome; giant; hbv; hcv; hepatitis; hhblits; high; hits; human; identification; infection; kit; large; length; libraries; library; liver; metagenomic; mimivirus; mitochondrial; nash; ncldv; new; ngs; non; novel; number; patients; pcr; phage; plasma; pooled; presence; primers; proteins; qiagen; quality; query; read; ribosomal; rna; samples; scaffolds; sequences; sequencing; serum; similarity; single; small; soapdenovo; species; supplemental; syndrome; tables; target; taxon; ttv; unknown; value; viral; virome; viruses cache: cord-000937-8vk89i4h.txt plain text: cord-000937-8vk89i4h.txt item: #21 of 647 id: cord-000988-79fp75u3 author: Al-Siyabi, Turkiya title: A cost effective real-time PCR for the detection of adenovirus from viral swabs date: 2013-06-07 words: 6262 flesch: 38 summary: Secondly, the performance characteristics of homogenization may vary between PCR assays and should not be implemented without proper validation [27] . As expected, virus culture-positive specimens had positive PCR results with low Cp values, whereas the virus culture-negative specimens had PCR-positive results with Cp values greater than 30 keywords: 14p1; acid; acid extraction; adenovirus; amplification; analysis; analytical; assay; canada; cases; cdha; cell; clinical; commercial; comparison; control; copies; cost; culture; detection; dilutions; dna; effective; equivalent; extraction; figure; fold; gene; hadv; heat; homogenization; house; house real; human; infections; inhibition; internal; kit; laboratory; lod; method; microbiology; molecular; naats; negative; nucleic; nucleic acid; pcr; performance; positive; primers; probes; processing; protocol; reaction; real; respiratory; results; sensitivity; sequences; species; specificity; specimens; study; swabs; table; tcid; testing; time; time pcr; treatment; type; utm; values; viral; virus; virus culture cache: cord-000988-79fp75u3.txt plain text: cord-000988-79fp75u3.txt item: #22 of 647 id: cord-001072-pjv3wy80 author: Hong, Xiaoyun title: Dissolving and biodegradable microneedle technologies for transdermal sustained delivery of drug and vaccine date: 2013-09-04 words: 4120 flesch: 31 summary: key: cord-001072-pjv3wy80 authors: Hong, Xiaoyun; Wei, Liangming; Wu, Fei; Wu, Zaozhan; Chen, Lizhu; Liu, Zhenguo; Yuan, Weien title: Dissolving and biodegradable microneedle technologies for transdermal sustained delivery of drug and vaccine date: 2013-09-04 journal: Drug Des Devel Ther DOI: 10.2147/dddt.s44401 sha: doc_id: 1072 cord_uid: pjv3wy80 Microneedles were first conceptualized for drug delivery many decades ago, overcoming the shortages and preserving the advantages of hypodermic needle and conventional transdermal drug-delivery systems to some extent. 8 Microneedle technologies, which were first conceptualized for drug delivery many decades ago, overcome the shortages and preserve the advantages of hypodermic needles and conventional transdermal drug-delivery systems to some extent. keywords: administration; application; arrays; barrier; biodegradable; body; combination; current; delivery; different; dissolving; dna; drug; drug delivery; effects; et al; fabrication; figure; gene; high; hormone; hydrogel; immune; insulin; intradermal; itp; kinetics; large; layer; long; low; macromolecules; matrix; methods; microneedles; microparticles; model; mold; molecules; patient; plexus; plga; polymer; polymeric; potential; proteins; release; review; situ; size; skin; solution; structures; sugar; surface; sustained; system; technologies; temperature; time; tips; tissue; transdermal; use; vaccination; vaccine; vacuum cache: cord-001072-pjv3wy80.txt plain text: cord-001072-pjv3wy80.txt item: #23 of 647 id: cord-001090-qg2r691d author: Twin, Jimmy title: The Potential of Metatranscriptomics for Identifying Screening Targets for Bacterial Vaginosis date: 2013-09-27 words: 3948 flesch: 37 summary: Overall, this library consisted of 72826 (93%) bacterial reads, 3865 (4.9%) human reads and 34 (0.04%) either plastid, fungal or viral reads (Table 1) . The metagenomics RAST server -a public resource for the automatic phylogenetic and functional analysis of metagenomes Study of inter-and intra-individual variations in the salivary microbiota Interactive metagenomic visualization in a Web browser Changes in vaginal bacterial concentrations with intravaginal metronidazole therapy for bacterial vaginosis as assessed by quantitative PCR Detection of bacterial vaginosis-related organisms by real-time PCR for Lactobacilli, Gardnerella vaginalis and Mycoplasma hominis Comparative assessment of human and farm animal faecal microbiota using real-time quantitative PCR Diversity of cervicovaginal microbiota associated with female lower genital tract infections Inverse association of H 2 O 2 -producing lactobacilli and vaginal Escherichia coli colonization in women with recurrent urinary tract infections Broadrange bacterial detection and the analysis of unexplained death and critical illness Stata Statistical Software: Release 12 Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria Evidence for a commensal, symbiotic relationship between Gardnerella vaginalis and Prevotella bivia involving ammonia: potential significance for bacterial vaginosis Prevotella amnii sp. keywords: 16s; abundances; active; amnii; amplicon; amplification; analysis; association; bacterial; bacterium; cdna; clinical; content; data; dna; fusobacterium; gene; genus; high; human; library; life; megasphaera; metatranscriptomics; microbial; microbiota; nucleatum; nugent; oral; periodontal; potential; present; prevotella; primers; qpcr; rast; reads; relative; ribosomal; rrna; sample; score; screening; sequences; sequencing; sex; single; species; spp; studies; study; table; targets; technologies; total; usa; vaginal; vaginalis; vaginosis; women cache: cord-001090-qg2r691d.txt plain text: cord-001090-qg2r691d.txt item: #24 of 647 id: cord-001111-qqmj4v0u author: Liu, Chengyu title: Strategies for Designing Transgenic DNA Constructs date: 2013-03-08 words: 8126 flesch: 41 summary: Therefore, BAC clones are not only good for overexpressing native genes, but they also can be used to drive reporter gene or modi fi ed gene expression. A method for the generation of YAC transgenic mice by pronuclear microinjection Human arti fi cial chromosomes generated by modi fi cation of a yeast arti fi cial chromosome containing both human alpha satellite and single-copy DNA sequences In vivo and in vitro expression of human serum albumin genomic sequences in mammary epithelial cells with beta-lactoglobulin and whey acidic protein promoters Predominant transgene expression in exocrine pancreas directed by the CMV promoter speci fi c gene expression in both embryonic and adult transgenic mice Toward a new cash cow Production of bioproducts through the use of transgenic animal models Transgenic farm animals: an update Zona pellucida glycoprotein mZP3 produced in milk of transgenic mice is active as a sperm receptor, but can be lethal to newborns Reporter molecules in genetically engineered mice Transgenic expression of green fl uorescence protein can cause dilated cardiomyopathy Is green fl uorescent protein toxic to the living cells? keywords: absence; activity; animals; approach; arti; available; bac; bacs; cassette; cell; chromosomal; cial; cient; clones; cloning; cmv; conditional; constructs; control; cre; different; dna; ef fi; effects; elements; endogenous; entire; environment; epigenetic; expression; fi c; flp; function; fusion; gene; gene expression; generation; genome; genomic; good; human; important; inducible; integration; knockdown; knockout; large; lines; loxp; mammalian; method; mice; microinjection; models; modi; mouse; mouse lines; mrna; multiple; mutant; native; new; pattern; phenotype; plasmid; polymerase; position; promoter; protein; recombinase; recombination; region; reporter; research; results; rna; rtta; sequences; sirna; site; speci; speci fi; stop; systems; tamoxifen; tetracycline; tissue; transcription; transgene expression; transgenic; transgenic mice; types; ubiquitous; uorescent; useful; vector; vivo cache: cord-001111-qqmj4v0u.txt plain text: cord-001111-qqmj4v0u.txt item: #25 of 647 id: cord-001254-y2knt8g0 author: Parkhomenko, Taisiya A. title: Comparison of DNA-Hydrolyzing Antibodies from the Cerebrospinal Fluid and Serum of Patients with Multiple Sclerosis date: 2014-04-15 words: 6771 flesch: 46 summary: An additional question is why there is no good correlation between various indexes, characterizing different MS patients. Recently we have shown that IgGs from the sera of MS patients are active in the hydrolysis of DNA. keywords: abs; abzymes; active; activities; activity; affinity; analysis; anti; antibodies; autoimmune; average; basic; case; catalytic; cells; cerebrospinal; clinical; columns; concentration; conditions; correlation; course; csf; csfs; different; diseases; dna; dna abs; dnase; dnase activity; enzymes; fig; fluid; fold; functions; gel; hcl; healthy; higher; human; hydrolysis; hydrolyzing; iggs; intrinsic; kda; lower; major; mix; ms patients; multiple; myelin; patients; preparations; protein; range; ras; relative; samples; sclerosis; sds; sepharose; sera; serum; specific; standard; study; system; table; time; total; total iggs; total protein; units; values cache: cord-001254-y2knt8g0.txt plain text: cord-001254-y2knt8g0.txt item: #26 of 647 id: cord-001406-huz0tpmi author: Kersting, Sebastian title: Multiplex isothermal solid-phase recombinase polymerase amplification for the specific and fast DNA-based detection of three bacterial pathogens date: 2014-02-18 words: 4675 flesch: 37 summary: Specific enzymatic amplification of DNA in vitro: the polymerase chain reaction PCR-based diagnostics for infectious diseases: uses, limitations, and future applications in acute-care settings Microfluidic DNA amplification-a review Nucleic acid isothermal amplification technologies: a review Loop-mediated isothermal amplification of DNA Helicase-dependent isothermal DNA amplification Strand displacement amplification-an isothermal, in vitro DNA amplification technique Mutation detection and single-molecule counting using isothermal rolling-circle amplification Isothermal nucleic acid amplification technologies for point-of-care diagnostics: a critical review Preparation of DNA nanostructures with repetitive binding motifs by rolling circle amplification DNA detection using recombination proteins Rapid detection of HIV-1 proviral DNA for early infant diagnosis using recombinase polymerase amplification Recombinase polymerase amplification assay for rapid detection of francisella tularensis A new approach for diagnosis of bovine coronavirus using a reverse transcription recombinase polymerase amplification assay Recombinase polymerase amplification assay for rapid detection of Rift Valley fever virus Development of a panel of recombinase polymerase amplification assays for detection of biothreat agents Digital isothermal quantification of nucleic acids via simultaneous chemical initiation of recombinase polymerase amplification reactions on SlipChip A paper and plastic device for performing recombinase polymerase amplification of HIV DNA Microfluidic lab-on-a-foil for nucleic acid analysis based on isothermal recombinase polymerase amplification (RPA) A phaseguided passive batch microfluidic mixing chamber for isothermal amplification Real-time, label-free isothermal solid-phase amplification/detection (ISAD) device for rapid detection of genetic alteration in cancers DNA microarrays Functional peptide microarrays for specific and sensitive antibody diagnostics Oligonucleotide microarrays in microbial diagnostics Reverse transcription-polymerase chain reaction on a microarray: the integrating concept of active arrays Helicase dependent OnChip-amplification and its use in multiplex pathogen detection SNP genotyping by multiplexed solid-phase amplification and fluorescent minisequencing AutoDimer: a screening tool for primer-dimer and hairpin structures Combined instruction manual Molecular and functional characterization of the Salmonella invasion gene invA: homology of InvA to members of a new protein family Isolation of Neisseria gonorrhoeae mutants that show enhanced trafficking across polarized T84 epithelial monolayers Purification and characterization of PCR-inhibitory components in blood cells Acknowledgments Similar sensitivities of 10 copies (S.enterica and plasmid control) or 100 copies (N. gonorrhoeae) can be achieved with other RPA amplification used in this approach. keywords: acid; amplification; analysis; assay; aureus; background; buffer; care; chamber; chip; chip rpa; combination; control; copies; detection; diagnostic; dna; enterica; experiments; fig; genomic; germany; gonorrhoeae; high; hybridization; immobilized; isothermal; lod; low; material; microarray; min; multiplex; necessary; neisseria; nucleic; oligonucleotide; pathogens; pcr; phase; point; polymerase; primer; probes; product; reaction; recombinase; results; reverse; rpa; salmonella; samples; sequence; signal; single; solid; solution; specific; specificity; staphylococcus; strand; supplementary; surface; target; techniques; temperature; testing; time; use cache: cord-001406-huz0tpmi.txt plain text: cord-001406-huz0tpmi.txt item: #27 of 647 id: cord-001484-va0teako author: Ahmed, Sarah A. title: Rapid Identification of Black Grain Eumycetoma Causative Agents Using Rolling Circle Amplification date: 2014-12-04 words: 2925 flesch: 44 summary: Ligation conditions were: 5 min denaturation at 94uC, followed by 7 cycles of 94uC for 30 sec, 63uC for 4 min, and final cooling at 10uC. Prior to RCA amplification reaction and in order to reduce the ligation-independent amplification, ligation products were treated by addition of 10 U exonucleases I and 10 U exonucleases III (New England Biolabs, Hitchin, U.K.) with a final volume of 20 ml. RCA amplification reaction was performed in a 50 ml mixture containing; 2 ml ligation product, 8 U Bst DNA polymerase (New England Biolabs), 10 pmol of each RCA primer (Table 2) , and 400 mM dNTP mix. keywords: agents; amplification; black; causative; circle; cost; detection; diagnosis; dna; fahalii; fig; fungal; gel; grain; high; identification; isolates; isothermal; ligation; low; madurella; method; min; mixture; molecular; mycetoma; mycetomatis; padlock; pcr; polymerase; positive; probes; rapid; rca; reaction; region; results; rolling; sequences; simple; species; specific; strains; study; table; target; time; tropical; use cache: cord-001484-va0teako.txt plain text: cord-001484-va0teako.txt item: #28 of 647 id: cord-001537-i34vmfpp author: Lima, Francisco Esmaile de Sales title: Genomic Characterization of Novel Circular ssDNA Viruses from Insectivorous Bats in Southern Brazil date: 2015-02-17 words: 3883 flesch: 46 summary: Sequence analyses were performed with the BLASTX software (http://www.ncbi.nlm.nih.gov/blast/). Pan-reactive primers were used targeting the conserved rep region of circoviruses and cycloviruses to screen DNA bat fecal samples. keywords: acid; amino; analysis; attic; avian; batcv; bats; brazilian; cap; circoviridae; circoviruses; circular; clade; classification; conserved; cyclovirus; detection; disease; distinct; diversity; dna; family; fecal; feces; fig; genomes; genus; high; human; identification; identity; igr; insectivorous; invitrogen; level; loop; major; members; new; novel; orfs; pcr; phylogenetic; poa; porcine; present; protein; reaction; recent; region; related; rep; replication; samples; sequences; sequencing; species; ssdna; study; viral cache: cord-001537-i34vmfpp.txt plain text: cord-001537-i34vmfpp.txt item: #29 of 647 id: cord-001677-p6ikd8ns author: Hansra, Satyender title: Exploration of New Sites in Adenovirus Hexon for Foreign Peptides Insertion date: 2015-05-29 words: 2935 flesch: 45 summary: In order to access new sites in hAd5 hexon, tailored for the incorporation of foreign peptide sequences, we genetically inserted a 15 amino acid (aa) residue peptide into HVR7, HVR8 or HVR9 region of the hAd5 hexon. Peptide sequence corresponding to the PRRSV epitope is underlined. keywords: ad5hvr7epb; adenovirus; antibody; antigen; binding; capsid; cells; different; dna; encoding; epitope; expression; fig; foreign; fragment; gene; had5; hek; hexon; hvr8; hvrs; incorporation; insertion; neutralizing; new; pcr; peptide; ph5r; primers; protein; prrsv; puc; recombinant; region; sequence; sites; specific; strategy; study; surface; vaccine; vectors; viral; virion; viruses cache: cord-001677-p6ikd8ns.txt plain text: cord-001677-p6ikd8ns.txt item: #30 of 647 id: cord-001732-4eyn7pjq author: Riede, O title: Preclinical safety and tolerability of a repeatedly administered human leishmaniasis DNA vaccine date: 2015-04-30 words: 6343 flesch: 43 summary: Considerations for Plasmid DNA Vaccines for Infectious Disease Indications WHO Annex 1: Guidelines for assuring the quality and non-clinical safety evaluation of DNA vaccines Toxicological safety evaluation of DNA plasmid vaccines against HIV-1, Ebola, Severe Acute Respiratory Syndrome, or West Nile virus is similar despite differing plasmid backbones or gene-inserts Biodistribution of DNA plasmid vaccines against HIV-1, Ebola, Severe Acute Respiratory Syndrome, or West Nile virus is similar, without integration, despite differing plasmid backbones or gene inserts Clinical applications of DNA vaccines: current progress CPMP/BWP/3088/99: Note for guidance on the quality, preclinical and clinical aspects of gene transfer medicinal products Marker-free plasmids for biotechnological applicationsimplications and perspectives DNA immunisation with minimalistic expression constructs Silencing of episomal transgene expression by plasmid bacterial DNA elements in vivo Minicircle DNA is superior to plasmid DNA in eliciting antigen-specific CD8+ T-cell responses Priming of immune responses to hepatitis B surface antigen with minimal DNA expression constructs modified with a nuclear localization signal peptide Effect of different nuclear localization sequences on the immune responses induced by a MIDGE vector encoding bovine herpesvirus-1 glycoprotein D Intratumoral dispersion, retention, systemic biodistribution, and clearance of a small-size tumor necrosis factor-alpha-expressing MIDGE vector after nonviral in vivo jetinjection gene transfer Combination of MIDGE-Th1 DNA vaccines with the cationic lipid SAINT-18: Studies on formulation, biodistribution and vector clearance ModulaR In addition, CD4 T cells and B cells are activated by DNA vaccines. keywords: administration; animals; antibodies; antigen; balb; biodistribution; blood; body; burden; c57bl/6; candidate; cell; clinical; copies; copy; data; days; dna; donovani; dose; dsdna; evaluation; experiments; expression; figure; gene; geometric; germany; groups; host; human; i.d; immune; infected; injection; integration; intervals; leishdnavax; leishmania; leishmaniasis; lymph; mean; mice; midge; naive; nodes; numbers; organs; parameters; parasite; pbs; persistence; plasmid; plates; positive; post; preclinical; quantitative; rats; responses; results; safety; samples; serum; significant; similar; single; site; skin; specific; standard; studies; study; test; th1; times; tissue; tolerability; total; toxicity; treatment; trials; vaccine; vector; vector dna; volume; weekly; weight cache: cord-001732-4eyn7pjq.txt plain text: cord-001732-4eyn7pjq.txt item: #31 of 647 id: cord-001761-yvd1n42f author: Yoshimura, Takeo title: Controlled Microwave Heating Accelerates Rolling Circle Amplification date: 2015-09-08 words: 4437 flesch: 43 summary: Moreover, RCA reactions containing a 4-fold excess concentration of the Bst-LF were accelerated by conventional as well as microwave heating. The objectives of the present research were to apply microwave heating to RCA and indicate factors that contribute to the microwave selective heating effect. keywords: amplification; applicator; bst; buffer; circle; components; concentration; control; conventional; dna; effect; excess; fig; fluorescence; fold; free; hcl; heating; increase; irradiation; kcl; mgso; microwave; min; mixture; pcr; polymerase; power; primers; rca; reaction; rnase; rolling; selectivity; study; synthesis; temperature; template; thermopol; thermostable; tris; water; ° c cache: cord-001761-yvd1n42f.txt plain text: cord-001761-yvd1n42f.txt item: #32 of 647 id: cord-001835-0s7ok4uw author: None title: Abstracts of the 29th Annual Symposium of The Protein Society date: 2015-10-01 words: 138771 flesch: 38 summary: In conclusion, the analysis of hydropathic environments strongly suggests that the orientation of a residue in a three-dimensional structure is a direct consequence of its hydropathic environment, which leads us to propose a new paradigm, interaction homology, as a key factor in protein structure. In computer simulation modeling of protein structure in a solvent medium, explicit, implicit, effectivemedium, approaches are often adopted to incorporate the effects of solvation. keywords: 1,2; aat; absence; abstract; abundant; accelerated; access; accessible; account; accumulation; accuracy; accurate; acid; acid sequence; acidic; activation; active; active site; activities; activity; acts; adaptation; adaptor protein; addition; adhesion; adjacent; advanced; advantages; affimers; affinities; affinity; afps; agents; aggregates; agreement; aid; aif; aim; aims; aldehyde; algorithm; alignments; allosteric; alpha; altered; alternative; alzheimer; amide; amino; amino acid; amounts; amyloid; amyloidogenic; amyloidosis; analysis; analytical; ancestral; ancestral protein; angle; annotation; antibiotics; antibodies; antibody; antigen; antimicrobial; apoptosis; apparent; applications; applied; approach; aqueous; architecture; area; aromatic; arrangement; artificial; artificial protein; asn; aspects; assay; assembly; associated; atomic; atoms; atp; attempts; attractive; available; b domain; b2gpi; bacillus; backbone; background; bacterial; barrel; barrel proteins; barrier; basis; behavior; best; beta; better; biased; bilayer; binders; binding; biochemical; biochemistry; bioinformatics; biological; biology; biomedical; biomolecular; biopanning; biophysical; biosynthesis; biotechnology; bis; blocks; blood; bonds; bovine; box; bp1; bphp1; bpti; brain; breast; bret; bridges; broad; brucei; bsfnr; buffer; building; bundle; ca21; cabs; calcium; calculated; calculations; california; calorimetry; cancer; candidate; canonical; capable; capacity; capture; carbohydrate; carbon; cases; caspase; catalysis; catalytic; catalytic activity; catalytic domain; catalyze; cationic protein; cause; cavity; cbs; cdc42; cdna; cell; cell membrane; cellular; cellular proteins; center; central; centre; cerevisiae; certain; chain; challenges; challenging; changes; channel; chaperones; characteristics; characterization; characterized; charged; chemical; chemistry; chilensis; chimeric; chip; chitinase; cholesterol; choline; chromatin; chromatography; chromophore; circular; cis; class; classical; cleavage; clinical; clock; close; clustering; clusters; cml14; coarse; cofactor; coil; cold; coli; collagen; column; combination; combined; common; communication; comparable; comparison; complementary; complete; complex formation; complex structure; complexes; components; composition; compounds; comprehensive; computational; computational protein; computer; concentrated; concentration; concept; conclusion; conditions; conformational; conformational changes; conjugates; consensus; consequence; conservation; conserved; considerable; consistent; constants; construct; contacts; context; continuous; contrast; contribution; control; conventional; conversion; cooperative; cooperativity; coordination; copper; core; correct; correlated; correlation; corresponding; cortisol; cost; coupling; covalent; critical; cross; crowding; crucial; crystal; crystal structure; crystallization; crystallography; csic; culture; current; cw_7; cycle; cys; cysteine; cytochrome; cytoplasmic; cytosol; cytotoxicity; d2r; damage; dark; data; database; dataset; david; death; decrease; degree; degrons; dehydrogenase; deletion; delivery; denaturation; density; department; dependent; dept; description; designing; designs; detailed; details; detection; detergent; determinants; determination; determined; developed; development; dhrs7; diabetes; diagnosis; diameter; dichroism; diego; differences; different; different protein; differential; difficult; diffusion; dimensional; dimensional structure; dimer; dimeric; dimerization; direct; discovery; disease; disordered; disordered proteins; display; dissociation; distance; distant; distinct; distribution; disulfide; diverse; dj-1; dna; docking; domain; domain interactions; domain structure; dominant; double; downstream; drug; dxt; dye; dynamical; e.coli; e.g.; early; effect; effective; efficacy; efficiency; efforts; egfr; eif4e; electron; electrophoresis; electrostatic; elements; elisa; emission; enable; encoding; endogenous; energy; enhanced; ensemble; enthalpy; entire; entropy; entry; envelope protein; environment; enzymatic; enzyme; enzyme activity; epitope; equilibrium; erf1; erk; escherichia; essential; essential protein; etc; eukaryotic; events; evidence; evolutionary; evolved; example; excellent; exchange; exclusion; exhibit; experiments; explicit; expressed; expression; extant; extended; extensive; extraction; factors; fad; family; far; fast; fatty; fbp17; features; fermentation; fibers; fibrillar; fibrillation; fibrils; fibrin; fibrinogen; fiia; final; findings; fish; fitness; fkbp12; flexibility; flexible; flow; fluctuations; fluorescence; fluorescent protein; focus; following; food; for20; force; formation; forms; foundation; foxp1; fraction; fragments; free; fret; ftir; functional; fundamental; fungal; fungi; fusion; fusion proteins; future; fxiiia; g protein; g6pd; gag; gain; gel; gene; general; generated; generation; genetic; genome; genomic; geometries; geometry; gfp; global; globular; globular protein; glucose; glycoprotein; goal; golgi; good; gp120; gp74; gpcr; gracilaria; graduate; grant; grd; great; greater; green; groel; group; growth; gtp; hairpin; half; hand; hcv; health; heat; helical; helices; helix; help; heme; hfen1; hiapp; hiat; high; high affinity; higher; highest; highly; hinge; histidine; histone; hits; hiv; hnh; hnp; homeostasis; homologous; homologous proteins; homology; hormone; host; hplc; hsp70; htra3; human; human protein; huntingtin; hydrogen; hydrolase; hydrolysis; hydropathic; hydrophobic; hydrophobicity; hydroxylation; hypothesis; hypoxia; identical; identification; igg; iii; imaging; immobilized; immune; impact; important; improved; inactive; incorporation; increase; incubation; individual; induced; industrial; infection; inflammatory; influence; influenza; inhibited; inhibition; inhibitors; initial; initiation; initio; insertion; inside; insights; institute; integral; intensity; interacting; interactome; interest; interfaces; intermediates; intermolecular; internal; intracellular; intrinsic; introduction; investigation; involved; isobutene; isoforms; isolated; isolation; isothermal; itc; iterative; kcat; kcne3; kcnq1; kda; key; kinetic; knowledge; known; kunitz; kurozu; laboratory; laccases; lack; lacking; larfh; large; leading; leads; ledgf; length; length protein; leukocyte; level; libraries; library; life; ligand; ligand binding; light; like; like protein; likely; limitations; limited; linear; lines; linker; linking; lipase; lipid; liposomes; lippi12; literature; little; liver proteins; living; local; localization; long; longer; loop; loss; low; lower; lupin; lysine; lysozyme; machinery; macromolecular; magnetic; major; majority; mammalian; manner; mapping; mass; materials; matrix; means; measurements; mechanism; mechanistic; medicine; medium; members; membrane protein; membranes; metabolism; metal; method; methodology; methyl; mice; micelles; microorganisms; microscopy; microtubule; migration; milk; minimal; minor; misfolding; mitochondrial; mixing; mobile; mobility; model; model protein; modeling; modern; modification; modified; modular; modulate; modulation; modulators; modules; moiety; molecular; molecular dynamics; molecular function; molecular interactions; molecular mechanism; molecules; molten; monitoring; monoclonal; monomer; monomeric; moonlighting proteins; motif; motions; mouse; mrna; multiple; muscle; mutagenesis; mutant; mutated; mutations; myoglobin; nad1; nadph; nano; nanodiscs; nanoparticles; nascent; national; native; native protein; native structure; natural; natural protein; nature; near; necessary; need; negative; network; neurodegenerative; neuronal; neurons; neutral; new; new protein; nmr; nmr structure; non; novel; novo; npc; ns5a; nsh2; nth1; nuclear; nucleotide; nucleus; number; numerous; observations; observed; occurring; odc; oligomerization; oligomers; oligonucleotide; ongoing; open; optimization; order; organic; organisms; organization; orientation; origin; ornithine; outer; overall; overexpression; oxidation; oxidative; oxidized; oxygen; p10; p110a; p2x7r; p75; p85; page; pain; parallel; parameters; parasite; parkinson; partial; particles; particular; partitioning; partners; past; pathogenesis; pathogenic; pathological; pathways; patients; patterns; pbs; pcr; pdb; pdc; people; peptide; peptidoglycan; performance; permeability; pfxiii; pgds; pharmaceutical; phase; phenotype; phenylalanine; phosphate; phosphorylation; physicochemical; physics; physiological; place; plants; plasma; plasmid; plasmon; platform; platinum; pocket; point; polar; polii; polymerase; polymerization; polypeptide; polyq; polyubiquitin; pool; poorly; pore; porphyrin; position; positive; possibility; possible; possible protein; post; potency; potential; powerful; ppis; precise; prediction; preliminary; prepared; presence; present; pressure; previous; primary; prior; prmt1; probe; problem; procedure; process; processes; processing; products; profile; program; progress; project; proline; promising; promoter; propensity; properties; proposed; protease; protective; protein; protein activation; protein activity; protein aggregation; protein arginine; protein assembly; protein association; protein backbone; protein capsules; protein chain; protein chemistry; protein coatings; protein complex; protein concentration; protein conformation; protein core; protein crystallization; protein crystallography; protein data; protein degradation; protein design; protein domain; protein dynamics; protein engineering; protein environment; protein evolution; protein expression; protein families; protein folding; protein fragments; protein function; protein helices; protein inhibitor; protein interactions; protein interface; protein kinases; protein ligation; protein mass; protein modification; protein molecules; protein network; protein pairs; protein partners; protein phosphatase; protein plasticity; protein production; protein quality; protein recognition; protein responsible; protein scaffolds; protein science; protein sequences; protein specific; protein stability; protein structure; protein substrates; protein surface; protein switches; protein synthesis; protein systems; protein turnover; protein tyrosine; protein variants; proteins protein; proteolysis; proteome; proteomic; protocol; proton; provide; proximal; proximity; psgk; psm; ptks; ptth; pure; purification; purified; purpose; putative; quantitative; quantum; quaternary; quercetin; rad18; random; range; rapid; ray; rdrp; reaction; reactive; recent; receptor; receptor protein; recognition; recombinant protein; recruitment; redox; reduced; reducing; reductase; refolding; region; regulated; regulation; regulatory; related; relationship; relative; relaxation; release; relevance; relevant; remarkable; repair; repeat proteins; repeats; replacement; replication; reported; reporter protein; research; residues; resistance; resonance; respect; respiratory; response; responsible; restricted; results; retention; retinal; reverse; reversible; rha; rhodopsin; ribosome; rich; rigid; rna; rnase; robust; role; rosetta; rounds; rpfnr; salt; samples; san; sardine; saxs; scaffold; scale; scanning; scattering; scfv; school; science; scoring; screening; sds; searches; secondary; secondary structure; sedimentation; seeds; selected; selection; selective; selectivity; self; sensitive; sensitivity; sensor; sensor proteins; sequence; sequencing; sequential; series; serine; serpin; server; set; sets; severe; sg proteins; sh2; sh3; shape; sheet; shift; shock protein; short; shows; sigma; signal; signaling; significant; silico; silkworm; similar; similarities; similarity; simple; simulations; single; single protein; site; size; slc; slow; small; small protein; smash; sn-38; snare; snare proteins; sod1; sodium; software; solid; solubility; soluble; solution; solution structure; solvation; solvent; sortase; source; sp1; space; spatial; species; specific; specificity; spectra; spectrometry; spectroscopy; spectrum; spr; src; ssdna; stabilities; stability; stabilized; stable; stable protein; starch; starting; state; statistical; step; stm; strains; strand; strategies; strategy; strength; stress; strong; structural; structural analysis; structural biology; structural changes; structural characterization; structural information; structural studies; structure prediction; studies; study; subdomain; subsequent; subset; substrate; subunit; successful; sufficient; suitable; superfamily; support; surface; survival; swapping; symmetric; synthase; synthesis; synthetic; synuclein; system; tags; tandem; target; target protein; targeted; targeting; tau protein; techniques; technology; temperature; template; tendency; terminal; terminal domain; termini; terminus; terms; tertiary; tertiary structure; tested; theoretical; theory; therapeutic; thermal; thermodynamic; thrombin; throughput; tif2; time; tims; tissues; titration; tof; tool; topology; torso; total; toxic; toxicity; toxins; traditional; trafficking; transcription; transduction; transfer; transformation; transient; transition; translational; translocation; transmembrane; transmembrane protein; transport; treatment; triggers; trimer; triple; trp; trypsin; tryptophan; ttr; tubulin; tumor; turn; type protein; types; typical; ubiquitin; ubiquitous; uch; ultracentrifugation; umpase; unbound; unclear; underlying; understanding; understood; unfolded; unfolding; unique; universidad; university; unknown; unstructured; uptake; urea; use; useful; uses; vaccine; valuable; values; variability; variable; variants; variation; variety; vector; venom; view; viral; virus; vitro; vivo; voltage; volume; vpg; wall; water; weak; weight; western; wh1; wide; wild; work; world; years; yeast; yield; zearalenone; zinc; zn21; ımica cache: cord-001835-0s7ok4uw.txt plain text: cord-001835-0s7ok4uw.txt item: #33 of 647 id: cord-001859-d62iuk72 author: Baquero-Pérez, Belinda title: Hsp70 Isoforms Are Essential for the Formation of Kaposi’s Sarcoma-Associated Herpesvirus Replication and Transcription Compartments date: 2015-11-20 words: 16053 flesch: 44 summary: This highlights the remarkable stability of Hsc70 protein in this cell line and it suggests that Hsc70 depletion was enough to cause a reduction in viral transcripts but not enough to cause a reduction in the amount of viral proteins, thus KSHV lytic replication remained unaffected. Hsc70 protein was equally distributed between the cytoplasm and nucleus of unreactivated cells in a fine punctuate pattern (Fig 2Ai) . keywords: acd; activity; addition; adjacent; alexa; analysis; anti; antibodies; antibody; arrows; assay; assembly; associated; atpase; bcbl1; biological; cells; cellular; chaperone; chromatin; concentrations; confocal; contrast; control; culture; cycle; cytoplasmic; cytotoxicity; dapi; data; days; decrease; depletion; deviation; dmso; dna; drug; early; egfp; enrichment; error; essential; expression; family; fig; foci; formation; function; gapdh; gene; grp78; half; heat; hek-293; hek-293 t; herpesvirus; higher; hsc70; hsp70 isoforms; hsp90; human; ihsp70; increase; induced; infection; inhibitor; isoforms; kaposi; knockdown; kshv; kshv rtcs; labelling; late; levels; life; line; localization; luciferase; lytic; medium; min; monoclonal; mouse; mrna; multiple; non; novel; nuclear; nucleus; numerous; observed; orf57; pan; pcr; peaks; polyclonal; post; potential; presence; profile; profiling; promoter; protein; prta; qrt; rabbit; reactivated; reactivated cells; reactivation; recruitment; reduction; replicates; replication; results; rkshv.219; rkshv.219 cells; rnapii; role; rta; rta cells; rtcs; samples; sarcoma; shock; significant; similar; sirna; small; specific; stability; standard; synthesis; t cells; technologies; time; total; transcription; transcripts; transfection; treatment; trex; trex bcbl1; vector; ver-155008; viral; virion; western cache: cord-001859-d62iuk72.txt plain text: cord-001859-d62iuk72.txt item: #34 of 647 id: cord-002441-w731ehtz author: Jeon, Young Joo title: Interferon-Stimulated Gene 15 in the Control of Cellular Responses to Genotoxic Stress date: 2017-02-28 words: 4173 flesch: 27 summary: Under normal conditions, the level of p53 protein is kept low by several E3 ligases-mediated ubiquitination. Post-translational protein modifications by ubiquitin and ubiquitin-like proteins, including SUMO and NEDD8, are critically involved in DNA damage response (DDR) and DNA damage tolerance (DDT). keywords: activity; antiviral; apoptosis; bypass; camptothecin; cell; cellular; conditions; conjugation; control; damage; damaging; dna; dna damage; domain; doxorubicin; efp; enzyme; et al; expression; family; feedback; gene; genotoxic; human; ifn; interferon; isg15; isgylation; ligase; like; modification; p53; p63; park; pcna; polymerases; protein; regulation; replication; responses; role; signaling; sites; stress; stresses; system; target; tls; transcriptional; tumor; type; ube1l; ubiquitin; ubiquitination; virus; np63 cache: cord-002441-w731ehtz.txt plain text: cord-002441-w731ehtz.txt item: #35 of 647 id: cord-002687-ql6zo8ka author: Li, Dan title: A potent human neutralizing antibody Fc-dependently reduces established HBV infections date: 2017-09-26 words: 14964 flesch: 48 summary: Moreover, 2H5-A14 greatly reduced HBV infection in a treatment mouse model. HBV and HDV neutralizing assays were then performed to rank the neutralizing ability of these 16 Abs relative to that of 2H5 ( 2H5-A14 is a potent and broadly-neutralizing nAb against HBV infection that acts by blocking the binding of preS1 with the HBV receptor NTCP Competition ELISA assays showed that 2H5-A14 had almost the same peptide competition pattern as did 2H5, and mutation of G24R of preS1 did not affect 2H5-A14 binding activity, indicating that 2H5-A14 targets the same epitope as does 2H5 (Figure 2-figure supplement 4) . keywords: 2h5; 59c; a14; a14 treatment; activity; adcc; adcp; affinity; analysis; antibodies; antibody; antigen; assays; binding; block; blood; blotting; buffer; cccdna; cdc; cells; cfse; chain; challenge; chimeric; cho-59c; chronic; clinical; clones; competition; complement; complex; concentrations; control; copies; copy; culture; cytotoxicity; dana; data; day; days; dependent; dna; domain; dose; dpi; effector; efficacy; elisa; epitope; et al; experiment; expression; fcgrs; figure; figure supplement; frozen; functions; gene; genotype; group; hbig; hbsag; hbv; hbv dna; hbv infection; hdv; hepatitis; hepatocytes; hepg2; hfrg; high; hntcp; human; igg1; ihc; immune; infected; infection; interaction; kit; length; levels; library; line; liver; mab; macrophages; major; medium; membrane; mice; min; model; monoclonal; mouse; mutant; nabs; neutralization; neutralizing; non; novel; numbers; observed; pbs; peptide; phagocytosis; plates; potency; potent; prepared; pres1; presence; primers; prophylactic; protein; qpcr; receptor; region; residues; results; rna; samples; scfv; sequence; sera; serum; similar; single; solution; southern; specific; staining; structure; studies; study; supplement; surface; system; target; target cells; therapeutic; therapies; time; tissues; total; treatment; tumor; viral; virus; viruses; vitro; vivo; yan cache: cord-002687-ql6zo8ka.txt plain text: cord-002687-ql6zo8ka.txt item: #36 of 647 id: cord-002706-m3y35ozx author: Guo, Fang title: HBV core protein allosteric modulators differentially alter cccDNA biosynthesis from de novo infection and intracellular amplification pathways date: 2017-09-25 words: 7405 flesch: 35 summary: At the time of PFA withdrawal, mock treatment or treatment with ETV, Bay-41-4109, ENAN-34017 was initiated and cells were harvested at the indicated time points for analyses of HBV core DNA and cccDNA. Extraction and analyses of HBV DNA and RNA by hybridization and realtime PCR assays HBV core DNA and RNA extraction from infected C3A hNTCP or HepAD38 cells, Southern blot hybridization, and real-time PCR analyses were performed as described previously keywords: amplification; antiviral; assay; assembly; b virus; bay; blot; buffer; c3a; cccdna; cccdna synthesis; cells; changes; circular; complete; core; cpams; culture; cytoplasmic; digestion; disassembly; dna; dnase; double; dsldna; effects; enan-34017; endogenous; etv; exposure; fig; formation; fraction; function; gel; genome; genomic; gls4; hbv; hcl; hdv; hepad38; hepatitis; hepatocytes; hntcp; host; human; hybridization; infected; infection; inhibit; inhibited; intracellular; mature; medium; membrane; mock; novo; nuclear; nucleocapsids; pathway; pcr; pgrna; polymerase; post; progeny; protein; rcdna; reaction; replication; results; rna; small; southern; species; specific; strand; structural; sucrose; synthesis; time; treatment; tris; viral; viral dna; virion; virus cache: cord-002706-m3y35ozx.txt plain text: cord-002706-m3y35ozx.txt item: #37 of 647 id: cord-002844-jv42o789 author: Marcos-Villar, Laura title: Epigenetic control of influenza virus: role of H3K79 methylation in interferon-induced antiviral response date: 2018-01-19 words: 6096 flesch: 35 summary: DNA methylation was unaltered, while we found a general decrease on histone acetylation, which correlates with transcriptional inactivation and may cooperate with the impairment of cellular transcription that causes influenza virus infection. To identify epigenetic changes induced by influenza virus infection in the cell transcription machinery, we first analyzed DNA methylation levels. keywords: a549; accumulation; acetylation; activation; addition; analysis; antibodies; antiviral; blot; cells; changes; chromatin; colorimetric; complex; control; data; decrease; degradation; detection; distribution; dna; dot1l; dot1l inhibitor; effect; epigenetic; epz; expression; fig; gene; general; genome; h3k79; h3k79 methylation; h3k79me2; high; histone; host; human; ifn; ifnβ; increase; induced; infected; infection; influenza; influenza virus; inhibitor; interferon; isg56; levels; lysine; m.o.i; mdck; methylated; methylation; modifications; mx1; npro; nuclear; polymerase; post; pr8hv; production; protein; regulation; replication; residues; respiratory; response; results; rna; role; rsv; signaling; silencers; specific; strain; system; transcription; translocation; treatment; type; viral; virus; virus infection; vsv; western cache: cord-002844-jv42o789.txt plain text: cord-002844-jv42o789.txt item: #38 of 647 id: cord-002966-9z350ucm author: Kwasna, Dominika title: Discovery and Characterization of ZUFSP/ZUP1, a Distinct Deubiquitinase Class Important for Genome Stability date: 2018-04-05 words: 9583 flesch: 50 summary: For analysis of ZUFSP Ub binding from cells, 1 mg of HEK293 cell lysate was incubated with 10 mL Halo-UBD resin for 2 h at 4 C. Beads were washed with lysis buffer containing 150mM NaCl and eluted with 2X LDS (Thermo Fisher) and bound polyUbs were analyzed by immunoblotting. To function as a signal, the different Ub modifications have to be decoded by proteins with Ub binding domains (UBDs). keywords: 53bp1; activity; addition; analysis; beads; binding; buffer; catalysis; catalytic; cells; cellular; chains; complex; concentration; conserved; crystal; dali; damage; data; ddr; different; discovery; distal; distinct; dna; dna damage; domain; dtt; dub; dubs; endogenous; enzyme; et al; family; figure; fisher; following; forms; functional; gel; genome; glycerol; hcl; hek293; helical; hepes; high; human; hydrophobic; i44; identification; important; indicated; interactions; irradiation; k63; key; kulathu; laser; lesions; linkage; lysate; mass; micro; min; miu; mm dtt; mm nacl; mode; motif; nacl; overnight; patch; pdb; polyub; pre; prg; probes; protease; proteins; proximal; pull; recognition; recruitment; regulation; repair; replication; residues; resin; response; role; rpa; samples; sequence; signaling; single; site; specific; specificity; stress; structure; system; terminal; terminus; tetraub; thermo; tris; types; ubds; ubiquitin; ubiquitylation; ubz; ufm1; ufsp1; unique; zha; znf4; zufsp cache: cord-002966-9z350ucm.txt plain text: cord-002966-9z350ucm.txt item: #39 of 647 id: cord-002982-zwvesrct author: Thiessen, Lindsey D. title: Development of a quantitative loop-mediated isothermal amplification assay for the field detection of Erysiphe necator date: 2018-04-20 words: 5667 flesch: 37 summary: These traits make LAMP useful in field detection assays (Harper, Ward & Clover, 2010; Kubota et al., 2008; Temple & Johnson, 2011; Tomlinson, Barker & Boonham, 2007; Tomlinson, Dickinson & Boonham, 2010) . In addition to inhibitors from the rods, the variability of inhibitors from field collections may have caused inconsistencies in qLAMP assay detection results compared to the qPCR assay detection results. keywords: airborne; amplification; assay; concentrations; conidia; control; curve; data; detection; developed; development; devices; dna; efficiency; erysiphe; et al; extraction; field; fig; grape; growers; inc; inhibitors; inoculum; isothermal; loop; mahaffee; management; master; mildew; min; mix; necator; negative; observed; polymerase; positive; powdery; presence; primers; probe; qlamp; qlamp assay; qpcr; qpcr assay; quantification; quantitative; quantities; reaction; real; research; results; rods; samples; season; sensitivity; spore; standard; table; testing; thiessen; thiessen et; time; true; usa; use; values; vineyard; west cache: cord-002982-zwvesrct.txt plain text: cord-002982-zwvesrct.txt item: #40 of 647 id: cord-003207-ow3aez9v author: Ismail, Ashrafali M. title: Adenoviromics: Mining the Human Adenovirus Species D Genome date: 2018-09-11 words: 7194 flesch: 21 summary: At resolution of acute infection, persistence may develop within nasopharyngeal lymphoid tissue (Neumann et al., 1987; Garnett et al., 2002 Garnett et al., , 2009 Zhang et al., 2010; Assadian et al., 2016) , as yet uncharacterized cells in the gastrointestinal tract (Roy et al., 2009) , and possibly the ocular surface (Kaye et al., 2005) , permitting evolution of new HAdVs through homologous recombination between two or more HAdVs infecting the same cell(s) (Lee et al., 2005 (Lee et al., , 2018 Echavarria et al., 2006; McCarthy et al., 2009; Seto et al., 2010) . Coinfection by two or more HAdVs has been well documented (Lee et al., 2005; Echavarria et al., 2006; Vora et al., 2006; McCarthy et al., 2009; Halstead et al., 2010; Seto et al., 2010) , as has the presence of two HAdV types in archived clinical samples (Singh et al., 2012) . keywords: acid; acute; adenovirus; adjacent; amino; analysis; antigen; base; binding; capsid; cell; cellular; chi; complex; computational; conserved; content; cr1α; cr1β; critical; d37; data; different; distinct; dna; early; ekc; elements; encode; entry; epidemic; et al; evidence; evolution; expression; factor; fiber; figure; function; gene; genetic; genome; genomic; genotypes; hadv; hexon; homologous; host; human; human adenovirus; hypervariable; immune; important; infected; infection; interaction; intracellular; keratoconjunctivitis; late; leader; lee; like; major; membrane; molecular; mrna; new; noncoding; novel; nuclear; nucleotide; orf; pathogen; penton; polymerase; potential; prior; protein; proteotypes; putative; reca; recombinant; recombination; regions; replication; respiratory; rich; robinson et; sequence; sequencing; serotype; seto; singh; singh et; site; species; ssdna; stability; structural; surface; transcription; transcriptome; translation; tripartite; tropism; type; unique; unit; viral; viruses; walsh; walsh et cache: cord-003207-ow3aez9v.txt plain text: cord-003207-ow3aez9v.txt item: #41 of 647 id: cord-003516-l1lq8yga author: Zhang, Jing title: A Survey of Recent Adenoviral Respiratory Pathogens in Hong Kong Reveals Emergent and Recombinant Human Adenovirus Type 4 (HAdV-E4) Circulating in Civilian Populations date: 2019-01-31 words: 2361 flesch: 32 summary: HAdV-E4 genomes include RI-67 or prototype (Ft Leonard Wood, Missouri; 1952; AY594253); CL68578 or vaccine ( Computational analysis of four human adenovirus type 4 genomes reveals molecular evolution through two interspecies recombination events Recovery of new agent from patients with acute respiratory illness Adenovirus-associated deaths in US military during postvaccination period Reemergence of adenovirus type 4 acute respiratory disease in military trainees: Report of an outbreak during a lapse in vaccination Molecular epidemiology of adenovirus type 4 infections in US military recruits in the postvaccination era Adenovirus type 4 respiratory infections among civilian adults, Northeastern United States Adenovirus type 4 respiratory infections with a concurrent outbreak of coxsackievirus A21 among United States army basic trainees, a retrospective viral etiology study using next-generation sequencing Classification of human adenoviruses by SDS-polyacrylamide gel electrophoresis of structural polypeptides The degree of genetic variability among adenovirus type 4 strains isolated from man and chimpanzee Genomic and bioinformatics analysis of HAdV-4, a human adenovirus causing acute respiratory disease: Implications for gene therapy and vaccine vector development A mini review of the zoonotic threat potential of influenza viruses, coronaviruses, adenoviruses, and enteroviruses Specific binding of a cellular DNA replication protein to the origin of replication of adenovirus DNA Structure and function of the adenovirus origin of replication Purification of a cellular, double-stranded DNA-binding protein required for initiation of adenovirus DNA replication by using a rapid filter-binding assay Purification of nuclear factor I by DNA recognition site affinity chromatography Contactpoint analysis of the hela nuclear factor i recognition site reveals symmetrical binding at one side of the DNA helix Initiation of adenovirus DNA replication. I. Mechanism of action of a host protein required for replication of adenovirus DNA templates devoid of the terminal protein Redundant elements in the adenovirus type 5 inverted terminal repeat promote bidirectional transcription in vitro and are important for virus growth in vivo Transcription factors nfi and nfiii/oct-1 function independently, employing different mechanisms to enhance adenovirus DNA replication Conserved sequences at the origin of adenovirus DNA replication Outbreak of adenovirus type 4 infection in a long-term care facility for the elderly Respiratory adenoviral infections in children: A study of hospitalized cases in southern Taiwan in 2001-2002 A swimming pool-associated outbreak of pharyngoconjunctival fever caused by human adenovirus type 4 in Beijing Computational analysis identifies human adenovirus type 55 as a re-emergent acute respiratory disease pathogen Evidence of molecular evolution driven by recombination events influencing tropism in a novel human adenovirus that causes epidemic keratoconjunctivitis Phylogenomic evidence for recombination of adenoviruses in wild gorillas Simian adenovirus type 35 has a recombinant genome comprising human and simian adenovirus sequences, which predicts its potential emergence as a human respiratory pathogen Adenovirus in rural cote d'ivoire: High diversity and cross-species detection Multiple cross-species transmission events of human adenoviruses (HAdV) during hominine evolution Novel adenoviruses in wild primates: A high level of genetic diversity and evidence of zoonotic transmissions A novel adenovirus species associated with an acute respiratory outbreak in a baboon colony and evidence of coincident human infection Neutralizing antibodies to human and simian adenoviruses in humans and new-world monkeys Cross-species transmission of a novel adenovirus associated with a fulminant pneumonia outbreak in a new world monkey colony Genomic and bioinformatics analyses of HAdV-4vac and HAdV-7vac, two human adenovirus (HAdV) strains that constituted original prophylaxis against HAdV-related acute respiratory disease, a reemerging epidemic disease Phylogenetic analysis of circulating HAdV-E4 strains Overreliance on the hexon gene, leading to misclassification of human adenoviruses Three adenovirus E3 proteins cooperate to evade apoptosis by tumor necrosis factor-related apoptosis-inducing ligand receptor-1 and -2 Functions and mechanisms of action of the adenovirus E3 proteins Seroepidemiological investigation of hadv-4 infection among healthy adults in china and in Sierra Leone Identification and typing of respiratory adenoviruses in Guangzhou, southern China using a rapid and simple method MEGA7: keywords: acute; adenovirus; analysis; binding; circulating; civilian; data; disease; dna; emergent; factor; genome; hadv; hong; host; human; immune; infections; itr; kong; military; molecular; motif; naïve; origin; outbreak; pathogen; populations; potential; prototype; recent; recombination; replication; respiratory; sequence; site; species; strains; type; vaccine; zoonotic cache: cord-003516-l1lq8yga.txt plain text: cord-003516-l1lq8yga.txt item: #42 of 647 id: cord-003596-6dg7i06i author: Xiong, Qingqing title: Biomedical applications of mRNA nanomedicine date: 2018-07-27 words: 12815 flesch: 30 summary: Sci Rapidly produced SAM®vaccine against H7N9 influenza is immunogenic in mice Induction of broad-based immunity and protective efficacy by self-amplifying mRNA vaccines encoding influenza virus hemagglutinin Self-replicating replicon-RNA delivery to dendritic cells by chitosan-nanoparticles for translation in vitro and in vivo Polyethylenimine-based polyplex delivery of self-replicating RNA vaccines An RNA nanoparticle vaccine against Zika virus elicits antibody and CD8 + T cell responses in a mouse model Protective efficacy of in vitro synthesized, specific mRNA vaccines against influenza A virus infection An mRNA vaccine encoding rabies virus glycoprotein induces protection against lethal infection in mice and correlates of protection in adult and newborn pigs Safety and immunogenicity of a mRNA rabies vaccine in healthy adults: An open-label, non-randomised, prospective, first-in-human phase 1 clinical trial Type I IFN counteracts the induction of antigen-specific immune responses by lipidbased delivery of mRNA vaccines Induction of HIV-1 gag specific immune responses by cationic micelles mediated delivery of gag mRNA Preclinical and clinical demonstration of immunogenicity by mRNA vaccines against H10N8 and H7N9 influenza viruses Modified mRNA vaccines protect against Zika virus infection Vaccine mediated protection against Zika virus-induced congenital disease RNA melanoma vaccine: Induction of antitumor immunity by human glycoprotein 100 mRNA immunization Direct injection of protamine-protected mRNA: Results of a phase 1/2 vaccination trial in metastatic melanoma patients Final analysis of a phase I/IIa study with CV9103, an intradermally administered prostate cancer immunotherapy based on self-adjuvanted mRNA Lipid nanoparticle assisted mRNA delivery for potent cancer immunotherapy Intranasal mRNA nanoparticle vaccination induces prophylactic and therapeutic anti-tumor immunity Enhancement of dendritic cells transfection in vivo and of vaccination against B16F10 melanoma with mannosylated histidylated lipopolyplexes loaded with tumor antigen messenger RNA Systemic RNA delivery to dendritic cells exploits antiviral defence for cancer immunotherapy mRNA-based vaccines synergize with radiation therapy to eradicate established tumors Combination immunotherapy of MUC1 mRNA nano-vaccine and CTLA-4 blockade effectively inhibits growth of triple negative breast cancer mRNA vaccine with antigen-specific checkpoint blockade induces an enhanced immune response against established melanoma Sojourn from discovery to delivery challenges and clinics Clinical experiences with systemically administered siRNA-based therapeutics in cancer Stability of mRNA/cationic lipid lipoplexes in human and rat cerebrospinal fluid: Methods and evidence for nonviral mRNA gene delivery to the central nervous system Bax mRNA therapy using cationic liposomes for human malignant melanoma Combined effects on tumor growth and metastasis by anti-estrogenic and antiangiogenic therapies in MMTV-neu mice Systemic delivery of messenger RNA for the treatment of pancreatic cancer using polyplex nanomicelles with a cholesterol moiety Systemic messenger RNA therapy as a treatment for methylmalonic acidemia Targeted mRNA therapy for ornithine transcarbamylase deficiency Hopx and the cardiomyocyte parentage Therapeutic efficacy in a hemophilia B model using a biosynthetic mRNA liver depot system Systemic delivery of factor IX messenger RNA for protein replacement therapy Treatment of neurological disorders by introducing mRNA in vivo using polyplex nanomicelles Messenger RNA-based therapeutics for the treatment of apoptosis-associated diseases Transcript-activated collagen matrix as sustained mRNA delivery system for bone regeneration Chemically modified RNA induces osteogenesis of stem cells and human tissue explants as well as accelerates bone healing in rats Translation of angiotensin-converting enzyme 2 upon liver-and lungtargeted delivery of optimized chemically modified mRNA Therapeutic genome editing: Prospects and challenges Genome editing with engineered zinc finger nucleases Small CRISPR RNAs guide antiviral defense in prokaryotes The CRISPR craze Multiplex genome engineering using CRISPR/Cas systems The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA carbonate apatite-cationic liposome conjugates Systemic activation of antigen-presenting cells via RNA-loaded nanoparticles Optimization of lipid nanoparticle formulations for mRNA delivery in vivo with fractional factorial and definitive screening designs Reprogramming human fibroblasts to pluripotency using modified mRNA Delivery materials for siRNA therapeutics Optimization of lipid nanoparticle formulations for mRNA delivery in vivo with fractional factorial and definitive screening designs An orthogonal array optimization of lipid-like nanoparticles for mRNA delivery in vivo Dual-functional lipid-like nanoparticles for delivery of mRNA and MRI contrast agents Bioinspired alkenyl amino alcohol ionizable lipid materials for highly potent in vivo mRNA delivery Boosting intracellular delivery of lipid nanoparticleencapsulated mRNA Chapter 2-Studying lipids involved in the endosomal pathway Lipid nanoparticles for targeted siRNA delivery-going from bench to bedside Lipid nanoparticle systems for enabling gene therapies Polycation gene delivery systems: Escape from endosomes to cytosol Dual-responsive polyplexes with enhanced disassembly and endosomal escape for efficient delivery of siRNA A welldefined coil-comb polycationic brush with star polymers as side chains for gene delivery Enhanced intranasal delivery of mRNA vaccine by overcoming the nasal epithelial barrier via intra-and paracellular pathways Self-aggregating 1.8 kDa polyethylenimines with dissolution switch at endosomal acidic pH are delivery carriers for plasmid DNA, mRNA, siRNA and exon-skipping oligonucleotides Poly-β amino ester-containing microparticles enhance the activity of nonviral genetic vaccines Dual-responsive nanoparticles based on oxidized pullulan and a disulfide-containing poly(β-amino ester) for efficient delivery of genes and chemotherapeutic agents targeting hepatoma Degradable terpolymers with alkyl side chains demonstrate enhanced gene delivery potency and nanoparticle stability Polymer-lipid nanoparticles for systemic delivery of mRNA to the lungs Polymer vectors via controlled/ living radical polymerization for gene delivery PEGylation improves nanoparticle formation and transfection efficiency of messenger RNA Multifunctional triblock copolymers for intracellular messenger RNA delivery Reductive decationizable block copolymers for stimuliresponsive mRNA delivery Dendrimer-RNA nanoparticles generate protective immunity against lethal Ebola, H1N1 influenza, and Toxoplasma gondii challenges with a single dose Chitosans for delivery of nucleic acids Chitosan/hyaluronic acid nanoparticles: Rational design revisited for RNA delivery Protamine enhancement of RNA uptake by cultured chick cells Toll-like receptor-dependent activation of several human blood cell types by protaminecondensed mRNA RNActive® technology: Generation and testing of stable and immunogenic mRNA vaccines Self-adjuvanted mRNA vaccination in advanced prostate cancer patients: A first-in-man phase I/IIa study A targeted and stable polymeric nanoformulation enhances systemic delivery of mRNA to tumors Biodegradable dendronized polymers for efficient mRNA delivery Differentially charged hollow core/shell lipid-polymer-lipid hybrid nanoparticles for small interfering RNA delivery Ultra-small lipid-polymer hybrid nanoparticles for tumorpenetrating drug delivery Cell membrane-derived nanomaterials for biomedical applications Multifunctional envelope-type siRNA delivery nanoparticle platform for prostate cancer therapy Tumor microenvironment-responsive multistaged nanoplatform for systemic RNAi and cancer therapy Restoration of tumor suppression in vivo by systemic delivery of chemically-modified PTEN mRNA nanoparticles Systemic delivery of modified mRNA encoding herpes simplex virus 1 thymidine kinase for targeted cancer gene therapy In vitro and in vivo mRNA delivery using lipid-enveloped pHresponsive polymer nanoparticles Selfassembled inorganic/organic hybrid nanoparticles with multi-functionalized surfaces for active targeting drug delivery Drastic effect of nanoapatite particles on liposome-mediated mRNA delivery to mammalian cells keywords: acid; activation; activity; addition; administration; alternative; amino; analogs; antigen; applications; approach; bax; binding; biomedical; cancer; cap; carrier; cas9; cationic; cells; cellular; chains; challenges; chemical; class; clinical; codon; combination; complex; complexes; conjugates; control; core; crispr; dcs; degradation; delivery; dendritic; design; development; direct; diseases; dna; drug; editing; effective; efficacy; efficient; encoding; endosomal; engineering; enhanced; escape; eukaryotic; example; expression; factors; fibroblasts; fig; formulations; functional; gene; generation; genetic; genome; gold; growth; high; human; hybrid; immune; immunity; immunogenicity; immunotherapy; improved; induced; induction; influenza; injection; inorganic; intracellular; ivt; length; like; lipid; lnps; low; luciferase; mammalian; materials; melanoma; membrane; messenger; method; mice; model; modification; modified; molecules; mouse; mrna; mrna delivery; multiple; nanomedicine; nanoparticles; nanovaccines; new; non; nuclease; nucleic; pancreatic; patients; pdna; peg; pei; peptide; phase; plasmid; poly(a; polymer; potential; process; promising; protamine; protection; protein; protein expression; recent; regulation; replacement; reprogramming; responses; reverse; rnactive; rnai; self; sequence; sgrna; similar; single; specific; stability; strategy; structure; studies; study; synthesis; synthetic; system; systemic; tail; target; technology; therapeutic; therapy; transcription; transfection; translation; treatment; trial; tumor; use; utr; vaccination; vaccines; vectors; viral; virus; vivo; zika cache: cord-003596-6dg7i06i.txt plain text: cord-003596-6dg7i06i.txt item: #43 of 647 id: cord-003609-p0ydzjre author: Goodman, Danielle E. title: Enhanced Replication of Mouse Adenovirus Type 1 following Virus-Induced Degradation of Protein Kinase R (PKR) date: 2019-04-23 words: 8933 flesch: 46 summary: To determine the mechanism of PKR depletion, we first assayed whether the reduction in the level of PKR protein during MAV-1 infection was due to reduced PKR mRNA steady-state levels. While PKR was depleted in the control DMSO-treated MAV-1-infected cells as expected, PKR protein was present in the MG132-and bortezomib-treated cells at levels comparable to those in the mock-infected cells (Fig. 6 ). keywords: activation; activity; adenovirus; analysis; assayed; buffer; c57bl/6; catalog; cells; cellular; cmt93; collected; control; cycloheximide; data; degradation; dependent; depletion; dna; double; dsrna; early; expression; factor; fbs; fig; gene; higher; hpi; human; immune; immunoblotting; infected; infection; inhibitors; interferon; k271r; kinase; kit; levels; lysates; macrophages; mav-1; mechanism; mefs; mg132; mice; min; mock; moi; mouse; mrna; nss; p53; pbs; peritoneal; pkr; pkr degradation; pkr mrna; pkr protein; plate; primary; proteasome; protein; purified; qpcr; replication; results; ribosomes; rnas; role; room; scientific; sigma; specific; state; steady; sv40; synthesis; temperature; thermo; time; total; translation; treatment; type; ubiquitination; viral; virus; viruses; wild; yield; ϫ/ϫ cache: cord-003609-p0ydzjre.txt plain text: cord-003609-p0ydzjre.txt item: #44 of 647 id: cord-003656-7mzsaz7a author: Wium, Martha title: DNA Vaccines Against Mycoplasma Elicit Humoral Immune Responses in Ostriches date: 2019-05-14 words: 5578 flesch: 45 summary: Elsenburg: Western Cape Department of Agriculture Cross-protection among lethal H5N2 influenza viruses induced by DNA vaccine to the hemagglutinin Protective efficacy of DNA vaccines against duck hepatitis B virus infection Turkeys are protected from infection with Chlamydia psittaci by plasmid DNA vaccination against the major outer membrane protein DNA vaccination in the avian A DNA prime-protein boost vaccination strategy targeting turkey coronavirus spike protein fragment containing neutralizing epitope against infectious challenge Protection of chickens against infectious bronchitis virus with a multivalent DNA vaccine and boosting with an inactivated vaccine Induction of a protective response in ducks vaccinated with a DNA vaccine encoding engineered duck circovirus Capsid protein Sequential DNA immunization of chickens with bivalent heterologous vaccines induce highly reactive and cross-specific antibodies against influenza hemagglutinin key: cord-003656-7mzsaz7a authors: Wium, Martha; Jonker, Hester Isabella; Olivier, Adriaan Jacobus; Bellstedt, Dirk Uwe; Botes, Annelise title: DNA Vaccines Against Mycoplasma Elicit Humoral Immune Responses in Ostriches date: 2019-05-14 journal: keywords: africa; analysis; antibodies; antibody; antigen; average; binding; birds; booster; buffer; casein; cells; chicks; commercial; conditions; control; days; dependent; development; different; dna; dna vaccines; dose; elisa; expression; figure; fraserburg; gene; group; gst; immune; infections; isolated; live; min; months; ms03; mycoplasma; mycoplasma infections; nasistruthionis; neo_oppa; nov; old; oligopeptide; oppa; oppa protein; ostriches; oudtshoorn; pci; pcr; plasmid; plate; possible; prepared; presence; protein; recombinant; response; restriction; samples; sequence; serum; significant; south; species; study; supplementary; time; titer; trial; tween; use; vaccinated; vaccination; vaccine; values; vector; vr1020_oppa; week; weight cache: cord-003656-7mzsaz7a.txt plain text: cord-003656-7mzsaz7a.txt item: #45 of 647 id: cord-003674-3ajyr5e4 author: NAGAO, Konomu title: Development of a fluorescent loop-mediated isothermal amplification assay for rapid and simple diagnosis of bovine leukemia virus infection date: 2019-03-27 words: 2570 flesch: 49 summary: We used 100 bovine clinical blood samples, comprising 80 ELISA-positive and 20 ELISA-negative samples, to evaluate the performance of the BLV specific fLAMP assay. As ideal quantitative tools, digital LAMP assays have been developed for clinically important infectious diseases [7, 18] . keywords: amplification; annealing; assay; blood; blv; bovine; clinical; detection; development; diagnosis; dna; elisa; env; fig; flamp; fluorescent; genomic; infection; isothermal; japan; leukemia; loop; min; negative; pmol/µl; positive; primers; rapid; reaction; real; results; rpcr; samples; sec; sequences; simple; specific; specificity; table; time; virus cache: cord-003674-3ajyr5e4.txt plain text: cord-003674-3ajyr5e4.txt item: #46 of 647 id: cord-003764-141u6ax7 author: Shrestha, Ashish C. title: Cytolytic Perforin as an Adjuvant to Enhance the Immunogenicity of DNA Vaccines date: 2019-04-30 words: 6314 flesch: 34 summary: Emerg Advancements in DNA vaccine vectors, non-mechanical delivery methods, and molecular adjuvants to increase immunogenicity Effective humoral immune response from a H1N1 DNA vaccine delivered to the skin by microneedles coated with PLGA-based cationic nanoparticles Differential humoral and cellular immunity induced by vaccination using plasmid DNA and protein recombinant expressing the NS3 protein of dengue virus type 3 Vaccines for emerging infectious diseases: Lessons from MERS coronavirus and Zika virus Clinical applications of DNA vaccines: Current progress DNA Vaccines-How Far From Clinical Use? DNA Vaccines: However, one of the major challenges for the development of DNA vaccines is their poor immunogenicity in humans, which has led to refinements in DNA delivery, dosage in prime/boost regimens and the inclusion of adjuvants to enhance their immunogenicity. keywords: activation; adjuvants; antigen; apoptosis; bicistronic; cd8; cells; cellular; challenge; clinical; cmi; cmv; cross; cytolytic; dcs; death; delivery; dendritic; development; different; dna; dta; ecohiv; effective; encoding; expression; fusion; gag; gene; genetic; hcv; hiv; hiv-1; hsp70; human; humoral; ifn; il-2; immune; immunity; immunization; immunogenicity; imx313; increase; mechanism; membrane; memory; mice; molecular; molecules; mouse; necrosis; novel; ns3; nsp4; perforin; plasmid; present; presentation; prf; proapoptotic; promoter; protection; protein; responses; safety; specific; sv40; target; technology; trial; truncated; tumor; type; use; vaccination; vaccine; virus; vsvg cache: cord-003764-141u6ax7.txt plain text: cord-003764-141u6ax7.txt item: #47 of 647 id: cord-003945-esnyjoq5 author: Hu, Zheng title: Customized one-step preparation of sgRNA transcription templates via overlapping PCR Using short primers and its application in vitro and in vivo gene editing date: 2019-10-24 words: 2328 flesch: 50 summary: The size of DNA template fragments of the three genes were around 120 bp. key: cord-003945-esnyjoq5 authors: Hu, Zheng; Wang, Li; Shi, Zhaoying; Jiang, Jing; Li, Xiangning; Chen, Yonglong; Li, Kai; Luo, Dixian title: Customized one-step preparation of sgRNA transcription templates via overlapping PCR Using short primers and its application in vitro and in vivo gene editing date: 2019-10-24 journal: keywords: cas9; conventional; crispr; dna; embryos; extension; fig; fragment; gene; method; mutations; overlap; pcr; primers; products; pu57; sequencing; sgrna; single; site; size; study; synthesis; target; templates; transcription; tropicalis; vitro; vivo cache: cord-003945-esnyjoq5.txt plain text: cord-003945-esnyjoq5.txt item: #48 of 647 id: cord-004003-rlgzgyzn author: Lee, Jeewon title: Applying a Linear Amplification Strategy to Recombinase Polymerase Amplification for Uniform DNA Library Amplification date: 2019-11-12 words: 3388 flesch: 46 summary: At first, we hypothesized that RPA can be a replacement of PCR for DNA library amplification. Taken together, we show that single-primer linear RPA can be one of the alternative methods to PCR for DNA library amplification. keywords: amplicons; amplification; coli; data; detection; different; dna; error; figure; genomic; human; illumina; index; large; libraries; library; linear; method; min; ngs; oligo; oligonucleotide; pcr; polymerase; primer; products; range; rate; reaction; recombinase; rpa; samples; sequence; sheared; single; size; small; specific; study; substitution; uniformity; usa cache: cord-004003-rlgzgyzn.txt plain text: cord-004003-rlgzgyzn.txt item: #49 of 647 id: cord-004133-32w6g7qk author: Walker, Faye M. title: Advances in Directly Amplifying Nucleic Acids from Complex Samples date: 2019-09-30 words: 13589 flesch: 39 summary: A Useful Tool for the Surveillance of blaOXA-23-Positive Carbapenem-Resistant Acinetobacter baumannii Flinders technology associates (FTA) filter paper-based DNA extraction with polymerase chain reaction (PCR) for detection of Pneumocystis jirovecii from respiratory specimens of immunocompromised patients Operational feasibility of using loop-mediated isothermal amplification for diagnosis of pulmonary tuberculosis in microscopy centers of developing countries Successful use of saliva without DNA extraction for detection of macrolide-resistant Mycoplasma pneumoniae DNA in children using LNA probe-based real-time PCR Rapid typing of STRs in the human genome by HyBeacon melting Ultra-rapid DNA analysis using HyBeacon probes and direct PCR amplification from saliva Comparison of boiling and robotics automation method in DNA extraction for metagenomic sequencing of human oral microbes Comparison of DNA Extraction Methods in Analysis of Salivary Bacterial Communities Study of inter-and intra-individual variations in the salivary microbiota Microbiological diversity of generalized aggressive periodontitis by 16S rRNA clonal analysis A Sweet Spot for Molecular Diagnostics: Coupling Isothermal Amplification and Strand Exchange Circuits to Diagnosis of mycobacterial infections by nucleic acid amplification: 18-month prospective study Pilot study of a rapid and minimally instrumented sputum sample preparation method for molecular diagnosis of tuberculosis Efficacy of loop mediated isothermal amplification (LAMP) assay for the laboratory identification of Mycobacterium tuberculosis isolates in a resource limited setting A novel and more sensitive loop-mediated isothermal amplification assay targeting IS6110 for detection of Mycobacterium tuberculosis complex Development of an in-house loop-mediated isothermal amplification (LAMP) assay for detection of Mycobacterium tuberculosis and evaluation in sputum samples of Nepalese patients Rapid detection of Mycobacterium tuberculosis by recombinase polymerase amplification Polymerase chain reaction for diagnosis of M. tuberculosis: Comparison of simple boiling and a conventional method for DNA extraction Detection of Mycobacterium tuberculosis in sputum samples by polymerase chain reaction using a simplified procedure Detection of Mycobacterium tuberculosis in clinical samples by two-step polymerase chain reaction and nonisotopic hybridization methods Rapid, simple method for treating clinical specimens containing Mycobacterium tuberculosis to remove DNA for polymerase chain reaction An extremely rapid and simple DNA-release method for detection of M. tuberculosis from clinical specimens Evaluation of a simple loop-mediated isothermal amplification test kit for the diagnosis of tuberculosis Evaluation of the efficacy of five DNA extraction methods for the detection of Mycobacterium tuberculosis DNA in direct and processed sputum by an in-house PCR method Clinical usefulness of multiplex PCR lateral flow in MRSA detection: A novel, rapid genetic testing method Development and evaluation of a rapid multiplex-PCR based system for Mycobacterium tuberculosis diagnosis using sputum samples Polymerase chain reaction for detection of Mycobacterium tuberculosis A simple method for diagnosing M. tuberculosis infection in clinical samples using PCR Self-Collected versus Clinician-Collected Sampling for Chlamydia and Gonorrhea Screening: A Systemic Review and Meta-Analysis Validation of real-time PCR for laboratory diagnosis of Acanthamoeba keratitis Effects of topical anaesthetics and fluorescein on the real-time PCR used for the diagnosis of Herpesviruses and Acanthamoeba keratitis Inhibition of PCR by Aqueous and Vitreous Fluids Use of the polymerase chain reaction to detect Bordetella pertussis in patients with mild or atypical symptoms of infection Diagnostic accuracy of a prototype point-of-care test for ocular chlamydia trachomatis under field conditions in the Gambia and Senegal High-throughput STR analysis for DNA database using direct PCR Multicenter clinical evaluation of the novel Amongst the collection of approaches for direct PCR amplification on saliva samples, those that begin with dried saliva swabs fully circumvent DNA extraction, purification, and quantification [93] . keywords: acid; acid amplification; acid testing; addition; amplification; amplification assay; analysis; approaches; assay; bacterial; blood; bubble; buffer; care; cell; centrifugation; chain; chlamydia; clinical; clinical samples; comparison; complex; components; copies; culture; data; detection; developed; development; devices; diagnostics; difficile; direct; direct amplification; direct pcr; diseases; dna; elution; enzyme; et al; evaluation; examples; expensive; extraction; figure; filter; flow; free; genetic; heating; high; house; human; hybridization; infectious; influenza; inhibitors; isothermal; isothermal amplification; laboratory; lamp; liquid; lod; lods; loop; low; malaria; matrix; method; molecular; mycobacterium; naats; nalc; need; new; novel; nucleic; nucleic acid; number; paper; pathogens; patient; pcr; pcr amplification; performance; plasma; plasmodium; platforms; poc; point; polymerase; potential; preparation; pretreatment; procedures; process; processing; range; rapid; reaction; reagents; real; recombinase; resource; results; review; rna; room; saliva; samples; semi; sensitive; sensitivity; serum; settings; simple; single; species; specificity; specimens; spots; sputum; step; stool; strand; study; swabs; systems; target; techniques; technologies; technology; temperature; template; terms; testing; tests; time; trachomatis; treatment; tuberculosis; type; urine; usa; use; useful; viral; virus; viruses; water; works cache: cord-004133-32w6g7qk.txt plain text: cord-004133-32w6g7qk.txt item: #50 of 647 id: cord-004170-ri5qsarz author: Yashima, Nozomi title: Leukocyte-derived extracellular DNA contributes to abnormal pressure elevation in the extracorporeal circulation circuit date: 2020-01-16 words: 3589 flesch: 39 summary: In immunofluorescent analysis, extracellular DNA was detected all over the filter through which whole blood passed, whereas extracellular DNA deposition was not observed on the filter through which PRP passed (Fig. 3D) . key: cord-004170-ri5qsarz authors: Yashima, Nozomi; Ito, Takashi; Kajiyama, Kenji; Maeda, Hiroyuki; Kakihana, Yasuyuki; Maruyama, Ikuro title: Leukocyte-derived extracellular DNA contributes to abnormal pressure elevation in the extracorporeal circulation circuit date: 2020-01-16 journal: Sci Rep DOI: 10.1038/s41598-019-57173-5 sha: doc_id: 4170 cord_uid: ri5qsarz An abnormal elevation in pressure is a serious complication involving the extracorporeal circulation circuit. keywords: abnormal; abnormal elevation; administration; aggregation; analysis; blood; bypass; cardiopulmonary; circuit; circuit pressure; clinical; contrast; day; days; deposition; dna; dnase; elevation; extracellular; extracellular dna; fig; filter; formation; heparin; heparinized; immunofluorescent; japan; leukocytes; manuscript; minutes; mmhg; oxygenator; platelets; porcine; pressure; prp; release; stimulated; stimulation; storage; studies; study; surface; term; traps; treatment; use; vivo cache: cord-004170-ri5qsarz.txt plain text: cord-004170-ri5qsarz.txt item: #51 of 647 id: cord-004181-exbs3tz7 author: Pumchan, Ansaya title: Novel Chimeric Multiepitope Vaccine for Streptococcosis Disease in Nile Tilapia (Oreochromis niloticus Linn.) date: 2020-01-17 words: 5774 flesch: 35 summary: Interestingly, the designed chimeric multiepitope DNA vaccine and protein vaccine exhibited effective prevention in Nile tilapia against S. agalactiae, with efficacy similar to that of the whole-cell inactivated vaccine. Herein, the comparative efficacy of both the 45F2 and 42E2 DNA and recombinant protein vaccines indicated that the DNA vaccine provided a higher efficacy than the recombinant protein vaccine. keywords: 42e2; abundance; acid; agalactiae; amino; analysis; antibody; antigenic; bacterial; binding; blot; buffer; candidates; cell; challenge; chimeric; chimeric multiepitope; codon; coli; control; cross; design; development; different; disease; dna; dna vaccine; efficacy; epitopes; expression; fig; fish; flavodoxin; folding; free; gene; group; high; highest; host; iii; immune; immunogenic; immunoproteomics; inactivated; infection; kda; linear; mass; mortality; multiepitope; multiepitope vaccine; nile; niloticus; novel; optimization; oreochromis; peptide; prediction; prevention; protective; protein; recombinant; region; residues; response; rna; sequences; serotype; server; silico; sip; sites; streptococcus; structure; subunit; suitable; supplementary; surface; system; tilapia; vaccination; vaccine; week cache: cord-004181-exbs3tz7.txt plain text: cord-004181-exbs3tz7.txt item: #52 of 647 id: cord-004378-g1rxygef author: Leinisch, Fabian title: UV oxidation of cyclic AMP receptor protein, a global bacterial gene regulator, decreases DNA binding and cleaves DNA at specific sites date: 2020-02-20 words: 5850 flesch: 48 summary: Recent advances in the analysis of oxidized proteins Persulfoxide: key intermediate in reactions of singlet oxygen with sulfides Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research Scanning calorimetric study of the thermal unfolding of catabolite activator protein from Escherichia coli in the absence and presence of cyclic mononucleotides Dissecting direct and indirect readout of cAMP receptor protein DNA binding using an inosine and 2,6-diaminopurine in vitro selection system Peroxyl radical-and photo-oxidation of glucose 6-phosphate dehydrogenase generates cross-links and functional changes via oxidation of tyrosine and tryptophan residues Quantification of protein modification by oxidants Structural and functional changes in RNAse Purified CRP protein was then dialyzed twice against 5 L dialysis buffer (50 mM sodium phosphate, 200 mM KCl, 5 mM β-mercaptoethanol, pH 8.0) and stored at −80 °C. keywords: absence; acid; amino; analysis; binding; buffer; camp; chain; changes; chemical; cleavage; close; coli; complex; complexes; consistent; control; cross; crp; cyclic; damage; dark; data; detection; dimer; dna; dtt; exposure; extent; fig; fluorescence; formation; high; interface; isolated; lanes; levels; light; link; mass; materials; met114; modification; modified; oligomer; oxidation; page; panel; parent; peptide; presence; pro110; products; protein; quantification; receptor; relative; residues; samples; sds; sequence; ser; significant; sites; species; specific; structure; sulfoxide; supplementary; trp; tyr; uplc cache: cord-004378-g1rxygef.txt plain text: cord-004378-g1rxygef.txt item: #53 of 647 id: cord-004501-guiy89x8 author: Cojocaru, Florina-Daniela title: Nanomaterials Designed for Antiviral Drug Delivery Transport across Biological Barriers date: 2020-02-18 words: 14004 flesch: 30 summary: A reality for diagnosis of HCV infectious disease HIV biosensors for early diagnosis of infection: The intertwine of nanotechnology with sensing strategies Chitosan as a bioactive polymer: Processing, properties and applications Anti-Herpes Simplex Virus (HSV-1 and HSV-2) activity of biogenic gold and silver nanoparticles using seaweed Sargassum wightii A novel extracellular synthesis of monodisperse gold nanoparticles using marine alga, Sargassum wightii Greville Broad-spectrum non-toxic antiviral nanoparticles with a virucidal inhibition mechanism Inhibition of Human Metapneumovirus Binding to Heparan Sulfate Blocks Infection in Human Lung Cells and Airway Tissues Pathogen Inhibition by Multivalent Ligand Architectures Surface-structureregulated cell-membrane penetration by monolayer-protected nanoparticles Antiherpes evaluation of soybean isoflavonoids Topical Delivery of Coumestrol from Lipid Nanoemulsions Thickened with Hydroxyethylcellulose for Antiherpes Treatment Lecithin based nanoemulsions: A comparative study of the influence of non-ionic surfactants and the cationic phytosphingosine on physicochemical behaviour and skin permeation Reverse Transcriptase Inhibitors Nanosystems Designed for Drug Stability and Controlled Delivery Novel dendritic structure of alginate hybrid nanoparticles for effective anti-viral drug delivery Design of antiretroviral drug-polymeric nanoparticles laden buccal films for chronic HIV therapy in paediatrics Influence of Solvent Evaporation Technique Parameters on Diameter of Submicron Lamivudine-Poly-ε-Caprolactone Conjugate Particles Nanoencapsulation of water-soluble drug, lamivudine, using a double emulsion spray-drying technique for improving HIV treatment Formulation and characterisation of chitosan based lamivudine nanoparticles The Antiretroviral Agent Nelfinavir Mesylate: A Potential Therapy for Systemic Sclerosis Inhibition of HIV Fusion with Multivalent Gold Nanoparticles Gold Nanoparticles as an HIV Entry Inhibitor Gold nanoparticles to improve HIV drug delivery The role of nanotechnology in the treatment of viral infections Epaxal ® : A virosomal vaccine to prevent hepatitis A infection Pharmacokinetics and Pharmacodynamics Modeling and Simulation Systems to Support the Development and Regulation of Liposomal Drugs Eleven years of Inflexal ® V-A virosomal adjuvanted influenza vaccine Package Insert PEG-IntronTM (Peginterferon alfa-2b) Powder for Injection, Schering Corporation Progress in Nanomedicine: Approved and Investigational Nanodrugs Tolerability and Immune Response to LC002, an Experimental Therapeutic Vaccine Bioavailability of MK-1439 Experimental Nano Formulations in Healthy Adults (MK-1439-046)-ClinicalTrials.gov There are several factors that hinder the development of antiviral drugs: • Dependence of viruses replication on host cell biosynthetic machinery keywords: absorption; access; acid; acting; active; activity; acv; acyclovir; administration; agents; aids; antiretroviral; antiviral; antiviral therapy; approaches; atv; authors; available; azt; barrier; bbb; binding; bioavailability; biological; blood; brain; briefly; cancer; carriers; cases; cell; cellular; challenges; chemical; chitosan; chronic; classes; clinical; combination; complex; composition; concentrations; corneum; costs; coumestrol; current; data; delivery; dependent; design; development; different; diffusion; direct; disease; dna; drug; drug delivery; economic; effective; effectiveness; effects; efficacy; efflux; endocytosis; entry; enzymes; evaluation; example; features; figure; formulation; future; ganciclovir; gcv; global; gold; hcv; health; hepatitis; herpes; high; higher; hiv; hiv-1; host; hsv; human; hydrophobic; impact; important; improved; incorporated; infected; infection; influenza; inhibition; inhibitors; intracellular; issues; kinase; lamivudine; large; like; lipid; liposomes; literature; loaded; long; low; major; mechanism; medical; membrane; mice; micelles; model; molecules; mucosa; mucus; mus; nanocarriers; nanogels; nanomaterials; nanomedicine; nanoparticles; nanosystems; nanotechnology; new; nfv; non; nps; nucleoside; number; oral; order; patients; penetration; permeability; pharmacokinetics; plga; polymerase; polymeric; possible; potential; practice; properties; protease; protein; public; receptor; release; replication; resistance; results; reverse; review; section; selective; size; skin; small; social; solid; specific; stability; strategies; stratum; studies; study; substances; surface; systems; table; targeted; therapeutic; therapy; thymidine; time; topical; toxicity; transcriptase; transport; transporters; treatment; types; uptake; vaccine; variety; viral; viral dna; virus; viruses; vitro; vivo; water; years cache: cord-004501-guiy89x8.txt plain text: cord-004501-guiy89x8.txt item: #54 of 647 id: cord-004515-x22q1f21 author: Pottecher, Julien title: Protocol for TRAUMADORNASE: a prospective, randomized, multicentre, double-blinded, placebo-controlled clinical trial of aerosolized dornase alfa to reduce the incidence of moderate-to-severe hypoxaemia in ventilated trauma patients date: 2020-03-18 words: 6820 flesch: 38 summary: The primary trial objective is to demonstrate a reduction in the incidence of moderate-to-severe hypoxaemia in severe trauma patients during the first 7 days from 45% to 30% by providing aerosolized dornase alfa as compared to placebo. This treatment may facilitate ventilator weaning, reduce the burden of trauma-induced lung inflammation and facilitate recovery and rehabilitation in severe trauma patients. keywords: acute; administration; aerosolized; airway; alfa; analysis; ards; arterial; berlin; blood; board; care; central; centre; chest; clinical; committee; consent; criteria; daily; damage; damps; data; day; days; definition; distress; dna; dornase; dornase alfa; double; drug; dsmb; duration; extracellular; following; france; french; group; high; hospital; hypoxaemia; hôpitaux; icu; incidence; inclusion; increase; injuries; injury; length; lung; maximal; mean; mechanical; mitochondrial; moderate; molecular; monitoring; mortality; nets; neutrophil; non; normal; pao; parameter; patients; patterns; placebo; plasma; pressure; primary; prior; protocol; pulmonary; randomized; reduction; research; respiratory; safety; severe; severe hypoxaemia; severe trauma; severity; statistical; stay; strasbourg; study; subjects; syndrome; trauma; trauma patients; traumadornase; treatment; trial; universitaires; value; variables; variance; ventilation; years cache: cord-004515-x22q1f21.txt plain text: cord-004515-x22q1f21.txt item: #55 of 647 id: cord-004518-jd1wxobz author: Běláková, Jana title: DNA vaccines: are they still just a powerful tool for the future? date: 2007-12-03 words: 8119 flesch: 34 summary: Efficacious expression of protein from DNA vaccines is dependent on the presence of DNA vaccine in the nucleus. In contrast to plasmid DNA vaccines, virally vectored genetic vaccines induce a specific immune response not only against the expressed transgene, but also against the viral capsid and/or envelope and this response is often effective even after the first immunization. keywords: adenovirus; adjuvants; administration; animals; antibiotic; antibodies; antibody; antigen; apcs; application; approach; associated; bacterial; cancer; cationic; cd4; cd8; cells; cellular; class; clinical; coding; complexes; cpg; cross; ctl; cytokines; cytoplasm; dcs; delivery; dendritic; development; dna; dna vaccination; dna vaccines; dose; effective; efficacy; efficient; experimental; expressed; expression; free; gene; genetic; hepatitis; high; hiv; host; human; humoral; hydrodynamic; i.d; i.m; ifn; immune; immune response; immunity; immunization; immunogenicity; important; increase; induction; injection; levels; lipids; low; measles; membrane; mhc; mice; molecules; mucosal; muscle; naked; needle; non; nuclear; nucleus; peptides; plasmid; plasmid dna; polymers; presentation; prime; production; promising; promoter; protein; receptor; recombinant; response; safety; sequence; specific; studies; surface; systems; targeting; th1; therapy; tolerance; transfection; transgene; transport; trials; type; uptake; use; vaccination; vaccines; vectors; viral; virus; vivo; vsv cache: cord-004518-jd1wxobz.txt plain text: cord-004518-jd1wxobz.txt item: #56 of 647 id: cord-004534-jqm1hxps author: None title: Abstract date: 2009-06-09 words: 139178 flesch: 39 summary: This simple model illustrates how differential detergent selectivity for faces and strong constraints coming from purely environmental features could influence transmembrane helix packing, membrane protein structure and assembly. Imaging of mobile stable lipid rafts in the live cell plasma membrane M. Brameshuber 1 , J. Weghuber 1 , V. Ruprecht 1 , H. Stockinger 2 , G. J. Schuetz 1 1 Johannes Kepler University Linz, Austria, 2 Medical University of Vienna, Austria The organization of the cellular plasma membrane at a nanoscopic length scale is believed to affect the association of distinct sets of membrane proteins for the regulation of multiple signaling pathways. keywords: a. m.; a30p; aba; able; absence; absorption; academy; acceleration; acceptor; accessible; account; accumulation; accuracy; acid; acidic; acquisition; actin; activation; active; activities; activity; acyl; addition; address; adhesion; adp; adult; advanced; advantage; affected; affinity; afm; agents; aggregates; aggregation; agreement; aim; albumin; algorithm; alp14; alpha; altered; alternative; alzheimer; amb; amino; amounts; amplitude; amyloid; amyloidogenic; analogues; analysis; analytical; angle; animals; anionic; anisotropy; antenna; antibiotics; antibody; anticancer; antigen; antimicrobial; apoptosis; apoptotic; apparent; applications; applied; approach; appropriate; aqueous; architecture; area; aromatic; arrays; artificial; aspects; assay; assemblies; assembly; associated; atomic; atomic force; atomistic; atoms; atp; atpase; attached; attachment; attention; attractive; austria; available; average; axis; azurin; backbone; background; bacterial; balance; bands; barcelona; barrier; base; basis; bax; beads; beam; behavior; belgium; berlin; best; beta; better; bianchini; bilayer; binary; binding; biochemical; biochemistry; biofisica; biological; biological membranes; biology; biomedical; biomembrane; biomolecular; biophysics; biosensors; biotechnology; biotin; blood; bodipy; body; bologna; bond; bovine; brain; breast; bridge; brightness; broad; brownian; bsa; budding; buffer; build; caf1; cagliari; calcium; calculated; calculations; calorimetry; cancer; cancer cells; candidate; capable; capsid; carbohydrate; carbon; cardiac; cardiomyocytes; carlo; carriers; case; catalysis; catalytic; cationic; causes; cavities; cea; cell; cell biology; cell cycle; cell imaging; cell membrane; cell surface; cellular; center; central; centre; certain; chain; changes; changing; channel; chaperone; characteristic; characterization; characterized; charge; chemical; chemistry; chip; chitosan; chloride; chlorophyll; chloroplast; cholesterol; chromatin; chromophore; circular; cis; clamp; class; classical; clavulanic; clc; cleavage; clinical; close; clustering; clusters; cnr; cnrs; coarse; coated; coefficient; coil; cold; coli; collagen; collagenase; collective; college; colloids; color; combination; combined; common; compact; comparable; comparison; complementary; complete; complex; complexes; components; composition; compounds; computational; computer; concentration; concept; conclusion; condensation; conditions; conductance; configuration; confined; confinement; confocal; confocal microscopy; conformational; conformational changes; consequence; conserved; considerable; consistent; constant; constructs; contact; content; continuous; contraction; contrast; contribute; contribution; control; controlling; conventional; conversion; coordination; core; correlation; corresponding; counterions; counting; coupling; covalent; cp29; cpt; critical; cross; crucial; crystal; crystalline; crystallography; culture; current; curvature; curves; cycle; cyclic; cysteine; cytochrome; cytometry; cytoplasm; cytoskeleton; cytosolic; damage; dark; data; day; days; death; decay; decrease; decreasing; deeper; defensins; degradation; degree; delivery; demonstrated; denaturation; denmark; densities; density; department; dependent; depletion; deposition; dept; derivatives; description; design; destabilization; detailed; details; detection; detergent; determination; determined; developed; development; device; diabetes; diameter; diaspro; dichroism; differences; different; different lipid; different membrane; different molecular; different proteins; differential; differentiation; diffraction; diffusion; dimensional; dimer; dimerization; dipartimento; dipole; direct; direction; discovery; disease; disordered; displacement; display; dissociation; distance; distinct; distribution; diverse; division; dmpc; dna; dna complexes; dna molecule; docking; domain; donor; dopc; double; dppc; drug; dsc; duplex; duration; dyes; dynamical; dynamics; dynamics simulations; e.g.; early; ecs; effect; effective; efficacy; efficiency; ejection; elastic; elc; electric; electrochemical; electrode; electron; electron microscopy; electrophoresis; electrophysiological; electrostatic; elements; elongation; emission; emodin; endogenous; energies; energy; energy transfer; engineered; engineering; enhancement; enriched; ensemble; enthalpy; entropy; entry; environment; enzymatic; enzyme; epr; equilibrium; erythrocytes; esr; essential; estimate; estimation; etbr; ethanol; eukaryotic; evanescent; events; evidence; example; excess; exchange; excitation; excited; exhibits; existence; expansion; experimental data; experimental results; experiments; explanation; exponential; exposure; expression; extended; extension; extensive; extent; external; extracts; extrusion; factors; faculty; failure; family; far; fast; faster; fatty; fccs; fcs; features; fibers; fibres; fibrillar; fibrils; field; filaments; film; filter; findings; fisica; fit; flexibility; flim; flow; fluctuations; fluid; fluidity; fluorescence; fluorescence correlation; fluorescence emission; fluorescence experiments; fluorescence intensity; fluorescence lifetime; fluorescence microscopy; fluorescence properties; fluorescence techniques; fluorescent protein; fluorophores; flux; fluxes; focus; focused; following; force; force microscopy; force spectroscopy; formation; forms; forward; fourier; fps; fragments; frame; france; frap; free; free energy; frequencies; frequency; fret; ftir; function; functionalized; functioning; fundamental; fungal; future; g protein; gag; gain; gap; gating; gel; gels; gene; general; generation; genetic; genome; genomic; genova; georgia; germany; gfp; giant; glucose; glutamate; glycation; goal; gold; good; gram; great; greater; green; grenoble; group; growth; guvs; göttingen; hairpin; half; hand; harmonic; head; heat; heating; heavy; heidelberg; helical; helices; helix; help; heme; hemoglobin; heparin; hepatitis; heterogeneity; high; higher; histone; hiv-1; hmga2; hmgb1; homologous; hormone; host; hours; hp1; hsa; hsp22; human; hungary; hybrid; hydrated; hydration; hydrodynamic; hydrogels; hydrogen; hydrolysis; hydrophobic; hyp; hypothesis; iapp; ideal; identical; identification; iii; iit; illumination; image; imaging; imaging microscopy; immobilization; immobilized; immune; impact; important; important role; inclusions; incorporated; incorporation; increase; incubation; individual; induced; induction; infection; influence; infrared; inhibition; inhibitors; initial; initiation; inner; inorganic; insertion; inside; insight; institute; instrument; insulin; intact; integral; integrin; integrity; intensity; interaction; interest; interesting; interface; interference; interior; intermediate; intermolecular; internal; interplay; intracellular; intrinsic; investigation; involved; ionic; irradiation; islet; isoforms; isolated; isothermal; isotropic; istituto; italian; italy; itc; japan; johannes; jump; kcl; kcsa; kda; key; kinase; kind; kinetics; knowledge; known; ktp; label; labeling; laboratory; lack; lambs; lapse; large; laser; lateral; law; ldl; leading; leaflet; length; level; lfa-1; lifetime; ligand; ligand binding; light; light scattering; like; like protein; likely; limited; limiting; linear; linked; linking; linz; lipid; lipid bilayer; lipid membranes; lipid vesicles; liposomes; liquid; literature; little; live cells; living; living cells; load; local; localization; lodz; london; long; longer; loop; loss; low; lower; lps; luciferase; lung; luv; lysine; lysozyme; macromolecules; macroscopic; magnetic; magnitude; major; mammalian; manner; marker; mass; material; mathematical; matrix; matter; maturation; maximum; means; measured; measurements; mechanical; mechanism; medical; medicine; medium; melting; membrane; membrane fluorescence; membrane fusion; membrane interaction; membrane microdomains; membrane potential; membrane properties; membrane protein; membrane structure; membrane surface; membrane system; membrane tension; metabolic; metal; method; methodology; mice; micelles; microdomains; microscopy; microtubules; migration; milan; millisecond; mimic; minimum; minor; mitochondria; mixed; mixing; mixtures; mobile; mobility; model; model membrane; model protein; model system; modeling; modifications; modified; modulates; modulation; moiety; molecular; molecular biology; molecular biophysics; molecular dynamics; molecular interactions; molecular level; molecular mechanism; molecule fluorescence; molecule force; molecules; monitoring; monolayers; monomeric; monomers; morphological; morphology; motif; motion; motor; movement; mrna; multiple; muscle; mutagenesis; mutant; mutated; mutations; myosin; nadh; nanoclusters; nanoparticles; nanoscale; national; native; natural; nature; ncp7; necessary; need; negative; nerve; nervous; netherlands; network; neurodegenerative; neuronal; neurons; neuroscience; neurotransmitter; neutral; neutron; new; nmr; noise; non; normal; nottingham; novel; nps; nuclear; nucleation; nucleic; nucleotide; nucleus; number; numerical; numerous; objective; observation; observed; occurrence; oligomerization; oligomers; oligonucleotide; ompf; ones; oocytes; open; opening; opposite; optical; optical microscopy; optical properties; orai1; order; organelles; organic; organisms; organization; organized; organs; orientation; original; osmotic; outer; outer membrane; overall; oxford; oxidation; oxidative; oxidized; oxygen; p2x; p53; packing; padova; pairs; palermo; parallel; parameters; parkinson; partial; particles; particular; partition; partitioning; partners; patch; pathological; pathway; patients; patterns; pcer; pdz; peak; peculiar; peg; peptide; permeability; permeation; peroxidation; peroxide; perpendicular; perturbation; pes; petersburg; pgk; phagocytosis; pharmaceutical; pharmacological; phase; phenomenon; phosphate; phosphatidylcholine; phosphatidylglycerol; phospholipid; photobleaching; photodynamic; photolysis; photon; photosynthetic; physical; physical properties; physics; physiological; physiology; picture; pigment; pisa; place; planar; planck; plant; plaques; plasma membrane; platelet; platforms; play; point; poland; polar; polarization; polarized; polymer; polymeric; polymerization; polypeptide; popc; populations; pore; porins; porous; portugal; positions; positive; possibility; possible; post; potassium; potential; powerful; ppme; precision; predictions; preliminary; prepared; presence; present; present study; presentation; pressure; presynaptic; previous; primary; prion; probability; probe; problem; process; processes; produce; production; products; profile; program; proiapp; project; proliferation; proline; promising; propagation; propensity; properties; property; protein; protein aggregation; protein binding; protein complexes; protein conformational; protein dynamics; protein function; protein interactions; protein molecules; protein stability; protein structure; protein surface; protocol; protonation; prp; psii; psm; pulse; pump; pure; purification; purified; purpose; putative; quantification; quantitative; quantum; quasi; quenching; questions; radical; raman; random; range; rapid; rate; ratios; rats; ray; rbc; reaction; reactive; real; rearrangements; recent; receptor; recognition; recombinant; reconstituted; reconstitution; recordings; recovery; redox; reduced; reflection; refolding; regime; region; regulate; regulation; regulatory; related; relationship; relative; relaxation; release; relevance; relevant; remarkable; removal; repair; replication; report; representative; repressor; republic; research; residues; resistance; resolution; resonance; respect; respiratory; response; responsible; results; reverse; reversible; review; rhodopsin; ribozymes; rich; rigid; rise; rna; role; rotational; russia; saint; salt; sample; sampling; sarcomere; saxs; scale; scanning; scattering; scheme; school; sciences; scientific; sclerosis; screening; second; secondary; section; segment; selective; selectivity; self; sense; sensing; sensitive; sensitivity; sensor; separation; sequence; series; serotonin; sers; serum; set; setup; severe; shape; shear; sheet; shg; shift; short; shorter; shows; shr; signal; signaling; significant; silicon; similar; simulations; simultaneous; single; single cell; single channel; single dna; single molecule; single protein; sirna; site; situ; size; skeletal; slices; sln; slovakia; slow; small; smaller; soce; sodium; soft; solid; soluble; solutions; solvent; source; space; spain; spatial; spatio; species; specific; specific dna; specific protein; specificity; spectra; spectroscopy; spectrum; speed; spherical; sphingomyelin; spindle; spontaneous; spr; square; stability; stabilized; stable; stages; standard; starting; state; state university; statistical; steady; stem cells; step; stimulated; stoichiometry; strain; strand; strategies; strategy; strength; stress; stretching; strong; structural changes; structural properties; structure; studied; study; subject; subsequent; substrate; subunit; sugar; suitable; superfamily; support; supramolecular; surface; surfactant; survival; sweden; switching; switzerland; syn; synapses; synaptic; synchrotron; syndrome; synko; synthesis; synthetic; synuclein; system; target; targeted; targeting; tau; tbilisi; techniques; technologies; technology; temperature; temporal; tension; terminal; terminus; terms; test; tethered; theoretical; theory; therapeutic; therapy; thermal; thermodynamic; thickness; thin; threshold; tht; time; tirf; tissue; titin; titration; tocopherol; tool; topology; total; toxic; toxicity; tracking; trafficking; trajectories; transcription; transduction; transfer; transient; transition; translational; translocation; transmembrane; transmission; transport; treatment; trieste; triplet; trp; tryptophan; tumor; turnover; tweezers; type; typical; tyrosine; u.k; u.s.a; ucp4; ukraine; ultrasound; umr; unclear; underlying; understanding; understood; unfolded; unfolding; unilamellar; unique; university; unknown; unusual; unwinding; uptake; usa; use; useful; uses; values; variable; variants; variation; variety; vectors; velocity; venom; versus; vesicles; vgsc; viability; vibrational; view; viral; virus; viruses; viscosity; visible; vitro; vivo; voltage; volume; walls; warwick; water; wavelength; waves; ways; weak; wide; wild; work; working; years; yeast; yidc; zwitterionic; zürich cache: cord-004534-jqm1hxps.txt plain text: cord-004534-jqm1hxps.txt item: #57 of 647 id: cord-004561-cer5ifac author: Astua-Monge, G. title: Evidence for a prokaryotic insertion-sequence contamination in eukaryotic sequences registered in different databases date: 2002 words: 3836 flesch: 47 summary: Extraction of BAC DNA BAC clones were obtained from a P. vulgaris BAC library (Vanhouten and Mackenzie 1999) . Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Genetic evidence against intramolecuar rejoining of the donor DNA molecule following IS10 transposition Contamination of DNA database sequence entries with Escherichia coli insertion sequences Comparison of the spike precursor sequences of coronavirus IBV strains M41 and 6/82 with that of IBV Beaudette One-hour downward alkaline capillary transfer for blotting of DNA and RNA Intermolecular transposition of IS10 causes coupled homologous recombination at the transposition site UV light induces IS10 transposition in Escherichia coli Incognito rRNA and rDNA in databases and libraries A symmetrical six-base pair target site sequence determines Tn10 insertion specificity DNA sequence organization of IS10-right of Tn10 and comparison with IS10-left DNA sequencing and comparative sequence analysis reveal that the Escherichia coli genomic DNA may replace the target DNA during molecular cloning: evidence for the erroneous assembly of E. coli DNA into database sequences Uses of transposons with emphasis on Tn10 Tn10 and IS10 transposition and chromosome rearrangements: mechanism and regulation in vivo and in vitro A rapid algorithm for sequence database comparisons: application to the identification of vector contamination in the EMBL databases A method for cloning restriction fragments containing the termini of BAC inserts IS10 promotes formation of adjacent deletions at low frequency Establishing a method of vector contamination identification in database sequences Spontaneous transposition in the bacteriophage λcro gene residing on a plasmid Detection of specific sequences among DNA fragments separated by gel electrophoresis Vector for IS element entrapment and functional characterization based on turning on expression of distal promoterless genes Construction and characterization of a common bean bacterial artificial chromosome library Acknowledgments keywords: analysis; bac; bac clones; bac dna; bac25l; blot; bnbac55; cells; clones; coli; common; contaminated; contamination; contig; database; dh10b; dna; ecori; element; eukaryotic; fig; fragment; gene; genomic; host; hybridization; hybridizing; insertion; is10r; libraries; library; new; observed; pcr; presence; probe; prokaryotic; restriction; results; sequence; site; southern; strain; tn10; transposable; transposition; vector; vulgaris cache: cord-004561-cer5ifac.txt plain text: cord-004561-cer5ifac.txt item: #58 of 647 id: cord-004584-bcw90f5b author: None title: Abstracts: 8th EBSA European Biophysics Congress, August 23rd–27th 2011, Budapest, Hungary date: 2011-08-06 words: 106959 flesch: 38 summary: to that of cell proteins (amide II band at *1550 cm -1 ) Membrane proteins and peptides are acting in an environment rich in other proteins or peptides. keywords: 1,2; able; absence; absorption; acceptor; account; accumulation; accuracy; accurate; acetylation; acid; acidic; actin; activation; active; activities; activity; acyl; adaptation; addition; address; adhesion; adp; advanced; advantages; affinity; afm; agent; aggregates; aggregation; agreement; aim; albumin; allosteric; alpha; altered; alternative; alzheimer; amb; amino; amounts; amplitude; amyloid; analogues; analysis; angle; animal; anionic; anisotropy; antenna; anti; antibiotics; antibodies; anticancer; antimicrobial; apoptosis; applications; applied; approach; appropriate; aqueous; architecture; area; arginine; array; artificial; aspects; assay; assemblies; assembly; assignment; associated; association; atomic; atomistic; atoms; atp; atpase; attention; august; available; axis; backbone; background; bacterial; bacteriorhodopsin; band; bar; base; basis; bcd; behavior; best; beta; better; bilayer; binding; biochemical; biological; biological membrane; biology; biomembranes; biomimetic; biomolecular; biophysical; blockers; blood; body; bond; bpl; brain; breaks; breast; bsa; budapest; buffer; bulk; bundling; ca2; calcium; calculated; calculations; calorimetry; cancer; cancer cells; capable; capacity; capsid; cardiac; carotenoid; carrier; case; catalytic; cationic; causes; cavity; cell; cell adhesion; cell biology; cell division; cell imaging; cell level; cell lines; cell membrane; cell migration; cell proliferation; cell protein; cell shape; cell surface; cell types; cellular; center; central; ceramide; chain; challenge; changes; channel; chaperonin; characteristics; characterization; characterized; charge; chemical; chemistry; chemotherapy; chitosan; chlorophyll; cholesterol; chr2; chromatin; chromophore; cin8; circular; clamp; class; classical; cleavage; clinical; close; clusters; coated; coefficients; coil; coli; collagen; collective; combination; combined; common; comparison; compartments; complete; complex; complexation; complexes; complexity; components; composition; compounds; computational; computer; concentration; concept; conclusion; conditions; conductance; conductivity; configuration; confirmed; confocal; conformational; conformational changes; conjugate; connected; consequences; conserved; consistent; consists; constant; contact; content; continuous; contraction; contrast; contribute; contribution; control; conventional; conversion; core; correlated; correlation; corresponding; cortex; coupling; crac; critical; cross; crowding; crucial; cryo; crystal; crystallography; ctd; cultures; current; curvature; cycle; cyclic; cytochrome; cytokine; cytoplasmic; cytoskeleton; cytosolic; daam; damage; data; days; death; decrease; decreasing; degradation; degree; delivery; denaturation; density; department; dependent; depletion; depolarization; deposition; description; design; detailed; details; detection; determination; determined; development; devices; diagrams; diameter; dichroism; differences; different; different cell; different lipid; different membrane; different protein; differential; differentiation; difficult; diffraction; diffusion; dimensional; dimer; dimeric; dimerization; direct; direction; diseases; disordered; displacement; displays; disruption; distance; distinct; distribution; diverse; division; dna; docking; domain; donor; dose; double; dox; doxorubicin; dppc; drms; drug; dsc; dyes; dynamical; dynamics; dynamics simulations; early; effect; effective; efficiency; elastic; electric; electrochemical; electron; electrophysiological; electrostatic; elements; embryo; emission; endocytosis; endothelial; energetic; energy; engineering; enhanced; ensemble; entire; entry; environment; enzymatic; enzyme; epithelial; epr; equilibrium; erythrocyte membrane; erythrocytes; essential; etc; eukaryotic; events; evidence; example; exchange; excitation; exhibit; existence; experimental results; experimentally; experiments; exposure; expression; extended; external; extracts; ezrin; factor; family; far; fast; faster; fatty; fcs; features; fiber; fibres; fibrillar; fibrils; fibrinogen; field; filaments; film; final; findings; flexibility; flow; fluctuations; fluid; fluorescence; fluorescence correlation; fluorescence microscopy; fluorescent protein; focus; folding; following; food; force; forespore; formation; forms; fourier; fraction; fragments; france; free; frequencies; frequency; fret; ftir; function; functionalized; functioning; fundamental; fusion; future; gap; gating; gel; gene; general; generation; genetic; genome; genomic; geometry; germany; gfp; globular; gm1; goal; gold; good; gradient; gram; grant; great; green; group; growth; gtp; hand; harvesting; hcv; head; heart; heavy; helical; helices; helix; help; heme; hemoglobin; herg1; heterogeneous; high; high membrane; high protein; higher; histone; homology; host; hours; hsa; human; hungarian; hungary; hyaluronic; hydration; hydrogen; hydrophobic; hydrophobicity; hyp; hypothesis; identification; iii; illumination; image; imaging; immune; impact; important; important role; improved; inactive; increase; incubation; individual; induced; induction; influence; infrared; inherent; inhibition; inhibitors; initial; inner; insertion; inside; insights; institute; insulin; intact; integrated; integrity; intensity; interaction; interest; interesting; interface; interfacial; intermediate; intermolecular; internal; intracellular; intracellular protein; intrinsic; invasion; invasive; investigated; investigation; ionic; isoforms; isolated; isothermal; itc; kda; key; kinase; kinetics; kit; known; labeling; laboratory; lack; large; laser; lateral; laurdan; ldl; leading; leads; leakage; leiomodin2; length; level; lifetime; ligand; light; like; likely; limitations; limited; linear; lipid; lipid bilayer; lipid composition; lipid interactions; lipid membrane; lipid molecules; lipid rafts; lipid structure; liposomes; liquid; little; live cells; living; living cells; local; localization; long; loop; loss; low; lower; lymphocytes; lysozyme; machinery; macromolecular; magnetic; magnitude; mail; major; malignant; mammalian; manipulation; manner; map; marker; mass; materials; matrix; max; means; measured; measurements; measuring; mechanical; mechanism; medical; medicine; medium; melting; members; membrane; membrane binding; membrane curvature; membrane domains; membrane dynamics; membrane fusion; membrane interaction; membrane organization; membrane potential; membrane properties; membrane protein; membrane structure; membrane surface; membrane systems; membrane vesicles; metal; metastatic; method; mhc; micelles; microenvironment; microscopy; microtubule; migration; mimic; minimal; mitochondrial; mixed; mixing; mixtures; model; model lipid; model membrane; model system; modeling; modifications; modified; modulation; molecular; molecular dynamics; molecular interactions; molecular level; molecular mechanism; molecule fluorescence; molecules; monitored; monitoring; monolayers; monomeric; monomers; morphological; morphology; mother cell; motif; motility; motion; motor; movement; mrna; multiple; muscle; mutagenesis; mutants; mutations; myosin; nanoparticles; nanoscale; narrow; national; native; natural; nature; needle; negative; nerve; netherlands; network; neural; neurodegenerative; neuronal; neurons; neutron; new; nmr; non; normal; novel; nps; nrf; ns4b; nuclear; nucleation; nucleic; nucleotide; nucleus; number; numerical; numerous; observations; observed; occurring; oligomerization; oligomers; ones; open; opening; opp; opposite; opsins; optical; optimization; order; ordered; organic; organisms; organization; orientation; oriented; osmotic; outer; overall; oxidation; oxide; oxygen; packing; pairs; parallel; paramagnetic; parameters; parkinson; partial; particular; partition; patch; pathological; pathway; patients; patterns; pca; peg; pegylated; peptide; performance; peridinin; pgk; pharmaceutical; phase; phenomena; phosphate; phosphatidylcholine; phospholipids; phosphorylation; photobleaching; photochemical; photodynamic; photosensitizer; photosynthetic; photosystem; physics; physiological; picture; planck; plane; plants; plasma membrane; platelet; plus; pocket; point; poland; polar; polarity; polymerization; polymers; polypeptide; poor; popc; populations; pore; porphyrin; positive; possibility; possible; potential; powerful; precise; prepared; presence; present; present study; presentation; pressure; previous; primary; prior; probe; problems; processes; products; profile; program; progress; progression; project; proliferation; promising; properties; property; protease; protein; protein aggregation; protein binding; protein complex; protein dynamics; protein environment; protein function; protein interactions; protein stability; protein structure; protein surface; protein translocation; proton; proximal; proximity; prp; pulse; pump; pure; purification; purified; purple; purpose; putative; quality; quantitative; quantum; quenching; question; quinone; radiation; rafts; raman; random; range; rapid; rate; ray; reaction; reactive; real; recent; receptor; recognition; recombinant; recorded; recruitment; redox; reduced; reduction; reference; reflection; region; regulated; regulation; related; relationship; relative; relaxation; release; relevant; reliable; repair; replication; report; research; residues; resistance; resolution; resonance; respect; respiratory; response; responsible; resulted; results; reversible; rich; rise; rna; role; rutin; salt; samples; saxs; scale; scanning; scattering; science; screening; seca; second; secondary; secondary structure; secretion; segments; selected; selective; selectivity; self; sensing; sensitive; sensitivity; sensor; separated; separation; sequence; series; sers; serum; set; shape; sheet; shift; short; shows; signal; signaling; significant; similar; simple; simulations; simultaneous; single; single cell; single molecule; single protein; sites; situ; size; skeletal; slbs; slow; small; smaller; sodium; solid; soluble; solutions; solvent; source; space; spatial; species; specific; specific membrane; specific protein; specificity; specimens; spectra; spectrometry; spectroscopy; spectrum; speed; sphingomyelin; spin; ssbauer; stability; stabilized; stable; standard; state; steady; step; stiffness; stimuli; stoichiometry; strand; strategies; strength; stress; stretch; strong; stronger; structure; studies; study; subcellular; subsequent; substrate; subunits; sugar; suitable; super; supported; supramolecular; surface; surfactants; survival; switching; symmetry; synaptic; synthesis; synuclein; system; systematic; t cells; talk; target; targeted; targeting; tau; techniques; technology; temperature; temporal; tension; terminal; terms; test; theoretical; theory; therapeutic; therapy; thermal; thermodynamic; thickness; threshold; time; tirf; tissue; titration; tool; torque; total; toxic; toxicity; tracking; trafficking; transcription; transduction; transfer; transform; transient; transition; translocation; transmembrane; transport; treatment; trehalose; tryptophan; ttc; ttingen; ttr; ttss; tumor; tumor cells; turn; tweezers; type; typical; tyrosine; udu; unclear; understanding; unfolded; unfolding; unilamellar; unique; university; unknown; uptake; usa; use; values; variable; variations; variety; velocity; vesicles; vibrational; view; viral; virus; viruses; viscosity; vitro; vivo; voltage; volume; water; wavelength; way; weak; wide; wild; work; working; years; yeast; znpc; zwitterionic cache: cord-004584-bcw90f5b.txt plain text: cord-004584-bcw90f5b.txt item: #59 of 647 id: cord-004675-n8mlxe7p author: None title: 2019 CIS Annual Meeting: Immune Deficiency & Dysregulation North American Conference date: 2019-02-26 words: 86609 flesch: 43 summary: Background: Patients with primary immune deficiencies characterized by severe T lymphopenia and/or poor T cell function and patients posthematopoietic cell transplantation are at high risk of severe viral infections. In this study, we investigated effect of IL12R1 mutation in IL-12/IFNaxis by evaluation of patients whole blood cell response to IL-12 and IFN-, IL-12R1 expression in PBMCs and T cell blasts. keywords: + cells; abdominal; abnormal; abnormalities; abscesses; absence; absent; absolute; acid; activation; activity; acute; ada; addition; administration; admission; adult; adult patients; advanced; adverse; affected; affected patients; afp; african; age; age patients; aged; agents; allele; allergy; allogeneic; alpha; alps; altered; alternative; american; amino; anakinra; analysis; anemia; anti; antibiotics; antibodies; antibody; antibody deficiency; antigen; antimicrobial; apeced; apoptosis; appropriate; arthritis; aspergillus; assay; assessment; associated; association; asthma; asymptomatic; ataxia; atopic; atypical; autoantibodies; autoimmune; autoimmunity; autoinflammatory; autologous; autosomal; available; average; b cells; background; bacterial; bartonella; baseline; bcl11b; beta; bilateral; binding; biopsy; birth; blood; blood cell; bone; bowel; boy; brain; broad; bronchiectasis; brother; c1q; cancer; candida; candidiasis; capacity; card11; care; carrier; case; caucasian; causes; cd19; cd27; cd3; cd34; cd4; cd40l; cd8; cd8 t; cell counts; cell development; cell function; cell lymphopenia; cell numbers; cell proliferation; cell receptor; cell transplantation; cellular; center; central; cervical; cgd; ch50; change; characteristics; chart; chest; chh; childhood; children; chimerism; chronic; class; clear; clinical; clinical diagnosis; clinicians; cmv; cohort; colitis; combined; combined immunodeficiency; common; comorbidities; comparable; complement; complete; complex; complicated; complications; compound; concentrations; concern; conclusions; conditioning; conditions; congenital; consanguineous; consistent; continued; contrast; control; conventional; copa; cord; correlation; corticosteroids; counseling; counts; course; criteria; critical; csf; ctla-4; ctla4; cultures; cvid patients; cytokine; cytometry; cytopenias; cytotoxicity; daily; damage; data; days; death; decision; decrease; defective; defects; deficiencies; deficient patients; definitive; delay; delayed; deletion; delta; demographic; department; dependent; development; dhr; diagnosis; diarrhea; differences; different; differential; differentiation; diffuse; discussion; disease; disorders; distinct; dna; dock8; domain; dominant; donor; dose; double; drug; dsdna; duffy; duration; dysfunction; dysregulation; earlier; early; ebv; ecs; eczema; effective; effects; efficacy; elevated; encodes; endocarditis; endoscopy; engraftment; enteropathy; enzyme; episodes; errors; essential; established; etanercept; etiology; evaluation; events; evidence; examination; exome; exon; expansion; expression; extl3; face; facial; factor; fadd; failure; familial; family; fas; fatigue; features; febrile; female; fever; figure; fill; findings; flow; fluid; fmf; following; foxn1; free; frequency; frequent; function; fungal; future; gain; gastrointestinal; gata2; gene; general; generation; genetic; genomic; gof; good; granulomatous; greater; group; growth; gvhd; h2ax; hair; haploinsufficiency; hct; healthy; help; hematopoietic; hepatic; hepatitis; heterozygous; hies; hies patients; high; higher; history; hla; hlh; homozygous; hospital; hospitalization; host; hours; hscs; hsct; hsct patients; hsp; human; humoral; hydroxychloroquine; hypertension; hypogammaglobulinemia; hypomorphic; ibd; identification; ifn; iga; igd; ige; igg; igg4; ighy; igm; igrt; igsc; ikaros; il-18; il-2; il-6; illness; imaging; immune; immune cell; immune deficiency; immunodeficiency; immunodeficiency patients; immunoglobulin; immunological; immunology; immunosuppression; impact; impaired; important; improved; improvement; inborn; incidence; increased; index; individuals; induced; infants; infections; inflammation; inflammatory; infliximab; information; infusion; inhibitor; initial; innate; institute; intensity; interferon; interpretation; interstitial; intracellular; intravenous; introduction; invasive; irradiation; isolated; ivig; key; kidney; knowledge; known; laboratory; lack; large; later; lead; left; lesions; leukemia; levels; life; ligand; likely; limited; literature; liver; local; long; loss; low; low t; lower; lung; lung disease; lupus; lymphadenopathy; lymphocyte; lymphoid; lymphoma; lymphopenia; lymphoproliferation; majority; male; malignancies; malignancy; management; manifestations; markers; marrow; mass; maturation; mcl; mean; mechanism; median; medical; medications; medicine; mefv; members; memory; memory b; mental; metabolic; methods; mice; mild; minimal; missense; mitogen; mm3; mmr; model; moderate; molecular; monogenic; months; mortality; mother; mouse; mri; multiple; mutant; mutations; mycobacterial; n=1; nasal; national; natural; naã¯ve; naã¯ve t; nbs; necrosis; need; negative; neurological; neutralizing; neutropenia; neutrophil; newborn; nfkb2; niaid; nih; nk cells; nodes; non; normal; normal t; northwell; novel; novo; number; oas1; objectives; old; older; ongoing; onset; oral; organs; osteomyelitis; otitis; outcomes; overall; oxidase; pad; pain; pancytopenia; panel; parameters; parents; partial; participants; particular; past; pathogenic; pathway; patient b; patients; patients clinical; pbmcs; pcr; pediatric; pediatric patients; percentile; pericarditis; period; peripheral; persistent; phase; phenotype; phenotyping; phosphorylation; physical; pid; pid patients; pidd; pids; pjp; plasma; platelet; plcg2; plt; pneumococcal; pneumonia; pneumonitis; poig; poor; population; positive; possible; post; potential; prednisone; pregnancy; presence; present; presentation; presumed; prevalence; previous; primary; primary immune; primary immunodeficiency; prior; process; production; profile; progressive; proliferation; prolonged; prophylaxis; proportion; protective; protein; protocol; providers; pulmonary; purpura; qol; quality; quantification; quantitative; radiosensitivity; rag1; range; rare; rash; rate; rationale; rdd; reactive; receiving; recent; receptor; recessive; recipient; recombination; reconstitution; recurrent; recurrent infections; reduced; reference; refractory; regimen; region; registry; regulatory; related; relative; renal; repair; repeat; repertoire; replacement; reported; reports; required; research; resolution; respiratory; response; results; retrospective; review; right; risk; rituximab; rna; role; rotavirus; routine; rvt-802; s1p; safety; samples; scid; score; screening; secondary; seizures; self; sepsis; sequence; sequencing; series; serum; setting; severe; severe t; severity; siblings; sided; signaling; signature; significant; signs; similar; single; sinopulmonary; sinusitis; sister; site; size; skin; small; specific; spectrum; splenomegaly; spontaneous; standard; state; status; stem; stem cell; steroids; stim1; stimulated; stimulation; streptococcus; studies; study; subcutaneous; subjects; submission; subsequent; subsets; successful; suggestive; summary; support; surgical; survey; survival; susceptibility; suspicion; switched; symptoms; syndrome; system; systemic; t cells; table; targeted; tcl; tcr; telangiectasia; telomere; term; terminal; testing; tests; tetanus; tfh; therapeutic; therapies; therapy; thought; threshold; thrombocytopenia; thymic; thymus; time; tissue; titers; tnf; tool; total; tract; transient; transplant; transplantation; treatment; trec; treg; trial; trough; ulcers; uncertain; underlying; understanding; underwent; undetectable; unique; university; unknown; unrelated; upper; usa; use; usidnet; vaccination; vaccine; values; variable; variant; vasculitis; viral; viremia; virus; vitro; vivo; vsts; warts; weekly; weeks; weight; wes; white; work; workup; worsening; xla; years; years old; yrs; zap70 cache: cord-004675-n8mlxe7p.txt plain text: cord-004675-n8mlxe7p.txt item: #60 of 647 id: cord-004879-pgyzluwp author: None title: Programmed cell death date: 1994 words: 81833 flesch: 47 summary: 8cl-2(z is a mitochondrial or perinuclear-associated oncoprotein that prolongs the life span of a variety of cell types by interfering with programmed cell death. Single and repetitive uptake and release of CPZ were measured in each cell type after individual exposure or exposure in any combination of cell types: In 2 hour competitive uptake studies fibreblasts reached 1.7 and 2.6 times the concentrations of C6-and ROC-cells, :respectively. keywords: 14c; ability; able; absence; absent; accumulation; acid; acid sequence; acidic; actin; activation; active; activities; activity; addition; adhesion; adjacent; adult; affected; affinity; afm; agonist; agrin; ahspgs; aim; altered; amino; amino acid; amounts; amplified; amplitude; analysis; anatomy; animals; anp; antagonist; antennapedia; antibodies; antibody; antigen; antisense; antiserum; apical; apoptosis; apparent; appearance; approach; arachidonic; ascaris; assays; assembly; associated; astrocytes; atp; atpase; attachment; aug; autocrine; avp; axons; b16; bacteria; band; basel; basic; basolateral; behavior; bern; beta; beta cells; binding; biochemical; biological; biosynthesis; birth; block; blood; blot; bovine; brain; brain cell; breakdown; bsf1; ca2; ca2+]i; ca3; calcium; calf; calretinin; camp; capacity; capsid; cases; catalytic; cause; cd44s; cd48; cdc2; cdna; cell adhesion; cell cultures; cell cycle; cell death; cell growth; cell lines; cell membrane; cell proliferation; cell receptor; cell surface; cell type; cells; cellular; central; cerebral; certain; chain; changes; channels; characterization; characterized; chat; chicken; chimeric; chitinase; chromatin; chromatography; chromosome; cigarette; class; cleavage; clinical; cloned; cloning; close; cns; coding; coil; coli; collagen; column; common; comparable; comparison; complete; complex; complexes; component; compound; computer; concentrations; conclusion; conditions; conductance; cones; confocal; consensus; conserved; consistent; constant; constructs; contact; contain; content; contrast; control; conventional; conversion; copies; cord; core; correct; correlation; corresponding; cortex; cortical; coupling; course; cpz; cross; crucial; csa; csf-1; cultures; current; cycle; cysteine; cytokines; cytoplasmic; cytoskeletal; data; days; death; decrease; defective; deficient; degradation; degree; deletion; density; department; dependent; dependent protein; depolarization; detectable; detection; determined; development; diameter; differences; different; differential; differentiation; direct; disappearance; disease; displacement; disruption; dissociation; distal; distinct; distribution; division; dna; domain; domain protein; dominant; dose; double; drosophila; drug; e.g.; early; edna; effects; efficient; electrical; electron; electrophoresis; elegans; elements; elevated; elongation; embryonic; embryos; encodes; encoding; endogenous; endothelial; energy; enhanced; enriched; entry; envelope; environment; enzyme; epithelial; epithelial cells; epitopes; essential; established; events; evidence; evoked; evolutionary; exchange; excitatory; exercise; existence; expected; experiments; exposure; expressed; expression; expression system; extent; external; extracts; eye; facial; factor; family; fatty; features; fetal; fibers; fibroblasts; field; findings; flanking; flies; flow; fluorescence; fold; following; force; form; formation; fos; fraction; fragments; frame; free; frequency; fribourg; function; fusion; fusion proteins; gaba; gap; gbl; gel; gels; gene; gene expression; general; generation; genetic; geneva; genome; genomic; germ; gland; glial; glucose; glutamate; glycine; glycogen; glycoprotein; glycosylated; goats; gone; gpi; grant; groups; growth; gtp; gvbd; habitual; hairless; hairpin; half; hand; hbv; hca; hcmv; heat; hela; helicase; hepatocytes; heterodimer; high; higher; highest; histidine; histone; hiv; homologous; homology; hormone; host; hours; hplc; hsp82; human; human cell; hybridization; hydrolysis; hydrophobic; hypothesis; iba; identical; identity; ifn; iii; il-1; il-2; il-6; il-8; immune; immunofluorescence; immunoreactive; important; inactive; incorporation; increased; incubation; independent cells; individual; induced; inducible; induction; infected; infected cells; infection; influence; influx; inhibited; inhibition; inhibitory; inhibits; initial; initiation; inner; inos; insect; institut; insulin; intact; intensity; interaction; intestinal; intracellular; investigation; involution; involved; involvement; inward; ir cells; iron; isoforms; isolated; isolation; k +; kda; kda protein; key; kinase; kinetics; known; laboratory; lack; large; lausanne; layer; lead; leaf; length; lesion; levels; library; ligand; light; like; likely; limited; linear; linking; lipid; little; liver; localization; localized; long; loop; loss; low; lower; lph; lps; lumbricoides; lung; lymphoid; m26; macrophages; major; mammalian; mammalian cells; mammals; mammary; manner; map; map-115; mapping; marker; mass; matrix; maturation; mature; max; mbp; means; measured; mechanisms; medical; medium; meiosis; meiotic; melanoma; members; membrane; mesangial cells; metabolic; method; methylation; mg protein; mice; microbiology; microfilaments; microglial cells; microscopy; microtubules; middle; minor; mismatch; mitochondrial; mitosis; mitotic; mlc; mmtv; model; moderate; modification; modified; molecular; molecules; molekularbiologie; monoclonal; morphology; motoneurons; motor; mouse; mpr; mrna; multiple; murine; muscle; muscle cells; mutagenesis; mutant; mutated; mutations; mxl; myc; myelin; native; natural; necessary; necrosis; negative; neonatal; nerve; nervous; neural; neurite; neuronal; neuronal cells; neurons; new; newborn; nfmb; nitric; nmda; non; normal; northern; novel; npy; nt-4/5; ntcp; nuclear; nuclei; nucleotides; nucleus; number; numerous; observed; oct-1; octamer; oligodendrocytes; oligonucleotide; oncogene; onset; oocytes; open; opposite; order; orf; organ; organisms; organization; origin; oscillations; ouabain; outer; outgrowth; overexpression; oxide; p53; page; pairing; pancreatic; parasite; partial; particle; particular; pathogenic; pathway; patients; pattern; pax7; pcr; pdgf; peak; peptide; performance; period; phase; phenotype; phenylalanine; phosphatase; phosphorylation; physiological; physiology; pka; pkc; pkr; plants; plasma; plasmid; plasticity; play; plp; pmo; pnh; point; polymerase; polypeptide; pombe; population; position; positive; positive cells; possibility; possible; post; postnatal; potential; pou; precursor; preliminary; preparations; presence; present; pressure; previous; primary; primers; probe; process; processes; processing; production; products; programmed; progression; proliferation; prominent; promoter; propagation; properties; prostate; protease; protein; protein expression; protein gene; protein kinase; protein level; protein sequence; protein synthesis; protein tyrosine; proteolytic; prp; pth; ptps; purification; purified; purpose; putative; quantitative; question; rabbits; radiation; range; rapid; rat; rat cells; rate; rats; reaction; reading; recent; receptor; recognition; recombinant; recombinant protein; recombination; reduced; region; regular; regulated; regulation; regulatory; related; relationship; relative; release; renal; repair; repeats; repetitive; replication; replication protein; reporter; residues; resistance; respective; response; responsible; restricted; results; retina; reversed; rich; rise; rive; rna; rnas; role; rps19; s03; s05; s08; s15; samples; scanning; scf; schwann cells; sciatic; science; screening; sds; search; second; secondary; secretion; secretory; sections; segment; selective; sensitive; sensitivity; separation; sequence; sequence analysis; sequencing; series; serine; serum; set; share; shift; shock; short; signal; signalling; significant; silver; similar; similarity; single; sites; situ; size; small; smcs; smooth; snrnp; sodium; soluble; solution; somatic; space; spatial; species; specific; specific activity; specific expression; specificity; spinal; spindle; splicing; spontaneous; stability; stable; stage; staining; start; step; steroid; stimulated; stimulation; stores; strain; strand; strong; structure; studies; study; subcellular; subsequent; subset; substrate; subunit; support; surface; survival; sustained; swiss; switzerland; synapses; synaptic; synthase; synthesis; synthetic; system; t cells; target; target cells; targeting; tau; technique; telomeric; temperature; terminal; terminus; test; testing; thymus; time; tissue; tnf; tobacco; total; transcription; transcripts; transfected; transfection; transfer; transformation; transformed; transgenic; transient; translation; transmembrane; transmission; transport; treatment; tumor; tumor cells; type; typical; tyrosine; underlying; unique; university; unknown; upstream; uptake; usp; vaccinia; variants; variety; vascular; vector; velocity; vertebrates; vesicles; vip; viral; virus; viruses; vitro; vivo; voltage; vp16; water; weeks; weight; western; wild; work; wortmannin; wound; xenopus; xii; yeast; ykl312; ziirich; zinc cache: cord-004879-pgyzluwp.txt plain text: cord-004879-pgyzluwp.txt item: #61 of 647 id: cord-004948-ad3i9wgj author: None title: 7th International Congress on Amino Acids and Proteins : Vienna, Austria, August 6–10, 2001 date: 2001 words: 73789 flesch: 41 summary: After the performic acid oxidation and the 6 M HCl hydrolysis of the protein, OPA/TATG (o-phthaldialdehyde/tetra-O-acetyl-1-thio--D-glucopiranoside) precolumn derivatisation method was used, and the enantiomers of sulphur containing amino acids were separated by RP-HPLC (LiChrosphere 100 RP-18e, 125 ϫ 4 mm, 5 µm column, Merck-Hitachi LaChrom HPLC). The dominant ones are water, ethanol, glycerol, sugars, organic acids, and various ions, while amino acids are present at much lower concentration. keywords: 1,2; ability; able; abnormalities; absorption; academy; accumulation; acid residues; acid transport; acids; acquisition; actions; activation; active; activities; activity; acute; acyl; addition; administration; adult; affected; affinity; agents; aim; alanine; albebetin; albumin; aldehydes; alpha; alterations; altered; alternative; alzheimer; amd1; amino acid; ammonia; ampa; analogs; analogues; analysis; angiotensin; animals; anion; anit; antagonists; anti; antibodies; antidepressant; antigenic; antigens; antioxidant; antiviral; ap5; apob-100; apoptosis; apoptotic; application; applied; approach; arabidopsis; area; arginine; aromatic; aspartate; aspartic; assay; associated; ata3; atp; available; b12; bacteria; basal; basic; bearing; better; binding; biochemical; biochemistry; biological; biology; biosynthesis; blood; body; bond; bovine; brain; brain proteins; branched; breast; broad; ca1; calcium; cancer; candidate; capable; capacity; carbon; cardiac; carrier; case; caspases; catalytic; catalyzed; cationic; cationic amino; causes; cck; cdna; cell; cellular; center; central; centre; cerebellar; cerebral; certain; chain; changes; channels; characteristic; characterized; charge; chemical; chemistry; chloride; cholesterol; chromatography; chronic; classes; cleavage; clinical; cloned; cns; coli; column; combination; common; comparison; competitive; complex; complexes; complications; components; composition; compounds; concentration; conclusion; conditions; conjugated; consequence; content; contrast; control; conventional; conversion; cord; correlation; corresponding; cortex; cortical; course; creatine; critical; cross; cultures; current; cycle; cysteine; cytokine; cytosolic; cytotoxic; d-2; damage; data; databank; days; death; decarboxylase; decreased; deficiency; degradation; degree; dehydrogenase; density; department; dependent; depletion; deprivation; derivatives; design; detectable; detection; determination; development; diet; dietary; differences; different; differential; differentiation; dimensional; direct; disease; disorders; distinct; distribution; dna; domain; donor; dopa; dopamine; dopaminergic; dose; double; drug; dynorphin; dysfunction; early; edema; effect; effective; efficacy; efflux; egcg; electrophoresis; elevated; embryos; encoding; endogenous; endothelial; energy; enhanced; enos; enzymatic; enzyme; epileptic; essential; essential amino; established; ethanol; evaluation; evidence; evoked; example; exchange; excitatory; excretion; exercise; experiments; exposure; expression; extracellular; extracts; fabp; factor; faculty; family; fatty; fed; feedback; feeding; female; fetal; fibroblasts; fibronectin; findings; fish; flow; fluid; fluorescence; fold; following; food; formation; fraction; fragment; fragmentation; free; free amino; frontal; function; gaba; gamma; gapd; gel; gels; gene; general; genetic; germany; gln; glu(bu; glucose; glutamate; glutamatergic; glutamic; glutamine; glutathione; glycine; good; grant; great; greater; green; group; growth; gsh; hand; hcmv; healthy; heart; heavy; hepatic; high; higher; hippocampus; histidine; homocysteine; homology; hospital; hours; hplc; human; hydrolysis; hydrophobic; hyperforin; hypoxia; i.p; identification; igf-1; igg; il-8; illness; imaging; immature; immune; immunoreactivity; impaired; important; incorporated; incorporation; increase; increasing; incubation; individual; induced; induction; inflammatory; influence; influx; inhibited; inhibition; inhibitors; injection; injury; institute; instrument; insulin; intact; intake; interaction; interest; intestinal; invasive; investigation; involved; involvement; ionization; iron; ischemia; isoforms; isolated; italy; japan; kainate; kainic; kda; key; kidney; kinase; kinetics; known; laboratory; lactate; large; laser; lateral; ldl; lens; leucine; levels; levodopa; ligand; light; like; likely; limited; line; linear; lipid; lipoate; little; liver; long; lor; loss; lower; lpi; ltd; lung; lymph; lysine; main; major; maldi; male; mammalian; manner; marker; mass; matrix; maturation; means; measurements; mechanism; medical; medicine; medium; melatonin; membrane; memory; metabolism; metabolites; metabotropic; methionine; method; methyl; mglurs; mice; microbial; microdialysis; microinjection; migration; minutes; mitochondrial; mixture; mk-801; model; modifications; modulate; modulation; moiety; molecular; molecules; monitoring; monoclonal; months; motor; mouse; mpep; mrna; multiple; muscle; mutant; mutations; national; native; natural; nature; nervous; neurodegenerative; neurological; neuronal; neuronal amino; neurons; neuroprotective; neurotransmitter; neutral; neutral amino; neutrophil; new; nitration; nitric; nitrogen; nitrotyrosine; nmda; nmol; nmr; nodes; non; normal; novel; novo; number; nutritional; observations; observed; odc; oocytes; order; organic; organisms; ornithine; oxidase; oxidation; oxidative; oxide; oxygen; page; pain; parameters; parkinson; particular; pathogenesis; pathology; pathway; patients; pattern; pcr; peptide; performance; period; peripheral; pharmaceutical; pharmacological; pharmacology; phase; phenotype; phenylalanine; phosphate; phosphorylation; physical; physiological; physiology; placebo; plant; plasma; plus; pmn; point; poland; polyacrylamide; polyamines; possibility; possible; post; potential; precursor; pregnancy; prepared; presence; present; present study; pressure; previous; primary; prior; problem; processes; processing; production; products; proliferation; proline; prolonged; properties; protein amino; protein levels; protein synthesis; proteins; proteome; proteomics; pulse; purified; purpose; putative; putrescine; quantification; quantitative; radical; range; rapid; ratios; rats; reaction; reactive; reagents; recent; receptor; recognition; recovery; reduced; reductase; regions; regulated; regulation; regulatory; related; relative; release; renal; report; research; residues; resistant; resonance; response; responsible; results; reverse; risk; role; roots; samples; school; sciences; sdh; second; secondary; secretion; seeds; selective; sensitive; sensitivity; separation; sequence; series; serine; serum; sessions; set; severe; shock; short; shows; signaling; signals; significant; similar; single; site; size; small; sodium; software; solid; soluble; solution; source; space; species; specific; specificity; spectra; spectrometry; spectroscopy; spectrum; spermine; spinal; spots; standard; state; status; step; stimulated; stimulation; strain; stress; stressed; striatal; striatum; stroke; strong; structure; studies; study; subjects; subsequent; substance; substrate; subtype; subunits; sulfate; sulfur; supplementation; supplemented; support; surface; survival; switzerland; symptoms; synaptic; syndrome; synthase; synthesis; synthetic; system; systemic; target; taurine; technique; technology; temperature; terminal; test; testing; theanine; therapeutic; therapy; threonine; throughput; time; tissue; tof; tokyo; total; training; transcription; transfer; transformed; transgenic; translation; transmission; transport; transporters; trauma; treated; treatment; trp; tryptophan; ttg; tumor; type; tyrosine; u.k; u.s.a; unique; university; unknown; uptake; urea; urinary; use; useful; values; variety; vascular; vegf; veratridine; viral; virus; vitamin; vitro; vivo; vldl; volatile; volume; water; weeks; weight; wide; wild; wistar; work; working; ybbq; years; yhae; young cache: cord-004948-ad3i9wgj.txt plain text: cord-004948-ad3i9wgj.txt item: #62 of 647 id: cord-004995-5jmjejbp author: Hunt, Hamish C. title: Optofluidic integration for microanalysis date: 2007-09-11 words: 17325 flesch: 33 summary: The majority of optical detection systems in microfluidics address flow cytometry or capillary electrophoresis (CE). Less common methods for optical detection in microfluidic devices, such as Raman spectroscopy, are reviewed by (Viskari and Landers 2006) . keywords: absorbance; absorption; advantage; analysis; analyte; angle; apparatus; application; approach; array; attractive; background; beads; beam; biological; blood; bulk; capillary; ccd; cells; changes; channel; chemical; chemistry; chip; chromatography; coli; collection; colloids; complex; components; concentration; confocal; control; conventional; cost; cytometry; dependent; depth; detailed; detection; detector; determination; device; diameter; different; diffusion; diode; direct; dna; dye; electrokinetic; electrophoresis; enhancement; et al; evanescent; example; excitation; external; fibre; field; fig; films; flow; fluorescence; fluorescence detection; fluorophore; focussed; focussing; forces; free; frequency; functions; glass; gold; gradient; grating; high; human; immunoassay; improved; incident; index; individual; information; integrated; integration; intensity; interference; internal; label; large; laser; lens; light; line; liquid; loc; lod; long; manipulation; measurements; medium; metal; methods; microchannel; microchip; microflow; microfluidic; microfluidic channel; microfluidic chip; microfluidic device; microfluidic systems; microscope; microsystems; molecular; molecules; monitoring; multi; nanoparticles; need; noise; non; novel; opposite; optical; optical detection; optics; output; parallel; particles; path; pdms; permission; phase; plasmon; polymer; polystyrene; portable; potential; power; pressure; prism; probe; propulsion; pumps; radiation; raman; rapid; reaction; recent; red; reduced; reflection; refractive; resonance; sample; scattering; schematic; section; sensing; sensitive; sensitivity; sensor; separation; sers; short; signal; silica; silicon; silver; similar; single; size; small; society; solution; sorting; species; specific; spectra; spectroscopy; spectrum; speed; spheres; spr; structures; study; substrate; surface; systems; target; techniques; terms; thermal; throughput; time; tlm; total; transmission; trapping; traps; use; virus; volume; waveguide; wavelength; wide; workers; yeast cache: cord-004995-5jmjejbp.txt plain text: cord-004995-5jmjejbp.txt item: #63 of 647 id: cord-005048-9fs1ienf author: Retief, E. title: Potential Inoculum Sources of Phaeomoniellachlamydospora in South African Grapevine Nurseries date: 2006-06-07 words: 5058 flesch: 52 summary: Several putative P. chlamydospora PCR products (360 bp amplicons) were obtained with the onetube nested-PCR ( Figure 2 ): 25% of rootstock cane sections collected from mother blocks, 42% of rootstock cuttings collected during grafting, 16% of scion cuttings, 40% of water samples collected after the pre-storage hydration, 76% of water samples collected during grafting, 50% of the callusing medium samples and 17% of the soil samples collected from mother blocks. (2003) also found a very high percentage of positive P. chlamydospora samples from both pre-storage and pre-grafting hydration and fungicide tanks in New Zealand commercial nurseries. keywords: africa; amplicons; analyses; blocks; callusing; canes; chlamydospora; cuttings; detection; disease; dna; et al; extraction; fourie; genomic; grafting; grapevine; halleen; hydration; infected; inoculum; medium; min; mother; nurseries; nursery; pathogen; pcr; petri; phaeomoniella; plants; positive; pre; presence; primer; restriction; rootstock; samples; scion; soil; sources; south; species; specific; storage; tanks; tube; water; whiteman; wood cache: cord-005048-9fs1ienf.txt plain text: cord-005048-9fs1ienf.txt item: #64 of 647 id: cord-005147-mvoq9vln author: None title: Autorenregister date: 2017-02-23 words: 86765 flesch: 41 summary: While a long list of gene mutations have so far been described to be responsible for the disease phenotype, little is known about the underlying neuronal mechanisms. WD pathogenesis, however, can not only be explained by gene coding mutations since phenotypes exhibit strong variations despite the same exonic DNA makeup in the gene. keywords: 003; 005; 1,2; aberrant; aberrations; abnormalities; absence; absent; abstracts; acid; active; activity; additional; additional mutations; adult; advantage; adverse; ae1; affected; affected patients; age; agilent; aim; allele; alterations; altered; alternative; amd; amino; aml; analysis; analyzed; anemia; anomalies; apoptosis; approach; appropriate; arm; array; aspects; assay; assembly; assessment; associated; association; assumed; asxl2; asymptomatic; ataxia; atp7b; autism; autosomal; available; average; background; basis; bbs; behavioral; benign; berlin; best1; better; biallelic; bilateral; binding; biochemical; biological; biopsies; biopsy; birth; bl variants; blood; blot; bmi; body; bone; boy; brain; brca1; brca1/2; breakpoints; breast; breast cancer; broad; brother; burkitt; cag; calls; cancer; cancer genes; candidate; candidate genes; capture; carcinoma; card14; cardiac; carriers; cas9; cases; causal; causative; cause; ccdc66; cdkl5; cdna; cell; cellular; center; central; cerebral; cftr; cgh; challenge; changes; channel; characteristic; characterization; characterized; chd; chek2; chh; childhood; children; chip; chloride; chromatin; chromosome; classical; classification; cleft; clinical; clinical diagnosis; clinical features; clonal; clones; close; cmt; cnvs; coding; codon; cognitive; cohort; combination; combined; common; comparison; complete; complex; complexity; compound; comprehensive; computational; conclusion; conditions; congenital; consanguineous; consequences; conserved; considered; consistent; consortium; context; contrast; contribute; controls; conventional; copy; correlation; corresponding; counselling; course; cpg; cpg85; cpgs; craniofacial; crc; crispr; criteria; critical; crucial; ctcf; culture; current; cycle; cystic; cysts; cytogenetic; data; data analysis; database; daughter; days; ddd; death; decision; decrease; deep; defects; deficiency; deficits; degree; delay; deleterious; deletion; department; detailed; detectable; detection; determined; developing; development; diabetes; diagnosis; differences; different; different genes; differential; differentiation; difficulties; direct; disability; discussion; disease; disease genes; disease mutations; disorders; distal; distinct; dlbcl; dmr; dmrs; dna; dna methylation; dna variants; domain; dominant; donors; double; duplication; dysfunction; dysmorphism; dysplasia; dystrophy; early; ebf3; ebv; eds; effect; ehmt1; elements; elevated; embryonic; encodes; encoding; enhancer; enrichment; environmental; enzyme; epidermal; epigenetic; epilepsy; epileptic; erlangen; established; etiology; european; ev3; evaluation; events; evidence; exac; examination; exome; exome sequencing; exon; expansion; expected; experiments; expressed; expression; extended; eye; face; facial; factors; failure; familial; families; family; fast; father; features; feeding; feet; female; fetal; fetus; fibroblasts; findings; finger; fish; flanking; fluorescence; fmr1; follow; following; forms; fraction; fragments; frameshift; free; frequency; frequent; frontal; function; function mutations; fusion; future; für; g84e; gain; gastric; gcnis; gdm; gene; gene expression; gene family; gene mutations; gene panel; general; generation; genetic; genetic analysis; genetic cause; genetic risk; genetic testing; genetic variants; geneticists; genome; genomic; genotype; germany; germline; germline mutations; girl; glaucoma; global; group; growth; gwas; hair; hamburg; hand; handedness; haplotype; hcc; hdac3; head; healthy; hearing; heart; heidelberg; hereditary; heritability; heterogeneity; heterogeneous; heterozygosity; heterozygous; heterozygous mutations; heterozygous variants; high; higher; highest; histone; history; hnpcc; homozygosity; homozygous; hospital; hoxb13; human; human genetics; human phenotype; humangenetik; huntington; hypoplasia; hypothesis; hypotonia; identification; idh1r132h; ikbkg; il36rn; illumina; immune; immunohistochemistry; impact; impaired; impairment; implications; important; imprinted; imprinting; improved; inactivation; increased; independent; index; individuals; induced; influence; information; inheritance; inhibition; initial; insertion; insights; institute; intellectual; interaction; interest; international; interpretation; intracellular; intragenic; introduction; intron; intronic; invasive; inversion; investigations; involved; involvement; ipscs; isolated; joubert; karyotype; kcnk9; key; kidney; kinase; knockdown; knockout; knowledge; known; laboratory; lack; landscape; large; later; leading; learning; length; leptin; leukemia; levels; lgl; library; life; lifr; likely; limb; limited; lines; lip; literature; little; liver; localization; loci; locus; long; loss; low; lower; lymphocytes; lymphoma; maintenance; major; majority; making; malformations; malignancies; management; manifestation; mapping; markers; maternal; mds; measurement; mechanisms; mecom; median; medical; meg3; members; membrane; mental; metabolic; methods; methylation; methylation analysis; mice; microcephaly; microdeletion; microduplication; microsatellite; mid1; midas; mild; milder; minor; mir-371a-3p; mirnas; missense; missense mutation; mitochondrial; mlh1; mlpa; mmml; model; moderate; modifier; molecular; molecular genetic; molecule; monogenic; months; mosaic; mosaicism; mother; motor; mouse; mpb; mri; mrna; mtdna; multiple; muscle; muscular; mutant; mutated; mutation carriers; mutations; mutationtaster; myc; myeloid; myopathy; nahr; nail; neandertal; near; need; negative; nervous; neural; neurodegenerative; neurodevelopmental; neurological; neuromuscular; neuronal; neurons; new; nf1; ngs; non; nonsense; normal; nose; novel; novel mutation; novo; novo mutations; npcs; npy; nuclear; nucleotide; number; obesity; observed; ocular; offspring; old; older; olfactory; omim; ongoing; onset; origin; outside; ovarian; overall; overexpression; overlap; p =; pain; palate; pancreatic; panel; parental; parents; partial; particular; partner; pathogenesis; pathogenic; pathogenic mutations; pathogenic variants; pathways; patients; pattern; pcr; penetrance; peripheral; pex; phenotype; phenotyping; pitx1; plasma; platform; plcd1; plk4; pnh; point; point mutations; population; position; positive; possible; postnatal; potential; prca; precise; prediction; predisposition; pregnancies; pregnancy; premature; prenatal; presence; present; presentation; prevalence; previous; primary; primers; probands; probes; problems; processes; profiles; prognosis; progressive; project; proliferation; prominent; promising; promoter; protein; protein expression; protocol; prp; prs1; prs2; psenen; psmc3ip; psoriasis; psychiatric; putative; quality; quantitative; r6/2; range; rapid; rare; rare variants; rate; rb1; recent; receptor; recessive; recurrent; reduced; reference; regard; regions; regression; regulated; regulation; regulatory; related; relative; relevance; relevant; reliable; renal; repair; repeat; report; reporter; reporter gene; reprogramming; research; residual; resolution; respective; respiratory; response; responsible; resulted; results; retardation; retinal; rhox; right; risk; risk variants; rna; role; routine; runx1; runx1mut; samples; sanger; scale; score; screening; search; second; secondary; secretion; segment; segregation; seizures; sensitivity; sensory; sequence; sequence variants; sequencing; serum; severe; sex; short; shox; siblings; signaling; signals; significant; signs; silico; similar; single; sites; size; skeletal; skin; small; smc2; snps; snvs; social; software; somatic; specific; specificity; spectrum; speech; sperm; splice; splicing; spoc1; sporadic; srs; stage; standard; stature; status; step; stop; strand; strategies; strong; structural; studies; study; subjects; subsequent; subunit; successful; suggests; summary; sureselect; survival; susceptibility; symptoms; syndrome; syndromic; synonymous; system; target genes; targeted; targeting; targets; technology; telomere; terminal; terms; testing; tgase1; tgct; thap1; therapeutic; therapies; therapy; time; tissue; tmprss2; tools; total; traits; transcription; transcripts; translocation; transport; treatment; trio; trisomy; truncating; ts14; tumor; type-1; types; typical; underlying; understanding; unique; units; university; unknown; unrelated; upper; user; value; variable; variants; variations; vitro; vivo; weeks; weight; wes; western; wgbs; wgs; wide; wildtype; women; work; working; ws2; ws3; ws4; ws6; ws7; ws8; years; yield; young; zebrafish; zinc cache: cord-005147-mvoq9vln.txt plain text: cord-005147-mvoq9vln.txt item: #65 of 647 id: cord-005281-wy0zk9p8 author: Blinov, V. M. title: Viral component of the human genome date: 2017-05-09 words: 6592 flesch: 37 summary: The reverse process, i.e., the acquisition of host genes or shorter sequences by viruses, is also possible, although viral genomes obviously have a lower abso-lute capacity for storing the acquired material. However, these relations are in fact two-sided and involve modifications of both the virus and host genomes. keywords: ability; activity; adenovirus; animal; available; bornavirus; causes; cells; chromosomal; considerable; data; different; disease; diversity; dna; ebola; elements; encode; endogenous; evolution; evolutionary; example; expression; fact; factors; family; fragments; functions; generations; genes; genetic; genome; genomic; germline; gpcr; herpesvirus; herv; horizontal; host; host genome; human; human genome; important; incorporated; incorporation; infection; information; insertions; instance; integration; interactions; interference; latent; level; like; long; mammalian; mammals; micrornas; mirna; molecular; new; novel; number; order; organism; origin; phenomenon; population; present; primates; process; protein; receptors; recombination; replication; result; retroviral; retroviruses; reverse; rna; sequences; similar; single; size; species; specific; structures; subsequent; time; total; transfer; transposons; viral; viral genes; virus; viruses cache: cord-005281-wy0zk9p8.txt plain text: cord-005281-wy0zk9p8.txt item: #66 of 647 id: cord-005377-36io7zsm author: Sidoti, Francesca title: Alternative Molecular Tests for Virological Diagnosis date: 2012-04-09 words: 5999 flesch: 30 summary: A virus (H1N1) by real-time nucleic acid sequence-based amplification Development and validation of a commercial real time NASBA assay for the rapid confirmation of influenza AH5N1 virus in clinical samples Clinical evaluation of NucliSens magnetic extraction and Nu-cliSens analytical specific reagents for the real-time detection of respiratory syncytial virus (RSV) in pediatric respiratory specimens A one-tube quantitative HIV-1 RNA NASBA nucleic acid amplification assay using electrochemiluminiscent (ECL) labelled probes Quantitation of human immunodeficiency virus type 1 RNA in different biological compartments Single rapid realtime monitored isothermal RNA amplification assay for quantification of human immunodeficiency virus type 1 isolates from groups M, N, and O Evaluation of the persistence of infectious human norovirus on food surfaces by using real time nucleic acid sequence-based amplification Diagnosis of human metapneumovirus infection in immunosuppressed lung transplant recipients and children evaluated for pertussis Real time NASBA detection of SARSassociated coronavirus and comparison with real-time reverse transcription-PCR Evaluation of real time nucleic acid based amplification for detection of Chikungunya virus in clinical sample Nucleic acid sequencebased amplification assays for rapid detection of West Nile and St. Louis encephalitis viruses Real time nucleic acid sequence-based amplification assay for detection of hepatitis A virus Characterization of the quantitative HCV NASBA assay Evaluation of a new NASBA assay for the detection of hepatitis C virus based on the NucliSens basic kit reagents Detection of rhinoviruses by tissue culture and two independent amplification techniques, nucleic acid sequence-based amplification and reverse transcription-PCR, in children with acute respiratory infections during a winter season A sensitive and robust method for measles RNA detection Comparative detection of rabies RNA by NASBA, real-time PCR and conventional PCR Rapid and simple method for the purification of nucleic acids Comparison of five methods for extraction of Legionella pneumophila from respiratory specimens Evaluation of NucliSens easyMAG for automated nucleic acid extraction from various clinical specimens Development and evaluation of nucleic acid sequence based amplification (NASBA) for diagnosis of enterovirus infections using the NucliSens Ò Basic Kit Development of a novel one-tube isothermal reverse transcription thermophilic helicase-dependent amplification platform for rapid RNA detection Helicase dependent OnChip-amplification and its use in multiplex pathogen detection Bacteriophage T4 gene 32 protein: modulation of protein-nucleic acid and protein-protein association by structural domains Snapshot of the genome of the pseudo-T-even bacteriophage RB49 Escherichia coli helicase II (uvrD) protein can completely unwind fully duplex linear and nicked circular DNA Characterization of a thermostable UvrD helicase and its participation in helicase-dependent amplification Colorimetric detection of Helicobacter pylori DNA using isothermal helicase-dependent amplification and gold nanoparticle probes Improving isothermal DNA amplification speed for the rapid detection of Mycobacterium tuberculosis An oligomeric form of E. coli UvrD is required for optimal helicase activity Helicase-dependent isothermal DNA amplification Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements Bacteriophage T7: minimal requirements for the replication of a duplex DNA molecule Characterization of the helicase and primase activities of the 63-kDa component of the bacteriophage T7 gene 4 protein Cloning and expression of gene 4 of bacteriophage T7 and creation and analysis of T7 mutants lacking the 4A primase/ helicase or the 4B helicase DNA replication DNA-dependent nucleoside 5 0 -triphosphatase activity of the gene 4 protein of bacteriophage T7 Escherichia coli thioredoxin confers processivity on the DNA polymerase activity of the gene 5 protein of bacteriophage T7 Isothermal DNA amplification in vitro: the helicase-dependent amplification system Nucleic acid assay system for tier II labs and moderately complex clinics to detect HIV in low-resource settings A rapid and simple isothermal nucleic acid amplification test for detection of herpes simplex virus types 1 and 2 Detection of Helicobacter pylori by enzyme-linked immunosorbent assay of thermophilic helicase-dependent isothermal DNA amplification Helicase-dependent amplification: use in OnChip amplification and potential for point-of-care diagnostics Real-time PCR array chip with capillary-driven sample loading and reactor sealing for point-ofcare applications An integrated disposable device for DNA extraction and helicase dependent amplification Real-time electrochemical monitoring of isothermal helicase-dependent amplification of nucleic acids The first HDA system for isothermal DNA amplification was developed by using E. coli UvrD DNA helicase (*82 kDa) along with a DNA polymerase, and two accessory proteins (SSBs): T4 gene 32 or RB 49 gene 32 proteins [78, 79] . keywords: acid; activity; alternative; amplification; amplification method; amplified; assay; available; bacteriophage; clinical; coli; conventional; copies; dependent; detection; development; diagnosis; different; dna; efficiency; electrochemical; evaluation; extraction; gene; gp4; hda; helicase; herpes; high; human; influenza; isothermal; isothermal amplification; kcl; lamp; loop; low; method; molecular; nasba; necessary; new; nucleic; nucleic acid; particular; pathogens; pcr; polymerase; primase; primers; process; processivity; protein; quantification; rapid; reaction; real; respiratory; reverse; rna; samples; sensitive; sequence; simple; single; specific; specificity; speed; step; system; target; techniques; temperature; template; time; transcriptase; transcription; type; uvrd; viral; virus; viruses cache: cord-005377-36io7zsm.txt plain text: cord-005377-36io7zsm.txt item: #67 of 647 id: cord-005400-50lmj4op author: Ada, Gordon title: Overview of vaccines and vaccination date: 2005 words: 7488 flesch: 45 summary: Combining vaccines so that three or more can be administered simultaneously results in considerable savings, therefore there are determined efforts to add other vaccines to longtime successful combinations (diphtheria, acellular pertussis, tetanus [DaPT] and MMR) such as DaPT-hepatitis B-H aemophilus influenzae type b. Live, attenuated agent vaccines have the potential to stimulate strong humoral and cell-mediated immune responses that can be highly effective in preventing or clearing a later infection in most recipients. keywords: acute; agents; antibodies; antibody; antigen; antigenic; approach; attenuated; available; bacterial; biotechnology; cases; cause; cd4; cells; children; chimeric; class; complex; contrast; control; countries; ctls; cytokine; death; delivery; different; difficult; disease; dna; early; effective; efficacy; eradication; evidence; example; genes; genome; group; health; high; hiv; host; human; immune; immunization; important; incidence; infected; infection; influenza; introduction; later; live; low; lymphocytes; major; measles; mhc; mice; molecular; molecules; mortality; new; parasites; particular; peptide; preparation; properties; protective; protein; recombinant; response; results; role; safety; second; sequences; specific; states; strains; surface; table; th-1; time; trials; type; united; vaccination; vaccine; vaccinia; vectors; viral; virulence; virus; viruses; way; world; years cache: cord-005400-50lmj4op.txt plain text: cord-005400-50lmj4op.txt item: #68 of 647 id: cord-006049-sw1hki4r author: Keefe, Anthony D. title: Aptamers as therapeutics date: 2010 words: 9812 flesch: 32 summary: Antisoma website A randomized, repeat-dose, pharmacodynamic and safety study of an antidotecontrolled factor IXa inhibitor Phase 1b randomized study of antidote-controlled modulation of factor IXa activity in patients with stable coronary artery disease Crystal structure of von Willebrand factor (VWF) A1 domain in complex with aptamer ARC1172, an inhibitor of VWF-platelet binding First-in-human evaluation of anti von Willebrand factor therapeutic aptamer ARC1779 in healthy volunteers Phase I clinical evaluation of ARC1779, a von Willebrand factor-specific aptamer that was driven to bind the A1 domain of the target by toggling between different target forms during SELEX Effect of NU172 and bivalirudin on ecarin clotting time in human plasma and whole blood Drusen associated with aging and age-related macular degeneration contain proteins common to extracellular deposits associated with atherosclerosis, elastosis, amyloidosis, and dense deposit disease Discovery of a PDGF-specific aptamer that is currently undergoing clinical evaluation as part of a combination therapy for AMD Podocytes produce homeostatic chemokine stromal cell-derived factor-1/CXCL12, which contributes to glomerulosclerosis, podocyte loss and albuminuria in a mouse model of type 2 diabetes Anti-Ccl2 Spiegelmer permits 75% dose reduction of cyclophosphamide to control diffuse proliferative lupus nephritis and pneumonitis in MRL-Fas(lpr) mice Physicochemical stability of NOX-E36, a 40mer l-RNA (Spiegelmer) for therapeutic applications Late onset of Ccl2 blockade with the Spiegelmer mNOX-E36-3′PEG prevents glomerulosclerosis and improves glomerular filtration rate in db/db mice Automated RNA selection Automated selection of anti-protein aptamers Automated selection of aptamers against protein targets translated in vitro: from gene to aptamer Micromagnetic selection of aptamers in microfluidic channels Generation of highly specific aptamers via micromagnetic selection The stability of the circulating human proteome to variations in sample collection and handling procedures measured with an aptamerbased proteomics array RNA-mediated metal-metal bond formation in the synthesis of hexagonal palladium nanoparticles RNA-catalysed carbon-carbon bond formation Selection of RNA amide synthases Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes In silico selection of RNA aptamers Cell-specific aptamers for targeted therapies Identification of liver cancerspecific aptamers using whole live cells A tenascin-C aptamer identified by tumor cell SELEX: systematic evolution of ligands by exponential enrichment An early example of cell SELEX in which selection was performed against a monolayer of living tumour-derived cells with the target identification occurring once SELEX was complete Technical and biological issues relevant to cell typing with aptamers Directed evolution of gold nanoparticle delivery to cells Using aptamers evolved from cell-SELEX to engineer a molecular delivery platform Combinatorial selection of high affinity RNA ligands to live African trypanosomes In vivo selection of tumor-targeting RNA motifs A novel antidote-controlled anticoagulant reduces thrombin generation and inflammation and improves cardiac function in cardiopulmonary bypass surgery Assembling OX40 aptamers on a molecular scaffold to create a receptor-activating aptamer Bivalent aptamers deliver the punch Aptamers and aptamer targeted delivery An autonomous molecular computer for logical control of gene expression Escort aptamers: a delivery service for diagnosis and therapy Overview of prostate-specific membrane antigen The clinical role of prostate-specific membrane antigen (PSMA) Identification and characterization of nuclease-stabilized RNA molecules that bind human prostate cancer cells via the prostate-specific membrane antigen An aptamer-doxorubicin physical conjugate as a novel targeted drug-delivery platform Molecular assembly of an aptamer-drug conjugate for targeted drug delivery to tumor cells Phototoxic aptamers selectively enter and kill epithelial cancer cells Gelonin analogs with engineered cysteine residues form antibody immunoconjugates with unique properties Aptamer:toxin conjugates that specifically target prostate tumor cells RNA interference: antiviral defense and genetic tool On the delivery of small interfering RNAs into mammalian cells Harnessing in vivo siRNA delivery for drug discovery and therapeutic development Aptamer mediated siRNA delivery Cell type-specific delivery of siRNAs with aptamer-siRNA chimeras First demonstration of antitumour activity in a mouse xenograft model with the systemic delivery of an aptamer-targeted siRNA conjugate Demonstration of activity in vivo for a HIV-specific siRNA conjugated to a gp120-specific aptamer that enables the targeting of infected cells Selection, characterization and application of new RNA HIV gp 120 aptamers for facile delivery of Dicer substrate siRNAs into HIV infected cells Nanoparticle-aptamer bioconjugates: a new approach for targeting prostate cancer cells Targeted delivery of cisplatin to prostate cancer cells by aptamer functionalized Pt(IV) prodrug-PLGA-PEG nanoparticles Precise engineering of targeted nanoparticles by using self-assembled biointegrated block copolymers Reversible cell-specific drug delivery with aptamer-functionalized liposomes CELL-SELEX: novel perspectives of aptamer-based therapeutics RNA pseudoknots that inhibit human immunodeficiency virus type 1 reverse transcriptase Selection and design of high-affinity RNA ligands for HIV-1 Rev High-affinity RNA ligands to basic fibroblast growth factor inhibit receptor binding Isolation of virus-neutralizing RNAs from a large pool of random sequences Isolation of highaffinity RNA ligands to HIV-1 integrase from a random pool Nuclease-resistant nucleic acid ligands to vascular permeability factor/vascular endothelial growth factor High-affinity oligonucleotide ligands to human IgE inhibit binding to Fc epsilon receptor I Calcium-dependent oligonucleotide antagonists specific for l-selectin Isolation of a nucleaseresistant decoy RNA that can protect human acetylcholine receptors from myasthenic antibodies Isolation and characterization of 2′-fluoro-,2′-amino-, and 2′-fluoro-/amino-modified RNA ligands to human IFN-γ that inhibit receptor binding Potent 2′-amino-, and 2′-fluoro-2′-deoxyribonucleotide RNA inhibitors of keratinocyte growth factor In vivo imaging of inflammation using an aptamer inhibitor of human neutrophil elastase Oligonucleotide inhibitors of P-selectin-dependent neutrophil-platelet adhesion In vitro selection of RNA molecules that displace cocaine from the membrane-bound nicotinic acetylcholine receptor High-affinity aptamers selectively inhibit human nonpancreatic secretory phospholipase A2 (hnps-PLA2) RNA molecules that bind to and inhibit the active site of a tyrosine phosphatase Selection of a RNA aptamer that binds to human activated protein C and inhibits its protease function Cutting edge: novel RNA ligands able to bind CD4 antigen and inhibit CD4 + T lymphocyte function Selection and characterization of an RNA decoy for transcription factor NF-κB Cytoplasmic RNA modulators of an inside-out signal-transduction cascade Controlling small guanine-nucleotideexchange factor function through cytoplasmic RNA intramers Nucleic acid ligands to integrins Targeted inhibition of αvβ3 integrin with an RNA aptamer impairs endothelial cell growth and survival Tenascin-C aptamers are generated using tumor cells and purified protein Optimizing aptamer activity for gene therapy applications using expression cassette SELEX Generation of RNA aptamers to the G-protein-coupled receptor for neurotensin, NTS-1 Structure/function analysis of an RNA aptamer for hepatitis C virus NS3 protease Neutralization of infectivity of diverse R5 clinical isolates of human immunodeficiency virus type 1 by gp120-binding 2′F-RNA aptamers Multivalent RNA aptamers that inhibit CTLA-4 and enhance tumor immunity Discriminatory aptamer reveals serum response element transcription regulated by cytohesin-2 Identification of potent and selective RNA antagonists of the IFN-γ-inducible CXCL10 chemokine Neutralizing aptamers from wholecell SELEX inhibit the RET receptor tyrosine kinase DNA aptamers that bind to MUC1 tumour marker: design and characterization of MUC1-binding single-stranded DNA aptamers A nuclease-resistant RNA aptamer specifically inhibits angiopoietin-1-mediated Tie2 activation and function Anti-bovine prion protein RNA aptamer containing tandem GGA repeat interacts both with recombinant bovine prion protein and its beta isoform with high affinity Antimetastatic potential of PAI-1-specific RNA aptamers Aptamers selected against the unglycosylated EGFRvIII ectodomain and delivered intracellularly reduce membrane-bound EGFRvIII and induce apoptosis Affinity capture onto magnetic beads is also amenable to miniaturization 91, 92 , and using picomolar amounts of targets aptamers with dissociation constants as low as 25 nm were selected. keywords: a12; acid; activation; activity; addition; affinity; amd; antibodies; antibody; anticoagulation; antidote; antigen; antisense; applications; aptamers; as1411; binding; biological; cancer; cells; chemical; chemistry; chemokine; clinical; complement; complex; conjugation; cross; degeneration; degradation; delivery; development; discovery; dna; domain; drug; effects; endogenous; evaluation; example; factor; fig; filtration; function; gene; glycol; group; growth; half; high; human; identification; increase; inhibit; inhibition; injection; interactions; inverted; ixa; kda; library; life; ligands; like; lives; long; macular; mass; membrane; methods; methyl; mice; modifications; modified; molecular; molecules; mouse; non; novel; nox; nuclease; nucleic; nucleolin; number; oligonucleotides; peg; pegaptanib; phase; plasma; platelet; process; properties; prostate; protein; psma; range; rate; receptor; relevant; renal; ribose; rna; selection; selex; sequence; serum; significant; single; sirna; site; small; specific; specific aptamer; spiegelmer; structure; sugars; surface; synthesis; target; targeted; targeting; therapeutic; therapy; time; treatment; trials; tumour; type; use; value; vascular; vegf; vitro; vivo; von; wild; willebrand cache: cord-006049-sw1hki4r.txt plain text: cord-006049-sw1hki4r.txt item: #69 of 647 id: cord-006068-w3if1hns author: Marshak-Rothstein, Ann title: Toll-like receptors in systemic autoimmune disease date: 2006 words: 10136 flesch: 33 summary: Importantly, IFNα markedly upregulates the expression of TLR7 and the TLR adaptor protein MyD88 (myeloid differentiation primary-response gene 88) in both human B cells 41 and mouse B cells (A.M.R. and T. Behrens, unpublished observations) and can also increase the response of B cells to TLR9 ligands 42 . The optimal motif for stimulation of mouse cells is GACGTT, and GTCGTT is the optimal motif for stimulation of human cells 108 . keywords: activate; activation; activity; adjuvant; amounts; antibodies; apoptotic; arthritis; associated; autoantibodies; autoantibody; autoantigens; autoimmune; autoimmune disease; autoimmunity; autoreactive; b cells; b6.sb; bacterial; bcr; block; c57bl/6; case; cells; chromatin; clinical; complexes; contribute; cpg; data; debris; deficient; dendritic; dependent; determined; development; differentiation; disease; dna; endogenous; erythematosus; expression; factor; gene; high; human; ifnα; igg; immune; immune complexes; increased; induction; infection; inflammatory; inhibitory; injury; innate; interferon; irf5; large; ligands; like; lpr; lupus; mammalian; mechanisms; mice; model; molecules; motifs; mouse; mutation; myd88; necrotic; nuclear; odns; pathogenesis; patients; pdcs; plasmacytoid; present; production; prone; proteins; receptor; ref; related; response; results; rna; role; scleroderma; sequences; sera; severe; sjögren; sle; sle1; small; specific; staining; stimulatory; studies; sufficient; syndrome; systemic; tlr2; tlr4; tlr7; tlr9; tlrs; tolerance; toll; type; viral; vitro; yaa cache: cord-006068-w3if1hns.txt plain text: cord-006068-w3if1hns.txt item: #70 of 647 id: cord-006229-7yoilsho author: None title: Abstracts of the 82(nd) Annual Meeting of the German Society for Experimental and Clinical Pharmacology and Toxicology (DGPT) and the 18(th) Annual Meeting of the Network Clinical Pharmacology Germany (VKliPha) in cooperation with the Arbeitsgemeinschaft für Angewandte Humanpharmakologie e.V. (AGAH) date: 2016-02-06 words: 134020 flesch: 40 summary: Clear cell renal cell carcinoma (ccRCC) is the most common subtype of renal cell carcinoma (RCC) and is characterized by a metabolic shift towards enhanced aerobic glycolysis and hence, increased lactate production. Further studies will be performed to clarify whether silver ions and/or silver nanoparticles could affect the specific N-acetylation of arylamines in human cells. keywords: a549; abcb1; absence; absorption; accordance; account; accumulation; acetate; acetylation; acetylcholine; acid; acinar; acinar cells; actin; actions; activation; active; activities; activity; acts; acute; addition; adducts; adenosine; adequate; adhesion; adipocytes; adipose; administration; adp; adrb1; adrenergic; adult; adverse; adverse effects; affected; affinity; agents; aggregation; agonist; ahr; aim; airway; allergic; allosteric; alpha; alterations; altered; alternative; alveolar; amcm; amino; amodiaquine; amounts; analysed; analysis; anesthesia; ang-(1; angiogenesis; angiotensin; animal; antagonist; anti; antibiotics; antibodies; antibody; anticholinergic; antiplatelet; aorta; aortic; apelin; apical; apj; apoptosis; apoptotic; applicability; application; applied; approach; aqueous; area; arginine; arglabin; arrestin; asic3; aspects; assay; assessment; associated; association; at1r; atherosclerosis; atp; atrial; autophagy; available; b2r; b[a]p; background; bacterial; balb; barrier; basal; baseline; basis; baso; battery; bbb; behavior; beneficial; benefit; berlin; best; beta; better; bgn; bid; bile; binding; biochemical; biological; biomarkers; bisphenol; bispyridinium; block; blood; blood cells; blot; blue; bmp2k; body; bone; bpa; bradykinin; brain; breaks; breast; broad; burden; bzw2; c57bl/6; c81; calcium; camp; cancer; cancer cells; candidates; capacity; carcinogenesis; carcinogenic; carcinoma; cardiac; cardiac cells; cardiac function; cardiomyocytes; cardiovascular; care; cascade; cases; cause; cb1; ccmp; ccrcc; cd86; cdt; cell activation; cell culture; cell cycle; cell death; cell line; cell membrane; cell migration; cell model; cell proliferation; cell signaling; cell stress; cell surface; cell transformation; cell type; cell viability; cells; cellular; central; ceo; certain; cgi500; cgmp; chain; challenge; changes; channels; characteristics; characterization; characterized; chemerin; chemical; chemokine; children; chip; choice; cholesterol; chromatography; chronic; chronotropic; cisplatin; cispt; citrate; class; classes; classical; classification; clearance; cleaved; clinical; clom; coa; coated; coculture; cognitive; cohort; collagen; colon; combination; combined; combustion; comet; common; communication; comparable; comparison; compartments; complete; complex; complexes; components; compounds; comprehensive; concentrations; concept; conclusion; conditions; consequences; conserved; consistent; constant; constriction; constructs; consumer; consumption; contact; contaminants; content; contractility; contrast; contribute; contribution; control; conventional; cooh; correlation; corresponding; coupling; course; crem; criteria; critical; cross; crucial; cscc; ctrl; cultivation; culture; cump; current; curves; cxcl12; cxcr4; cycle; cyclic; cyp; cysteine; cytochrome; cytokines; cytometry; cytoskeleton; cytosolic; cytotoxic effects; cytotoxicity; dabigatran; daf-16; daily; damage; data; database; days; ddr; death; decrease; deficient; deficient cells; deficient mice; deficits; degradation; degree; deletion; delivery; dementia; dendritic cells; density; dependent; derivatives; dermal; desvenlafaxine; detail; detailed; detectable; detection; determination; determined; development; dexamethasone; dfg; diabetes; diabetic; diameter; diastolic; diet; dietary; differences; different; different cell; differential; differentiation; difficile; difficult; diffusion; direct; discovery; discussion; disease; disorders; distinct; distribution; dmt; dna; dna damage; dnmt1; domain; dopaminergic; dorsal; dosage; dose; dosing; double; downregulation; downstream; dox; dpat; dpp10; dpra; drg; drug; drug development; duration; dynamic; dysfunction; dyt1; e.g.; early; ecm; effective; effects; efficacy; efficiency; efflux; egf; egfp; ehm; elderly; electrical; electron; electrophysiological; elegans; element; elevated; elisa; embryonic; embryos; endocrine; endogenous; endothelial cells; endothelium; endpoints; energy; engineered; enhanced; enos; entry; environment; enzyme; epac1; epidermal; epidermis; epithelial; epithelial cell; erk1/2; essential; established; esters; estimated; estrogen; eucp; european; evaluated; evaluation; events; evidence; evoked; examination; example; exchange; exhibit; exist; expected; experiments; export; exposure; expression; expression levels; extent; extract; extravasation; eye; faah; factor; failure; family; fatty; fcs; female; ferroptosis; fibroblasts; fibrosis; field; final; findings; fish; flow; fluid; fluorescence; foci; focus; focused; fold; following; food; force; formation; formulations; fraction; frataxin; free; frequency; frequent; fret; function; future; für; g protein; gabaergic; gain; gastric; gastrointestinal; gene; gene expression; general; generation; genetic; genome; genomic; genotoxic; genotoxicity; genotypes; germany; gland; glucose; glutamate; glycidol; goal; good; gpcrs; gradient; great; grk2; group; growth; gtpases; guidelines; gβγ; hacat; hacat cells; hair; half; hand; hazard; hca; hcat-1; health; heart; hek293; hek293 cells; hela; hemin; hepatic; hepatocytes; hepg2; herbal; heterotrimeric; heterozygous; hfd; high; higher; highest; histamine; histological; histone; homeostasis; homoarginine; homozygous; hormone; host; host cells; hours; hplc; hsa; human; human cell; human lung; human skin; huvecs; hypericin; hypertension; hypertrophy; hypochlorite; hypothesis; i.p; ib∆c; icer; idd+ird; identification; igfbp5; il-1β; il-6; il-8; imaging; immature; immune; immunofluorescence; immunohistochemistry; impact; impaired; important; improved; increased; incubation; index; individual; induced; inducible; induction; inflammation; inflammatory; influence; infusion; ingredients; inhalation; inhibited; inhibition; inhibitors; initial; injection; injury; inorganic; inos; insights; institut; insulin; intake; integrity; interaction; interest; interesting; interference; internalization; international; intervention; intestinal; intracellular; intrinsic; introduction; invasive; investigated; investigations; involved; involvement; ird; irritation; isoforms; isolated; isolation; isoproterenol; items; j-82; jaw1; keratinocytes; key; kidney; kinase; kinetics; knockdown; knockout; knowledge; known; laboratory; lack; large; larixyl; laser; lcs; lead; learning; left; leishmania; length; levels; ligand; light; like; likely; limitations; limited; line; linear; link; lipid; liquid; literature; little; liver; living; localization; long; longer; loss; lovastatin; low; lower; lps; luciferase; lung; lung cells; macrophages; major; majority; male; mammalian; manner; mapk; marker; mass; matrix; maturation; max; maximal; maximum; mcpd; mean; measured; measurement; mechanisms; mechanistic; median; mediate; medical; medication; medicine; medium; members; membrane; mesh; messenger; metabolism; metabolites; metabolomics; metformin; methods; methylation; mgmt; mice; microbiome; microrna; microscopy; migration; minor; mir-21; mirnas; mitochondrial; mixture; mmhg; model; moderate; modification; modified; molecular; molecules; monitoring; monocytes; monolayer; months; morphological; morphology; mortality; motor; mouse; mpp22; mrna; mtt; mtx; multiple; muscarinic; muscle; muscle cells; mustard; mutagenic; mutant; mutations; mwcnt; myocardial; n=5; naadp; nacl; nact; nanomaterials; nanoparticles; nat1; natural; nav1.5; necessary; necrosis; need; negative; neonatal; nerve; network; neurodegenerative; neuronal; neurons; new; nmol; non; normal; note; novel; nox; nrf2; nuclear; nuclei; nucleotide; nucleus; number; obesity; objective; observed; occurring; oct1; oecd; offspring; ongoing; onset; open; opioid; option; oral; order; organ; organelles; organic; organisms; outcome; overall; overexpression; overload; oxidation; oxidative; oxide; oxygen; p110γ; p450; p63rhogef; p<0.001; p<0.05; pahs; pain; pancreas; pancreatic; par2; parallel; parameters; parp1; partial; particular; past; patch; pathogenesis; pathological; pathophysiological; pathways; patients; patox; pattern; pde; pdes; pentamers; peptide; performance; period; peripheral; permeability; permeation; pesticides; pharmacokinetic; pharmacological; pharmacology; pharmakologie; phase; phenotype; phosphorylation; physiological; pi16; pie; pigments; pilot; piperacillin; pka; placebo; plant; plasma; platelet; platform; play; pln; pmt; pol; population; position; positive; positive cells; possible; post; postsynaptic; potency; potential; preadipocytes; preclinical; pregnancy; preliminary; preparations; presence; present; present study; pressure; previous; primary; primary cells; primary human; prior; problem; processes; products; profile; profiling; program; progression; project; proliferation; prolonged; promising; promoter; promotion; pronounced; proof; properties; protective; protein; protein expression; protein levels; protocol; pulmonary; purified; purpose; putative; pvat; qpcr; quality; quantification; quantitative; questions; rac1; radiation; range; ranitidine; rapamycin; rapid; rats; reach; reaction; reactive; reason; recent; receptor; receptor activation; receptor potential; receptor protein; recovery; recruitment; reduced; reduction; reference; refinement; regard; regions; regulated; regulation; regulatory; related; relationships; relative; release; relevance; relevant; reliable; remodeling; removal; renal; renin; repair; reported; requirements; research; residues; resistance; resonance; respective; respiratory; response; responsible; results; reticulated; rhoa; rich; rip1; rise; risk; rkip; robust; rock2; rodent; role; root; route; rt-112; s1p; safety; salt; samples; scale; scientific; score; scoring; screening; second; secretion; selected; selection; selective; selectivity; senescence; sensitive; sensitivity; sensitization; sensitizers; sensor; septins; sequence; series; serine; serotonin; serum; set; sets; setup; severe; sham; shift; short; shows; signaling; signals; significance; significantly; silencing; silico; silver; similar; single; single cell; sirna; site; situation; size; skin; skin cells; sleep; slices; slow; sly1; small; smooth; sodium; sources; species; specific; specific expression; specificity; spectrometry; spontaneous; stably; stages; staining; standard; state; statin; statistical; status; stem cells; step; stimulation; strain; strand; strategies; strategy; stress; striatal; strong; stronger; structure; students; studies; study; stw; subsequent; substances; substantial; substrate; subtype; subunit; successful; sufficient; suitable; summary; superoxide; support; surface; survival; symptoms; synaptic; syndrome; synthase; synthesis; synthetic; synuclein; system; systemic; taking; talk; tamoxifen; target; target cells; targeted; targeting; tbhq; tcdb; tcpobop; technique; technology; temperature; terminal; terminus; terms; test; tested; testing; tg mice; therapeutic; therapy; thickness; thp-1; threonine; threshold; thrombin; throughput; time; tissue; tlr2; tmem2; tnf; tnfα; tolerance; tool; total; toxicity; toxicological; toxicology; toxikologie; toxin; tpcs; tps; training; transcription; transduction; transfected; transfer; transformation; transgenic; transgenic mice; transient; translocation; transmission; transport; transporters; transverse; treatment; trials; trpa1; trpc5; trpm3; true; tsh; tumor; tumor cells; turnover; type; type mice; typical; unchanged; underlying; understanding; unique; universität; unknown; untreated; uptake; urinary; urine; useful; validation; values; variants; variety; vascular; veh; vehicle; vein; ventricular; vessels; viability; vimentin; vitro; vivo; voltage; volume; vpa; vs.; water; weeks; weight; welfare; western; wide; wild; wildtype; wnt; women; wood; work; world; wrn; wt mice; wt1; xan; xenobiotic; years; yfp; zebrafish; zolpidem; µor; γh2ax cache: cord-006229-7yoilsho.txt plain text: cord-006229-7yoilsho.txt item: #71 of 647 id: cord-006230-xta38e7j author: None title: Deutsche Gesellschaft für Experimentelle und Klinische Pharmakologie und Toxikologie e.V. date: 2012-02-22 words: 136000 flesch: 40 summary: In in-vitro studies on rat and canine mast cells and human mast cell leukemia cells HMC1.2 BZ at micromolar concentrations inhibited mediator release which appeared to be related to an inhibition of the intracellular cAMP pathway. Previous work showed that mouse cells lacking the immediate-early gene c-fos are hypersensitive to ultraviolet (UVC) light. keywords: 2007; 24h; 5,6; 72h; a549; abcc2; able; absence; absorption; abundant; ac5; accelerated; accompanied; account; accumulation; acetate; acetyl; acetylcholine; acid; acs; actin; actions; activated; activation; active; activities; activity; acute; addition; adducts; adenosine; adenylyl; adhesion; adipocytes; adipose; administration; adrenergic; adrenergic receptor; adrenoceptor; adult; adverse; adverse effects; affected; affinity; agent; aggregation; agonist; ahr; aif; aim; airway; akt; alanine; alcohol; aldosterone; allergic; alpha; alterations; altered; alternative; alveolar; amino; amounts; ampk; amplitude; analogues; analysis; anandamide; angii; angiogenesis; angiotensin; animals; annexin; antagonists; anti; antibodies; antibody; anticancer; antioxidant; aoh; aortic; apomorphine; apoptosis; apoptotic; application; applied; approach; appropriate; area; arfrp1; arnt; array; arterial; artery; asbestos; asd; assay; assessment; associated; association; assumed; assumption; asthma; atherosclerosis; atp; atrial; attenuated; autophagy; available; average; b cells; background; balb; ballast; barrier; basal; base; basis; bcrp; behavior; best; beta; better; binding; biochemical; biological; biomarkers; biotinylated; bladder; block; blocker; blocking; blood; blood cells; blot; blotting; body; bpde; brain; breaks; breast; brown; c101a; c3bot; c57bl/6; caco-2; cadmium; caf; calcium; calculated; calpain; camp; cancer; cancer cells; candesartan; candidate; capable; capacity; carbon; carcinogenesis; carcinogenic; carcinoma; carcinoma cells; cardiac; cardiomyocytes; cardiovascular; cascade; cases; caspase; catalytic; catalyzed; catechol; cause; cav2.1; cavβ3; ccmp; cd86; cdk5; cdk6; cdna; cdt; celecoxib; cell activation; cell culture; cell cycle; cell death; cell growth; cell line; cell membrane; cell migration; cell proliferation; cell type; cell viability; cells; cellular; central; certain; cfp; cga; cgki; cgmp; chain; challenge; changes; channels; characteristics; characterization; characterized; chemical; chemokine; children; cholesterol; cholinergic; chromatography; chronic; classical; clinical; clopidogrel; cnp; coated; coculture; collagen; colon; column; combination; combined; comet; common; comparable; comparison; compartment; complete; complex; complexes; components; composition; compounds; concentration; concept; concern; conclusion; concomitant; conditions; consequence; conserved; consistent; constitutive; constructs; consumers; consumption; contact; content; contractility; contraction; contrast; contribution; control; control cells; cord; correlation; corresponding; cortex; corticosterone; cosmetic; coupling; course; cox-2; cpg; creb; crem; critical; crucial; cse; ctgf; ctl; culture; cump; current; cx40; cxcr4; cyanamide; cyclase; cycle; cyclic; cyp; cyp1a1; cypa; cytochrome; cytokine; cytometry; cytoskeleton; cytosolic; cytotoxicity; d541a; daily; damage; darc; data; database; days; dcs; death; decreased; deficient; deficient mice; degradation; dehp; deletion; delivery; dendritic cells; density; dental; dependent; dependent cell; dependent protein; derivatives; dermal; detailed; detectable; detection; determination; determined; development; dfg; diabetes; diet; dietary; differences; different; different cell; differential; differentiation; dimerization; diminished; dioxin; direct; discussion; disease; disorder; display; distinct; distribution; diverse; dma; dna; dna damage; domain; dominant; dorsal; dose; double; downregulation; downstream; doxorubicin; drg; drinking; drug; drz; dsbs; dynamics; dyrk1a; dysfunction; dyt1; düsseldorf; e.g.; early; ec50; effective; effects; efficacy; efficient; electrical; electrophilic; elegans; element; elevated; elimination; elisa; embryonic; encoding; endocrine; endocytosis; endogenous; endothelial cells; endpoints; energy; enhanced; enos; environmental; enzymatic; enzyme; eosinophils; ep3; epidemiological; epigenetic; epilepsy; epithelial; er81; erk; erk1/2; erk2; essential; established; estradiol; estrogen; ethanol; evaluation; events; evidence; example; exchange; excretion; exhibit; exon; experimentelle; experiments; exposure; expressed; expression; expression levels; extent; extraction; extracts; extrapolation; factor; failing; failure; family; fast; fat; fatty; features; feeding; female; fibers; fibroblasts; fibrosis; fibrotic; field; findings; flavonoids; flow; fluid; fluorescence; foci; fold; following; food; force; formation; forskolin; fos; foxo4; fraction; free; frequency; fret; function; furthermore; fusion; future; fxa; für; g protein; gain; gel; gene; gene expression; general; generated; generation; genetic; genome; genomic; genotoxic; genotoxicity; genotypes; germany; git1; gland; glioblastoma cells; glioma cells; gls; glucose; glutamate; glutathione; good; gpcrs; gq/11; gradient; grant; grb; great; grk2; grk5; group; growth; gsh; gtpases; guanine; guanylyl; guidance; guinea; gαi2; gαq; gβγ; h2o2; h2r; h4r; h9c2 cells; half; hand; has3; has3v2; hazard; hcc; hcn2; hcn3; hdac; healing; health; heart; heart failure; hek293 cells; hela cells; helenalin; hema; hepatic; hepatoma cells; hepg2; hepg2 cells; herbal; heterologous; heterotrimeric; high; higher; histamine; hivep1; homeostasis; homologous; hormone; hours; hplc; hprt; ht1a; ht2a; human; human cells; human exposure; human heart; human liver; human lung; hur; hyaluronan; hydralazine; hydrogen; hyo; hypertension; hypertrophy; hypothesis; ic50; icer; identification; iii; il-1β; il-4; il-6; il-8; imaging; immune; immune cells; immunoprecipitation; impact; impaired; impairment; important; important role; improved; inactive; increased; incubated; incubation; individual; induced; inducible; induction; infants; inflammation; inflammatory; inflammatory cells; influence; influx; inhalation; inhibited; inhibition; inhibitors; initial; injection; injury; inos; insights; insp3r; institut; insulin; intact; intact cells; intake; integrity; interaction; interest; interesting; internalization; intervention; intestinal; intracellular; intrinsic; introduction; investigation; involved; involvement; irag; ischemic; isoforms; isolated; isolation; isoprenaline; jnk; keratinocytes; key; kibra; kidney; kinase; kinetics; klinische; knockdown; knockout; knowledge; known; ksrp; lack; large; laser; lat1; leads; learning; left; leipzig; length; lesions; leukemia; levels; library; ligand; like; likely; limited; line; linear; link; lipid; liquid; literature; littermates; little; liver; living; living cells; localization; long; loop; loss; lov; low; lower; lps; luciferase; lung; lymph; lysates; macrophages; mainz; major; male; mammalian; mammalian cells; mammary; manner; mapk; marker; mass; mast; mast cells; matrix; maturation; maximal; maximum; mda; means; measurements; mechanical; mechanisms; mecp2; mediate; mediators; medical; medicinal; medium; melanoma cells; members; membrane; membrane potential; memory; mesangial cells; messenger; met-5a cells; metabolism; metabolites; methods; methylation; mice; microarray; microglial; micrornas; microscopy; migration; milk; minipigs; minor; minutes; mirnas; mitochondrial; mixtures; model; modifications; modified; modulate; modulation; molecular; molecules; monitoring; monomers; months; morphology; mortality; motility; mouse; mrna; mtt; mtx; multiple; murine; muscarinic; muscle cells; mutagenic; mutant; mutated; mutations; mycotoxin; myeloid; myocardial; myosmine; myricetin; münchen; münster; n=3; n=4; nadph; nanomaterials; nanoparticles; nat1; natural; ndpk; necessary; need; negative; neonatal; nerve; nervous; network; neuroblastoma; neuronal; neuronal cells; neurons; neuropathic; neutrophils; new; nfat; nitric; noaels; nociceptive; non; noradrenaline; normal; novel; nox4; nrf2; nuclear; nucleotide; nucleus; number; numerous; oat2; observed; oecd; oil; olesoxime; ongoing; onset; open; opioids; oral; order; organic; organism; organs; origin; overall; overexpression; overload; oxidase; oxidation; oxidative; oxide; oxygen; p110γ; p2x7; p38; p450; p53; p63rhogef; p<0.05; pacing; pain; par-2; parallel; parameters; parp; particular; pasireotide; patch; pathogenesis; pathological; pathophysiology; pathway; patients; pattern; pcb; pcls; pcr; pde10; pde2a; pde4; pdgf; peak; peptide; period; peripheral; permeability; pfoa; pharmacokinetics; pharmacological; pharmacology; pharmakologie; phase; phenotype; phosphatase; phosphodiesterases; phospholamban; phospholipase; phosphorylation; physiological; pi16; pi3k; pimecrolimus; pka; pkc; pkgi; placebo; placenta; plant; plasma; plasmin; platelet; plcγ2; pln; plus; pma; pmt; point; polarized; poly(adp; polymerase; polyphenols; poorly; pore; positive; possible; post; postsynaptic; potassium; potency; potential; pparγ; ppd; preparations; presence; present; present study; pressure; previous; primary; primary cells; prior; procedure; processes; processing; production; products; profile; progression; project; proliferation; prominent; promising; promoter; pronounced; properties; protease; protective; protein; protein activation; protein expression; protein kinase; protein levels; protocol; proximal; pulmonary; purified; putative; pxr; qpcr; qrt; quality; quantification; quantitative; question; rabbit; rac1; radiation; range; rapid; rats; reach; reaction; reactive; recent; receptor; receptor activation; receptor potential; receptor protein; recombinant; redox; reduced; reference; regard; region; regulated; regulation; regulatory; related; relative; relaxation; release; relevance; relevant; remodeling; renal; repair; replacement; reported; research; residues; resistance; respect; respective; respiratory; response; responsible; results; resveratrol; reticulum; retigabine; rhoa; rhob; rhogef17; rhoh; right; risk; rkip; robust; rodents; role; root; ros; s. 1; s1p; s49; sac; safety; samples; sclc cells; screening; second; secondary; secretion; selected; selective; sensitive; sensitivity; sensitization; sensor; separated; separation; sept4; sequence; series; serine; serum; set; severe; sex; shock; short; shortening; signaling; signals; significant; silencing; silver; similar; single; sirna; sirt1; site; situation; size; skeletal; skin; slc2a9; slices; small; smc; smf; smooth; soat; soce; sodium; soluble; solution; somatostatin; sources; special; species; specific; specific expression; specificity; spectrometry; spectrum; sperm; sphk-1; spinal; spontaneous; src; sst2; sst5; stability; stable; stages; staining; standard; state; status; stem cells; step; steroid; stimulated; stimulation; stimulatory; stimuli; strand; strategies; strategy; straße; streptavidin; stress; strex; strong; structural; students; studies; study; stw; subcellular; subject; subsequent; substances; substrate; subtypes; subunits; suitable; sulfate; summary; superoxide; support; suppression; surface; survival; syndrome; synthesis; synthetic; system; systemic; t cells; tak1; tandem; target; target cells; targeting; tcdd; techniques; telmisartan; tempol; terminal; terminus; test; tested; testing; testis; tgf; therapeutic; therapy; thr188; threonine; threshold; thrombin; throughput; time; tissue; tmc8; tmem2; tmz; tnf; tnfα; tone; tool; top2b; total; toxic effects; toxicity; toxicological; toxicology; toxikologie; toxin; tpc1; transcription; transcripts; transduction; transfer; transformation; transgenic; transgenic mice; transient; translocation; transmembrane; transplantation; transport; transporters; treatment; trials; triple; trpa1; trpc6; trpm3; trpv5; ttc; tumor; tumor cells; turn; type; type mice; typical; tyrosine; unchanged; unclear; underlying; understanding; understood; universität; unknown; untreated; untreated cells; uptake; useful; utp; uvb; v79 cells; values; variants; variety; vascular; vasoconstriction; vasodilator; vector; ventilation; ventricular; vessel; viability; vitamin; vitro; vivo; voltage; volume; volunteers; vsmc; water; weekly; weeks; weight; western; white; wide; wild; wildtype; women; work; wound; würzburg; years; zebrafish; zen; zno; µmol; α2a; βar; γh2ax cache: cord-006230-xta38e7j.txt plain text: cord-006230-xta38e7j.txt item: #72 of 647 id: cord-006331-s2qf98lj author: Spiridonova, V. A. title: Molecular recognition elements: DNA/RNA-aptamers to proteins date: 2010-05-23 words: 7145 flesch: 57 summary: Now convincing evidence exists that aptamers are a new effective group of therapeutics, which may represent The scheme illustrating the SELEX method for preparation of DNA and RNA aptamers. The range of disso ciation constants characterizing binding of DNA and RNA aptamers to their protein targets varies from nanomolar to subnanomolar levels. keywords: 15tba; acad; acid; active; activity; addition; administration; affinity; animals; antidote; aptamer; authors; binding; blood; cells; clinical; clotting; complex; control; dependent; development; diseases; dna; dose; drug; e2f; effect; expression; factor; fixa; formation; forms; fviia; group; growth; heparin; high; hiv; hne; human; ifn; important; inhibited; inhibition; isolated; k d; library; macugen; method; min; model; modified; molecules; natl; ns3; nucleic; nucleotide; oligonucleotide; patients; pdgf; plasma; platelet; porcine; preclinical; proc; protease; protein; randomized; receptor; region; rna; rna aptamer; role; rounds; sci; selection; selex; sequence; significant; single; specific; structure; studies; targets; tat; therapy; thrombin; time; treatment; trials; tumor; usa; use; value; vascular; vegf; viral; vitro; vivo cache: cord-006331-s2qf98lj.txt plain text: cord-006331-s2qf98lj.txt item: #73 of 647 id: cord-006466-e1phpqes author: None title: 2018 CIS Annual Meeting: Immune Deficiency & Dysregulation North American Conference date: 2018-04-23 words: 92405 flesch: 42 summary: Despite defective T cell signaling responses to chemokines (i.e., GPCR stimulation), chemotaxis of patient T cell blasts in vitro was normal. Proteasome assembly and catalytic function was assessed by SDS-PAGE and native gel respectively, using patient derived cell lines. keywords: abdominal; abnormal; abnormalities; abscesses; absence; absent; absolute; acid; activation; activity; acute; ada; ada2; addition; additional patients; adequate; adhesion; administration; admission; adult; adult patients; adverse; affected; age; aim; allele; allergic; allergy; allogeneic; alps; alternative; amino; analysis; anemia; antibiotics; antibodies; antibody; antigens; apoptosis; approach; appropriate; arthritis; assay; assessment; associated; association; asthma; atopic; atopy; atypical; autoantibodies; autoimmune; autoimmunity; autoinflammation; autosomal; available; average; awareness; b cells; background; bacterial; bal; baseline; bcg; benefit; beta; better; bilateral; binding; biochemical; biopsies; biopsy; birth; blood; bmt; bone; booster; bowel; boy; broad; bronchiectasis; btk; burst; busulfan; canadian; cancer; card11; cardiac; care; carriers; case; causative; cd160; cd18; cd19; cd3; cd4; cd40l; cd45; cd45ra; cd8; cd8 t; celiac; cell counts; cell deficiency; cell development; cell function; cell immunodeficiency; cell lymphopenia; cell proliferation; cell receptor; cell reconstitution; cell repertoire; cell subsets; cell transplantation; cellular; centers; central; cgd; chain; challenges; changes; characteristics; characterization; characterized; chart; chest; chh; childhood; children; chimerism; chronic; circles; class; clinical; clinical phenotype; cmc; cmv; codon; cohort; colitis; combination; combined; combined immunodeficiency; common; comparable; complement; complete; complex; complicated; complications; compound; concentrations; conclusions; conditioning; conditions; congenital; consistent; continued; control; copies; cord; correlation; cost; cough; counts; course; criteria; cross; crucial; ctla-4; ctla4; culture; curative; cutaneous; cvid patients; cybb; cytokine; cytometry; cytopenias; cytotoxic; data; database; day; days; decreased; defective; defects; deficiencies; deficient; deficient patients; delay; delayed; deletion; dermatitis; detection; developed; development; dhr; diabetes; diagnosis; diarrhea; differences; different; differential; differentiation; difficult; disease; disorders; distinct; distribution; dna; dock8; domain; dominant; donor; dose; drug; dysfunction; dysregulation; earlier; early; ebv; eczema; editing; effective; effector; effects; efficacy; elevated; encoding; engraftment; enteropathy; eosinophilia; episodes; epithelial; essential; established; evaluation; evans; events; evidence; examination; excision; exome; exon; expansion; experience; expression; extensive; factor; failure; families; family; fatigue; features; female; feno; ferritin; fever; findings; flow; following; form; foxn1; foxp3; frequency; frequent; function; fungal; future; gain; gastrointestinal; gata2; gene; gene therapy; generalized; generation; genetic; genome; genomic; genotype; girl; good; granulomas; granulomatous; greater; group; gvhd; h2ax; half; haploidentical; haploinsufficiency; hct; healthy; hematologic; hematopoietic; hematopoietic cell; hemolytic; hepatitis; heterogeneous; heterozygous; hies patients; high; higher; highly; history; hiv; hizentra; hla; hlh; home; homozygous; hospital; hospitalization; hsct; human; humoral; hyper; hypogammaglobulinemia; hypomorphic; ibd; identification; idiopathic; ifn; ifnγ; iga; ige; igg; igg levels; igg4; iggsc; igm; igrt; ikbkb; il-17; il-2; il2rg; imaging; immune; immune cell; immune deficiency; immune dysregulation; immune system; immunization; immunodeficiency; immunodeficiency disease; immunodeficiency patients; immunoglobulin; immunological; immunology; impact; impaired; important; improved; improvement; incidence; increased; individuals; induced; infancy; infants; infections; inflammation; inflammatory; influenza; information; infusions; inhibitory; initial; initiation; innate; institute; institution; intensity; interferon; intermittent; interstitial; intracellular; intravenous; introduction; invasive; investigation; involvement; ipex; irradiation; isolated; isolation; itp; ivig; january; kinase; knowledge; known; laboratory; lack; lad; large; lead; left; lesions; leukemia; levels; life; like; likely; limited; literature; little; liver; long; loss; low; low b; low igg; lower; lung; lung disease; lupus; lymphadenopathy; lymphocyte; lymphoid; lymphoma; lymphopenia; lymphoproliferative; majority; male; male patients; malignancies; malignancy; management; manifestations; marked; markers; marrow; mass; matched; maternal; maturation; mature; mbl; mcl; mean; measurement; mechanism; median; medical; medications; medicine; mellitus; memory; memory b; methods; mice; mild; missense; mitogen; mm3; models; molecular; monocytes; months; mortality; mother; mouse; mri; multiple; mutant; mutation; mycobacterial; myeloid; n=1; n=2; n=3; national; natural; naïve; naïve t; nbs; ncf1; negative; neurological; neutropenia; neutrophil; newborn; niaid; nih; nk cells; non; nonsense; normal; normal t; notable; novel; nu/+; number; objectives; observed; oit; old; older; ongoing; onset; option; organ; organism; origin; otitis; outcomes; overall; oxidase; oxide; p22phox; p47phox; pain; panel; parameters; parents; partial; pathogenic; pathway; patients; pattern; pbmcs; pcr; pediatric; pediatric patients; percentage; period; peripheral; persistent; phase; phd; phenotype; phenotyping; phosphorylation; physical; physicians; pid; pidd; pidd patients; pids; pidtc; plasma; plasma cells; platelet; pneumococcal; pneumonia; pneumovax; pnp; point; polysaccharide; poor; population; position; positive; possible; post; potential; ppsv23; pregnancy; presence; present; presentation; presenting; prevalence; previous; primary; primary immune; primary immunodeficiency; prior; proband; process; production; professor; profile; profound; prognosis; progressive; proliferation; prolonged; prominent; prophylactic; prophylaxis; proportion; protamine; protective; protein; protocol; pts; pulmonary; qol; quality; quantification; rag1; range; rapid; rare; rash; rate; reactions; reactive; recent; receptor; recessive; recipients; reconstitution; records; recurrent; recurrent infections; reduced; reference; refractory; regimen; region; regulatory; related; renal; repair; repeat; repertoire; replacement; reported; reports; research; residual; respiratory; responders; response; results; retrospective; review; right; risk; rituximab; role; routine; rubella; safety; samples; sanger; scid; scid patients; scig; scores; screening; second; secondary; selection; selective; sensitivity; sepsis; sequence; sequencing; series; serotypes; serum; setting; severe; severe infections; severe t; severity; shingles; short; showing; signaling; significant; signs; similar; single; sinopulmonary; sinus; sinusitis; sister; site; skin; skin infections; small; somatic; species; specific; spectrum; splenomegaly; splice; staining; standard; starting; stat3; statistical; status; stem; stem cell; steroids; stimulated; stimulation; studies; study; subcutaneous; subjects; submission; subsequent; subsets; substitution; successful; suggestive; support; surgery; survival; susceptibility; suspicion; switched; symptomatic; symptoms; syndrome; system; systemic; t cells; t lymphocytes; targeted; tcr; term; tested; testing; tests; tetanus; therapeutic; therapies; therapy; thi; threatening; thrombocytopenia; throughput; thymectomy; thymic; thymus; time; tissue; titers; tool; total; tract; transcription; transplant; transplant patients; transplantation; treatment; trec; treg; trial; trough; types; ucbt; umbilical; underlying; understanding; underwent; undetectable; unique; university; unknown; unrelated; upper; use; utility; vaccination; vaccine; values; variable; variant; vascular; viral; viremia; virus; vitro; vs.; weekly; weeks; weight; wes; wide; wild; women; work; workup; worsening; xiap; xla; years; years old; yield; young cache: cord-006466-e1phpqes.txt plain text: cord-006466-e1phpqes.txt item: #74 of 647 id: cord-006664-ykfvbypo author: McLaughlin, R. title: The role of apoptotic cell death in cardiovascular disease date: 2001 words: 7453 flesch: 27 summary: This mechanism has now been shown to cause endothelial cell apoptosis in vitro. ' The endothelial dysfunction, The role of apoptotic cell death in card iovascular disease manifested as increased capillary permeability in SIRS, is partly as a consequence of endothelial cell apoptosis. keywords: activation; activity; addition; adult; anti; apoptosis; apoptotic; apoptotic cell; artery; atherosclerotic; bax; bcl-2; cardiac; cardiomyocytes; cardiovascular; caspases; cell; cell death; cellular; clinical; context; control; coronary; cultured; cytokines; death; deletion; dependent; disease; dna; dysfunction; effects; elegans; endothelial; evidence; expression; factor; failure; family; fas; finding; formation; gene; growth; heart; human; hyperplasia; induced; induction; infarction; inflammation; inflammatory; injury; involved; ischaemia; key; like; loss; mechanism; membrane; mice; model; muscle; muscle cells; myocardium; necrosis; neointimal; nitric; normal; nuclear; oxidative; oxide; oxygen; p53; pathogenesis; pathological; phosphatidylserine; post; potential; primary; process; processes; programmed; progression; proliferation; protein; proto; reactive; receptor; release; remodelling; reperfusion; response; results; role; significant; sirs; smooth; smooth muscle; species; stress; stretch; structural; studies; surface; survival; synthase; system; tissue; tnfa; tumour; vascular; ventricular cache: cord-006664-ykfvbypo.txt plain text: cord-006664-ykfvbypo.txt item: #75 of 647 id: cord-006860-a3b8hyyr author: None title: 40th Annual Meeting of the GTH (Gesellschaft für Thrombose- und Hämostaseforschung) date: 1996 words: 90772 flesch: 46 summary: The data show that children with low risk did in part receive higher doses of heparin and/or AT III concentrate than did high risk patients, whereas plasma therapy was adjusted to severity of eoagnlopathy. Inhibitor testing was done on patients plasma samples using the Bethesda method. keywords: ability; abnormal; abnormalities; absence; absolute; acid; acl; actin; activated; activation; active; activities; activity; acute; addition; adenosine; adhesion; administration; admission; adp; adult; affected; affinity; age; aged; agents; aggregation; aim; allele; alpha; alterations; amounts; amplification; amplified; analysis; analytical; angina; animals; antagonist; antibodies; antibody; anticoagulant; anticoagulant therapy; anticoagulation; antigen; antithrombin; antithrombotic; aortic; apc; apc resistance; apcr; apparent; application; applied; approach; aprotinin; apsac; apteg; aptt; area; argatroban; arterial; arteries; artery; asa; asn; aspirin; assay; assessment; association; atherosclerosis; atiii; autoimmune; automated; available; average; axa; basal; baseline; basis; bcs; behring; better; binding; bleeding; blood; blood cells; blood coagulation; blood loss; blood plasma; blood samples; boehringer; bolus; bone; buffer; bypass; ca2; cad; calcium; calculated; calibration; cancer; cancer patients; capillary; cardiac; cardiovascular; carotid; cases; cause; cd4; cd62; cells; cellular; center; cerebral; certain; cgmp; chain; changes; characterized; children; cholesterol; chromatography; chromogenic; chronic; circulation; citrate; clauss; clear; cleavage; clinical; cll; clots; clotting; clotting time; cls; coagulation; coagulation activation; coagulation factor; coagulation parameters; coagulation system; coated; cofactor; collagen; combination; common; comparable; comparison; complement; complete; complex; complexes; complications; components; concentrate; concentrations; conclusion; conditions; confirmed; constant; contact; content; continuous; contrast; control; control group; conventional; coronary; coronary patients; correlation; corresponding; coumarin; count; course; cpb; criteria; cross; csf; cultured; curcumin; cytokines; cytometry; d419n; dade; daily; damage; data; day; days; decrease; deep; defect; deficiencies; deficiency; degradation; degree; density; dependent; deposition; derfbg; derivatives; detectable; detection; determination; determined; development; dfib; diabetes; diagnosis; differences; different; dilution; dimer; diminished; dipyridamole; direct; discussion; disease; disorders; distribution; dna; domain; donors; dosage; dose; dose heparin; double; drop; drug; duration; dvt; early; ecc; edta; effect; effective; efficacy; electra; elevated; elevation; elimination; elisa; embolism; endothelial; endothelial cells; enhanced; enzyme; episodes; established; estimation; evaluation; events; evidence; exchange; exclusion; excretion; exercise; exon; expected; experiments; exposure; expression; exteg; extensive; extent; extrinsic; factor; factor ix; factor levels; factor v; factor viii; factor xa; failure; false; family; fast; fatal; fdp; female; fi+2; fibrin; fibrinogen; fibrinolytic; fibrinopeptide; filter; final; findings; fitc; fl+2; flow; fluorescence; fold; followed; following; formation; forms; fragment; frankfurt; free; frequency; frequent; function; fxa; fxii; fxla; gbpg; general; generation; genetic; germany; gla; glycoprotein; good; gpib; granulocytes; great; group; half; hat; hat patients; hcv; hcys; healthy; heart; help; hemophilia; hemorrhagic; hemostatic; hepadn; heparin; heparin therapy; heparin treatment; hepatic; hepatitis; heptest; hereditary; heterozygous; high; high levels; high risk; higher; hipa; hirudin; history; hit; hla; home; homozygous; hospital; hours; hrs; human; human blood; human plasma; huvec; i.v; identical; igg; il-6; immune; immunological; impaired; implantation; important; improvement; incidence; incorporation; increased; incubation; index; indicate; indications; individuals; induced; induction; infants; infarction; inflammatory; influence; infusion; inhibited; inhibitor; inhibitor patients; inhibits; initial; injection; injury; inr; institute; insulin; intact; intensity; interaction; intervention; intracellular; intravascular; intravenous; intrinsic; introduction; investigation; involved; involvement; irradiation; ischemia; isolated; kallikrein; kaolin; kda; kinetics; klinik; klinikum; known; laboratory; lack; large; later; ldl; lead; left; leg; leiden; lesions; leukocyte; levels; life; like; likely; limited; linear; little; liver; lmmh; lmwh; loss; low; low molecular; lower; lps; lung; lupus; lymphocytes; mab; main; major; majority; malaria; male; management; manner; marburg; marked; markers; marrow; material; matrix; maximum; mcs; mean; measurements; measuring; mechanical; mechanism; median; medical; medicine; members; membrane; metabolism; method; mice; microscopy; mild; minor; minutes; model; modified; molecular; molecules; monitoring; monoclonal; monocytes; monomer; months; mortality; mouse; mrna; multiple; muscle; mutant; mutation; myocardial; native; necessary; necrosis; need; negative; neonatal; new; nmol; non; normal; normal plasma; normal platelet; normal range; normal values; normalized; number; oac; observation; observed; occlusive; old; onset; operation; optical; oral; order; organ; orgaran; outcome; overall; p<0.001; p<0.05; pa activity; pai; pal; pallidipin; pancreas; pap; parallel; parameters; partial; pathogenesis; pathway; patients; patients months; pci; pcr; peak; pediatric patients; peg; peptide; period; persons; phase; physical; physiological; pin; placebo; plasma; plasma concentrations; plasma levels; plasma protein; plasma samples; plasmapheresis; plasmatic; plasminogen; platelet; platelet activation; platelet adhesion; platelet aggregation; platelet count; platelet factor; platelet function; platelet surface; plus; pmnl; point; pool; poor; population; positive; possible; postoperative; potency; potent; potential; predictive; pregnancy; preliminary; preoperative; preparations; prepared; presence; present; pressure; prevalence; prevention; previous; primary; procedure; process; processes; products; profile; proliferation; prolongation; prolonged; pronounced; properties; prophylactic; prophylaxis; propositus; prospective; protamine; protease; protein; protein c; protein s; proteolytic; prothrombin; prp; ptca; pts; pulmonary; purified; purity; purpose; quality; quantitative; quick; rabbit; rain; randomized; range; rapid; rare; rate; ratios; rats; reaction; reactive; reagent; received; recent; receptor; recombinant; recovery; recurrent; reduced; reduction; reference; regard; regimen; regulation; related; relative; release; relevance; relevant; reliability; reliable; renal; reperfusion; replacement; report; resistance; respect; responders; response; restenosis; restriction; results; rfviia; rich; right; rise; risk; risk factor; role; routine; run; safety; samples; score; screening; second; secondary; selectin; sensitive; sensitivity; sepsis; septic; septicemia; serine; serotonin; serum; severe; severity; shape; shock; short; signal; significant; signs; silica; similar; simple; simultaneous; single; site; skin; slight; small; smooth; sodium; soluble; solution; sorbents; special; species; specific; specificity; spontaneous; stability; stable; stage; standard; status; stents; step; stimulation; streptokinase; stroke; strong; structure; studies; study; subcutaneous; subjects; subsequent; substitution; substrate; successful; suffering; sufficient; suitable; sulfate; surface; surgery; surgical; survival; symptoms; syndrome; synthetic; system; systemic; target; technique; teg; tendency; terminal; test; testing; tfpi; therapeutic; therapy; thrombin; thrombin generation; thrombin inhibitor; thrombin time; thrombocyte; thrombocytopenia; thromboembolic; thrombolytic; thrombomodulin; thrombophilia; thromboplastin; thrombosis; thrombus; time; tissue; tissue factor; tnf; total; tpa; training; transduction; transplantation; transport; trapidil; treatment; triabin; trials; trypsin; tumor; turbidimetric; type; ufh; umbilical; unchanged; und; underlying; unfractionated; units; university; unknown; upa; upar; upper; urine; urokinase; use; useful; values; valve; variable; vascular; vein; venous; venous blood; venous thrombosis; versus; vessel; viia; viii; virus; vitamin; vitro; vivo; vod; volume; volunteers; von; vs.; vte; vwd; vwf; wall; weeks; weight; weight heparin; willebrand; willebrand factor; women; xiia; xiii; years; yon; young cache: cord-006860-a3b8hyyr.txt plain text: cord-006860-a3b8hyyr.txt item: #76 of 647 id: cord-007047-7ty9mxa9 author: Reller, L. Barth title: Implications of New Technology for Infectious Diseases Practice date: 2006-11-15 words: 4096 flesch: 32 summary: The use of laboratory tests for diagnosis of enteroviral CNS disease was shown to be cost effective long ago [8] , but the availability of rapid molecular tests for this purpose has been long coming. The clinical relevance of 'CSF viral culture': a two-year experience with aseptic meningitis in A rapid and highly accurate assay for the detection of enterovirus infections in cerebrospinal fluid samples using the GeneXpert Dx system Impact of human immunodeficiency virus type 1 (HIV-1) genetic diversity on performance of four commercial viral load assays: LCx HIV RNA Quantitative, AM-PLICOR HIV-1 MONITOR v1.5, VERSANT HIV-1 RNA 3.0, and NucliSens HIV-1 QT Comparing first-void urine specimens, self-collected vaginal swabs, and endocervical specimens to detect Chlamydia trachomatis and Neisseria gonorrhoeae by a nucleic acid amplification test Comparison of methods for detection of Chlamydia trachomatis and Neisseria gonorrhoeae using commercially available nucleic acid amplification tests and a liquid pap smear medium Validation of molecular-diagnostic techniques in the parasitological laboratory Diagnostic PCR: validation and sample preparation are two sides of the same coin Failure of commercial ligase chain reaction to detect Mycobacterium tuberculosis DNA in sputum samples from a patient with smear-positive pulmonary tuberculosis due to a deletion of the target region Reproducibility of positive test results in the BDProbeTec ET system for detection of Chlamydia trachomatis and Neisseria gonorrhoeae False-positive Gen-Probe direct Mycobacterium tuberculosis amplification test results for patients with pulmonary M. kansasii and M. avium infections The current status and potential role of laboratory testing to prevent transfusion-transmitted malaria Characteristics of apparently false-negative digene hybrid capture 2 high-risk HPV DNA testing Occurrence and documentation of low-level bacteremia in a community hospital's patient population Comparison of 9 different PCR primers for the rapid detection of severe acute respiratory syndrome coronavirus using 2 RNA extraction methods Comparison of six DNA extraction methods for recovery of fungal DNA as assessed by quantitative PCR Rapid diagnosis of tuberculous meningitis: what is the optimal method? Comparison of conventional bacteriology with nucleic acid amplification (amplified mycobacterium direct test) for diagnosis of tuberculous meningitis before and after inception of antituberculosis chemotherapy The bacteriological diagnosis of tuberculous meningitis Diagnostic accuracy of nucleic acid amplification tests for tuberculous meningitis: a systematic review and meta-analysis Rapid identification of the species of the Bacteroides fragilis group by multiplex PCR assays using group-and species-specific primers Sequence analysis of four Shigella boydii O-antigen loci: implication for Escherichia coli and Shigella relationships Rhinosporidium seeberi: a human pathogen from a novel group of aquatic protistan parasites Lack of serological evidence for Mycoplasma fermentans infection in army Gulf War veterans: a large scale case-control study Mycoplasma fermentans in individuals seropositive and seronegative for HIV-1 Serological responses to mycoplasmas in HIV-infected and non-infected individuals Monitoring of Chlamydia trachomatis infections after antibiotic treatment using RNA detection by nucleic acid sequence based amplification Multicenter study of a rapid molecular-based assay for the diagnosis of group B Streptococcus colonization in pregnant women Comparison of rapid intrapartum screening methods for group B streptococcal vaginal colonization Perinatal screening for group B streptococci: cost-benefit analysis of rapid polymerase chain reaction Risk factors for early-onset group B streptococcal sepsis: estimation of odds ratios by critical literature review Prevention of perinatal group B streptococcal disease: revised guidelines from CDC Centers for Disease Control and Prevention. keywords: acid; agents; amplification; analysis; assays; available; chlamydia; clinical; clinicians; commercial; comparison; cost; csf; culture; current; detection; development; diagnosis; direct; diseases; dna; etiology; example; false; fda; genetic; gonorrhoeae; group; hiv; human; infectious; laboratories; laboratory; lack; meningitis; methods; microarray; microbial; microbiologists; microbiology; molecular; mycoplasma; naa; negative; new; nucleic; number; organisms; patient; pcr; positive; potential; problems; rapid; response; results; rna; sample; sensitivity; sequencing; specimens; streptococcal; studies; systems; technologies; technology; testing; tests; time; trachomatis; tuberculous; use; validation; virus; volume; women; years cache: cord-007047-7ty9mxa9.txt plain text: cord-007047-7ty9mxa9.txt item: #77 of 647 id: cord-007382-5kb16qb7 author: Hartmann, G. title: Nucleic Acid Immunity date: 2016-12-15 words: 16190 flesch: 33 summary: The involvement of SAMHD1 in innate immunity was initially proposed based on its mouse ortholog Mg11 which is IFN-inducible in macrophages and dendritic cells (Li et al., 2000) , hence the alternative name dendritic cell-derived IFN-γ-induced protein. TLR7 and TLR8 are preferentially activated by polyU or by G-and U-rich sequences (Diebold et al., 2004; Heil et al., 2004; Hornung et al., 2005; Judge et al., 2005) . keywords: -triphosphate; acid; acid immunity; activation; activities; activity; adaptive; adar1; additional; adenosine; ags; aicardi; aim2; alpha; antiviral; apoptosis; autoimmunity; bacteria; basis; binding; cas; cause; cells; cellular; certain; cgas; cleavage; compartment; complex; components; concept; context; cpg; crispr; cytoplasmic; cytosolic; defense; deficient; degradation; dendritic; dependent; detection; dicer; different; direct; disease; dna; dnase; domain; double; doublestranded; downstream; dsrna; editing; effector; effects; endogenous; endolysosomal; ends; et al; example; exonuclease; expression; extracellular; extrinsic; factor; family; fig; foreign; foreign nucleic; forms; function; genetic; group; helicase; high; higher; hornung; host; human; hybrids; identification; ifit1; ifn; iii; immune; immune cells; immune receptors; immunity; important; induced; inducible; induction; infection; inflammasome; inflammatory; information; inhibition; initiation; innate; innate immune; interaction; interference; interferon; intrinsic; kinase; later; lgp2; life; ligands; like; localization; long; loss; lupus; macrophages; mammalian; mda5; mechanisms; methylation; mice; modification; molecular; molecules; motifs; mouse; mrna; mutations; myeloid; nuclear; nucleases; nucleic; nucleic acid; number; oas; oas1; oligonucleotides; overview; pathogens; pathways; pdc; pkr; presence; production; protein; receptors; recognition; replication; research; response; responsible; restriction; results; rig; rna; rnai; rnas; role; samhd1; self; sensing; sequence; short; signaling; single; sirna; species; specific; sting; structural; syndrome; synthesis; system; target; terminal; time; tlr3; tlr7; tlr8; tlr9; toll; transcription; translation; trex1; tumor; type; unmethylated; vertebrates; virus; viruses; work cache: cord-007382-5kb16qb7.txt plain text: cord-007382-5kb16qb7.txt item: #78 of 647 id: cord-007383-5yb3dxse author: Kang, Jun-Gu title: Vaccination with single plasmid DNA encoding IL-12 and antigens of severe fever with thrombocytopenia syndrome virus elicits complete protection in IFNAR knockout mice date: 2020-03-20 words: 5381 flesch: 42 summary: We examined whether it could provide protective immunity against lethal SFTSV infection in IFNAR KO mice. Vaccination of pSFTSV-IL12 provided complete protection of IFNAR KO mice upon lethal SFTSV challenge, whereas immunization with pSFTSV elicits only partial protection, indicating that antigen-specific cellular immune responses enhanced by co-expression of IL-12 could play a significant role in protection against lethal SFTSV infection. keywords: addition; analysis; antibodies; antibody; antigen; cd4; cd8; cells; cellular; challenge; complete; control; dna; encoding; expression; fever; fig; flt3l; fusion; gene; gibco; glycoproteins; higher; human; ifnar; il-12; il12; immune; immunity; immunization; immunized; infected; infection; ko mice; korea; lethal; levels; mean; media; mice; model; mouse; neutralizing; plasmid; platelet; protection; protein; purified; recombinant; republic; responses; role; s.d; sera; severe; sftsv; significant; specific; splenocytes; study; supernatants; syndrome; thrombocytopenia; titer; usa; vaccination; vaccine; vector; viral; virus; weight cache: cord-007383-5yb3dxse.txt plain text: cord-007383-5yb3dxse.txt item: #79 of 647 id: cord-007506-swx3kqob author: Paul, Prem S. title: Applications of nucleic acid probes in veterinary infectious diseases date: 2002-11-13 words: 2887 flesch: 22 summary: The diagnosis of swine dysentery using a labeled nucleic acid probe Development of specific nucleic acid probes for the differentiation of porcine rotavirus serotypes Cloning, physical mapping and cross hybridization of the canine adenovirus types 1 and 2 genomes Evaluation ofoligonucleotide probes for identification ofshigalike-toxin-producing Escherichia coli Nucleic acid probes in diagnosis of viral diseases of man DNA probe for the identification ofHistoplasma capsulatum High technology diagnostics: detection of enterotoxigenic Escherchia coli, using DNA probes Polymerase chain reaction amplification ofpseudorabies virus DNA from acutely and latently infected cells Cloning E. coli genes by oligonucleotide hybridization Analysis by RNA-RNA hybridization assay of intertypic rotaviruses suggests that gene reassortment occurs in vivo Hybridization techniques Crohn's diseaseisolated mycobacteria are identical to Mycobacterium paratuberculosis, as determined by DNA probes that distinguish between Mycobacterial species DNA probes to identify and detect Mycobacterium paratuberculosis in clinical and veterinary samples Detection of cell culture mycoplasmas by a genetic probe Identification of enterotoxigenic Escherichia coli by colony hybridization using three enterotoxin gene probes Advances in the use of nucleic acid probes in diagnosis of viral diseases of man Detection of porcine parvovirus using non-radioactive nucleic acid hybridization Polymerase chain reaction Applications of recombinant DNA technology in the development of vaccines, reagents and DNA probes Isolation of a bovine rotavirus with a super-short RNA electrophoretic pattern from a calf with diarrhea Non-radioactive nucleic acid probes for the diagnosis of virus infections Proviral integration and transcriptional patterns of equine infectious anemia virus during persistent and cytopathic infections DNA probes for detection and identification of mycoplasmas (mollicutes) Comparison of porcine parvovirus to other parvoviruses by restriction site mapping and hybridization analysis of southern blots Rapid plasmid library screening using recA-coated biotinylated probes Mapping bovine herpesvirus type 1 latencyrelated RNA in trigeminal ganglia of latently infected rabbits Hybridization probes for the detection and differentiation of two serotypes of porcine rotavirus Detection of foot-and-mouth disease virus with DNA probes in bovine esophageal-pharyngeal fluids Diagnosis of porcine and bovine enteric coronavirus infections using cloned cDNA probes Detection of DNA viruses by radioactive and non-radioactive DNA probes: application to African swine fever virus Diagnostic deoxyribonucleic acid probes for infectious diseases DNA Probes for Infectious Diseases Characterization of Listeria monocytogenes isolates by restriction enzyme analysis and southern blot hybridization Nucleic acid probe characterizes Leptospira interrogans serovars by restriction fragment length polymorphisms key: cord-007506-swx3kqob authors: Paul, Prem S. title: Applications of nucleic acid probes in veterinary infectious diseases date: 2002-11-13 journal: Vet Microbiol DOI: 10.1016/0378-1135(90)90187-z sha: doc_id: 7506 cord_uid: swx3kqob Nucleic acid probe technology is increasingly being used in basic research in veterinary microbiology and in diagnosis of infectious diseases of veterinary importance. keywords: acid; amplification; analysis; applications; blot; bovine; cells; clinical; coli; detection; development; diagnosis; diseases; dna; escherichia; et al; genes; hybridization; identification; infected; infectious; methods; microorganisms; monoclonal; mycobacterium; nucleic; nucleic acid; organisms; parvovirus; porcine; probes; radioactive; rna; rotavirus; samples; sequences; situ; southern; specific; spp; studies; swine; technology; type; veterinary; viral; virus cache: cord-007506-swx3kqob.txt plain text: cord-007506-swx3kqob.txt item: #80 of 647 id: cord-007613-g4s0v8ra author: Rimstad, Espen title: Cloning, expression and characterization of biologically active feline tumour necrosis factor-α date: 2000-03-10 words: 4671 flesch: 47 summary: Polyclonal rabbit anti-murine TNF-a (Genzyme, Cambridge, MA) and monoclonal anti-human TNF-a (Biosource International, Camarillo, CA) were used. Three primers, making up two pairs P 1 /P3 and P2/P3, were constructed from a previously published sequence of feline TNF-a (McGraw et al., 1990) : keywords: alpha; analysis; antigen; cats; cdna; cells; class; clinical; cloning; coli; concentration; culture; effect; et al; expression; factor; fbs; feline; fig; fusion; gene; genomic; glutathione; gst; hiv; human; immunodeficiency; infection; kda; l929; lane; lps; macrophages; medium; mhc; min; mouse; mrna; murine; necrosis; pbs; pcr; primers; protein; rabbit; receptor; recombinant; rftnf; sequence; size; stimulated; thrombin; tnf; tumour; vector; virus cache: cord-007613-g4s0v8ra.txt plain text: cord-007613-g4s0v8ra.txt item: #81 of 647 id: cord-007724-2nwrhk1d author: Hofmann, Martin A. title: Sequencing DNA Amplified Directly from a Bacterial Colony date: 1993 words: 877 flesch: 47 summary: We have learned that when residual amounts do cause a problem (i.e., when short termination products cannot be seen on the sequencing gel), generally as a result of short (~200 nucleotides) inserts in the clone, two approaches can be used to solve this problem: (1) Additional cycles of the PCR (50-60 total) can be run to deplete the dNTPs and (2) The product from the asymmetric reaction Direct clone characterization from plaques and colonies by the pulymerase chain reaction Rapid one-step characterization of recombinant vectors by direct analysis of transformed Escherichra coli colonies DNA sequencing of polymerase chain reaction-amplified DNA Sequencing PCR DNA amplified directly from a bacterial colony Sequence analysis of the bovine coronavirus nucleocapsid and matrix protein genes Molecular Clonmg: A Laboratory Manual The 5-prime end of coronavirus minusstrand RNAs contain a short poly(U) tract Store at -20°C For sequencing, the termination mix (10 pL) is heated at 100°C for 3 min and 3 pL/lane is loaded onto a DNA sequencing gel (see Note 2) pJ4 each) so that residual amounts would not interfere with dideoxynucleotide chain termination reactions (Innis et al., ref. 3). keywords: amplification; bacterial; chain; colony; dna; end; fig; pcr; primer; procedure; reaction; step cache: cord-007724-2nwrhk1d.txt plain text: cord-007724-2nwrhk1d.txt item: #82 of 647 id: cord-007755-o2r8ktie author: Kokoszka, Malgorzata E. title: Mapping Protein–Protein Interactions with Phage-Displayed Combinatorial Peptide Libraries and Alanine Scanning date: 2014-10-20 words: 2927 flesch: 52 summary: A general workfl ow diagram for isolating and characterizing the peptide ligands to protein domains or fragments using phage display methods. Also, decreasing the amount of used target can facilitate isolation of higher affi nity clones. keywords: affi; alanine; approach; binding; buffer; cbk1; cell; combinatorial; dna; domain; fig; gst; incubate; interactions; kinase; known; kunkel; libraries; library; ligands; lyn; m13; motif; mutagenesis; nity; peptide; phage; protein; purifi; rst; scanning; selection; sequence; sh3; src; supernatant; target; template; tube; use; wash cache: cord-007755-o2r8ktie.txt plain text: cord-007755-o2r8ktie.txt item: #83 of 647 id: cord-007757-4mri8kyq author: van de Sluis, Bart title: Transgene Design date: 2010-10-04 words: 3791 flesch: 35 summary: Transgenic models of Huntington's disease Mitochondrial dysfunction in neurodegenerative diseases Duchenne muscular dystrophy and the neuromuscular junction: the utrophin link Mouse models of human genetic disease: which mouse is more like a man? Molecular genetics and transgenic model of Gertsmann-Straussler-Scheinker disease Recent insights into the molecular pathogenesis of Huntington disease Brain dystrophin, neurogenetics and mental retardation A generic intron increases gene expression in transgenic mice Functional analysis of the human adenosine deaminase gene thymic regulatory region and its ability to generate position-independent transgene expression Elements regulating somatic hypermutation of an immunoglobulin kappa gene: critical role for the intron enhancer/matrix attachment region Sequences containing the second-intron enhancer are essential for transcription of the human apolipoprotein B gene in the livers of transgenic mice Multiple neuron-specific enhancers in the gene coding for the human neurofilament light chain High-level expression of the rat whey acidic protein gene is mediated by elements in the promoter and 3¢ untranslated region Position-independent expression of whey acidic protein transgenes Locus control regions: coming of age at a decade plus Cell-specific expression of alpha 1(I) collagen-hGH minigenes in transgenic mice Independent regulatory elements in the nestin gene direct transgene expression to neural stem cells or muscle precursors At least six nucleotides preceding the AUG initiator codon enhance translation in mammalian cells Complementation of null CF mice with a human CFTR YAC transgene A human YAC transgene rescues craniofacial and neural tube development in PDGFRalpha knockout mice and uncovers a role for PDGFRalpha in prenatal lung growth A YAC mouse model for Huntington's disease with fulllength mutant huntingtin, cytoplasmic toxicity, and selective striatal neurodegeneration A yeast artificial chromosome covering the tyrosinase gene confers copy number-dependent expression in transgenic mice Copy number-dependent expression of a YAC-cloned human CFTR gene in a human epithelial cell line Metallothioneinhuman GH fusion genes stimulate growth of mice Acute leukaemia in bcr/ abl transgenic mice Dramatic growth of mice that develop from eggs microinjected with metallothionein-growth hormone fusion genes Transgenic mice containing growth hormone fusion genes Somatic expression of herpes thymidine kinase in mice following injection of a fusion gene into eggs Transmission distortion and mosaicism in an unusual transgenic mouse pedigree Regulation of metallothionein gene expression Timing is everything in life: conditional transgene expression in the cardiovascular system Flipping the oncogene switch: illumination of tumor maintenance and regression Spatial and temporal regulation of a lacZ reporter transgene in a binary transgenic mouse system Temporal control of gene expression in transgenic mice by a tetracycline-responsive promoter Inducible gene expression and gene modification in transgenic mice Temporal control of the Cre recombinase in transgenic mice by a tetracycline responsive promoter A modified tetracycline-regulated system provides autoregulatory, inducible gene expression in cultured cells and transgenic mice Transgenic mouse models for lung cancer A genetic program for deletion of foreign DNA from the mammalian genome Patterns of DNA methylation -evolutionary vestiges of foreign DNA inactivation as a host defense mechanism. However, in all instances, a number of indispensable elements that control gene expression need to be included in a transgene. keywords: activity; addition; aim; analysis; animal; cdna; cell; chapter; choice; cloning; construct; control; copy; design; dna; elements; endogenous; exon; expression; function; genes; genetic; genomic; heterologous; human; important; independent; intron; large; lcrs; level; locus; mammalian; methods; mice; microinjection; model; mouse; native; number; origin; patterns; position; possible; product; promoter; protein; purification; regions; regulatory; sequences; size; specific; study; systems; tissue; trans)gene; transcriptional; transgene; vivo cache: cord-007757-4mri8kyq.txt plain text: cord-007757-4mri8kyq.txt item: #84 of 647 id: cord-008333-1wepke2o author: Weisz, Ora A. title: Chapter 7 Use of Recombinant Vaccinia Virus Vectors for Cell Biology date: 2008-02-28 words: 7495 flesch: 53 summary: Vaccinia virus expression vector: Coexpression of P-galactosidase provides visual screening of recombinant virus plaques Fusion of intra-and extracellular forms of vaccinia virus with the cell membrane Generation of recombinant vaccinia viruses Cap-independent translation of mRNA conferred by encephalomyocarditis virus 5' sequence improves the performance of the vaccinia viruslbacteriophage T7 hybrid expression system Eukaryotic transient-expressions system based on recombinant vaccinia virus that synthesizes bacteriophage T7 RNA polymerase The complete DNA sequence of vaccinia virus Cell biology of viruses that assemble along the biosynthetic pathway Smallpox vaccination for investigators 0-glycosylation of the coronavirus M protein A specific transmembrane domain of a coronavirus El glycoprotein is required for its retention in the Golgi region Sonication and trypsinization of cell lysates is the only way to disrupt virus aggregates generated by freezing in medium, and must be performed before infecting cells. keywords: addition; agarose; antibodies; antibody; assembly; buffer; cells; cover; culture; days; dish; dishes; dmem; dna; early; expressed; expression; fcs; fig; foreign; free; gene; genome; golgi; growth; high; immunofluorescence; incubator; infected; infection; interest; lysate; medium; membrane; method; min; moss; overlay; pbs; period; plaques; plasmid; polymerase; production; promoter; protein; purified; recombinant; recombination; rna; screening; sds; section; serum; solution; subcloning; system; time; transcription; transfection; tris; tubes; use; vaccinia; vaccinia virus; vector; viral; virus; viruses; volume; vsv; vtf7 cache: cord-008333-1wepke2o.txt plain text: cord-008333-1wepke2o.txt item: #85 of 647 id: cord-008588-4eu9v5d3 author: Chastain, Michael title: Structural Elements in RNA date: 2008-02-29 words: 13702 flesch: 52 summary: The division of RNA structure into building blocks consisting of secondary or tertiary interactions makes it easier to describe RNA structures. Finally, the division of RNA structure into building blocks consisting of secondary or tertiary interactions makes it easier to describe RNA structures. keywords: algorithms; amino; angles; anticodon; backbone; base; binding; biological; bonds; bulge; bulge loops; characterized; chemical; comparison; computer; conformation; contacts; crick; crystal; different; dimensional; dimensional structure; distances; dna; duplex; effect; end; energies; energy; example; fig; form; free; geometry; groove; groups; hairpin; helical; helical regions; helices; helix; hydrogen; interactions; internal; internal loops; intron; junction; loop; loop nucleotides; loop regions; major; methods; minor; mismatches; model; modification; molecules; nmr; nucleotides; number; pairing; pairs; phosphate; phylogenetic; possible; protein; protons; pseudoknot; regions; rna; rna interactions; rna molecules; rna secondary; rna structure; rrna; secondary structure; sequence; single; specific; stable; stacking; stem; strand; structure; studies; sugar; tertiary; tertiary interactions; tertiary structure; torsion; triples; trna; trnaphe; unpaired; unpaired nucleotides; watson cache: cord-008588-4eu9v5d3.txt plain text: cord-008588-4eu9v5d3.txt item: #86 of 647 id: cord-008613-tysyq6o4 author: Thomas, Sheila M. title: Two mRNAs that differ by two nontemplated nucleotides encode the amino coterminal proteins P and V of the paramyxovirus SV5 date: 1988-09-09 words: 8438 flesch: 43 summary: The SV5 P gene has been shown to encode both the P protein (Mr = 44,000), and protein V (Mr = 24,000) by the arrest of translation in vitro of both P and V using a cDNA clone derived from SV5-specific mRNAs (Paterson et al., 1984) . and is part of the transcriptase complex (Buetti and Choppin, 1977) , while protein V is found in infected cells and is of unknown function (Peluso et al., 1977) . keywords: aca; acid; act; addition; amino; analysis; antibodies; antibody; cca; cdna; cells; chain; clone; coding; codon; common; complex; cysteine; data; different; dna; end; et al; evidence; figure; form; fragment; frame; gene; genome; group; human; iii; infected; influenza; initiation; internal; lamb; lanes; length; lysate; mechanism; methionine; method; monoclonal; mrna; nontemplated; nuclease; nucleotides; open; p cdna; p gene; p mrna; p protein; p203; paramyxovirus; paterson; paterson et; pgem-2; polymerase; products; protein; protein v; rabbit; randall; reading; reading frame; region; residues; reticulocyte; rich; rnas; runoff; sequence; sequencing; single; site; size; specific; splicing; structure; sv5; synthesis; synthetic; tcc; template; transcription; transcripts; translation; viral; virion; virus; vitro; vrna; xbal cache: cord-008613-tysyq6o4.txt plain text: cord-008613-tysyq6o4.txt item: #87 of 647 id: cord-008777-i2reanan author: None title: ECB12: 12th European Congess on Biotechnology date: 2005-07-19 words: 151661 flesch: 40 summary: During the process development for protein production, short time to market and the demand for cheap processes dominate today's process development. Interdependence of the impact of methanol and oxygen supply on protein production with recombinant Pichia pastoris N.K. Khatri, F. Hoffmann Martin-Luther-University Halle-Wittenberg, Institute for Biotechnology, Halle D-06120, Germany. keywords: -1,4; -amylase; 1,2; 16s; 2,4; aat; absence; abundant; acceptor; account; accumulation; accuracy; accurate; acetate; acetyl; acid; acid bacteria; acid concentration; acid fermentation; acid production; actions; activated; activation; active; activities; activity; acyl; addition; adequate; adhesion; administration; adsorbents; adsorption; adult; advanced; advantages; aeration; affected; affinity; agar; agents; agitation; agricultural; aim; air; alcohol; algal; algorithm; alkaline; alkaloid; altered; alternative; alık; amino; amino acid; ammonia; ammonium; amounts; amplification; amplified; anaerobic; analogues; analysis; analytical; analyzed; anammox; animal; ankara; ankara university; antibacterial; antibiotics; antibodies; antibody; antigen; antigenic; antimicrobial; antioxidant; apoptosis; apparent; applicability; applicable; application; applied; approach; appropriate; aqueous; arabinose; area; aromatic; ascorbic; aspects; aspergillus; assay; assayed; assembly; associated; astaxanthin; atcc; atp; attention; attractive; aureus; availability; available; average; bacillus; bacteria; bacterium; balance; balhimycin; barley; basal; base; basis; batch; batch process; batches; beads; bed; behavior; benefits; benzene; benzoin; best; beta; better; binding; bioactive; biocatalysts; biocatalytic; biocentrum; biochemical; biochemistry; biocontrol; biodegradation; bioethanol; biofilm; biological; biology; biomarkers; biomass; biomass production; biomedical; bioprocess; bioreactor; bioremediation; biosynthesis; biotechnological; biotechnology; blood; blot; blue; bonds; bone; botulinum; bovine; box; braun; breeding; brewing; brm; broad; broth; bsa; buffer; building; bulk; business; butachlor; butanol; bvdv; calcium; calculated; calibration; campus; canary; cancer; candida; capabilities; capable; capacity; caprine; capture; carbohydrate; carbon; care; carotene; carotenoids; case; cassava; catalyst; catalytic; catalyze; cdna; cell; cell culture; cell growth; cell line; cell mass; cell proliferation; cell protein; cellulose; center; central; centre; centrifugation; ceramide; cerevisiae; certain; chain; challenge; changes; characteristics; characterization; characterized; cheap; cheese; chemical; chemical engineering; chemistry; chemostat; chip; chiral; chitin; chitosan; choice; chromatography; chymosin; citrate; citric; citric acid; class; classical; classification; cleavage; clinical; cloned; cloning; close; cluster; coal; coated; coating; coefficients; coffe; coli; collagen; collected; collection; college; colon; column; combination; combined; commercial; common; community; companies; comparative; compare; comparison; compartments; compatible; complementary; complete; complex; complexes; complexity; components; composition; compounds; compression; concentration; concept; conclusion; conditions; conformational; consequence; conserved; considerable; considerations; consistent; constant; constructed; construction; consumed; consumers; consuming; consumption; contact; contaminated; contamination; content; continuous; contrast; contribution; control; controlling; conventional; conversion; corn; correlation; corresponding; cost; countries; coupling; course; cresol; criteria; critical; crl; crls; crop; cross; crucial; crude; cultivars; cultivation; culture; culture conditions; culture medium; current; curves; cycle; cysteine; cytochrome; cytometry; cytotoxic; dairy; damage; data; date; days; dbc; debris; decades; decrease; deficiency; degradation; degraded; degrading; degree; dehydrogenase; deletion; delivery; demand; denmark; density; department; dependent; derivatives; design; detailed; detection; detergent; determination; determined; development; device; dhap; diabetes; diabetic; diagnosis; dialysis; diet; differences; different; different concentrations; different conditions; different process; different time; differential; differentiation; difficult; diffusion; dige; digestion; dilution; direct; directed; discovery; disease; disinfectants; disrupted; disruption; dissolved; distilled; distinct; distribution; diverse; dk-2800; dna; domain; donor; dopamine; dose; double; downstream; drug; dry; dtu; dye; dyes; dynamic; e. coli; e.c; e.g.; early; easy; eba; economic; education; effect; effective; efficient; effluent; efforts; ehts; electron; electrophoresis; elements; elisa; elution; embryos; emission; enantiomeric; enantioselectivity; encoding; endothelial; energy; engineering; enriched; enrichment; environmental; enzymatic; enzyme; enzyme activity; enzyme production; eps; equilibrium; equipment; equivalent; escherichia; essential; ester; estimation; et al; etc; ethanol; ethanol production; eukaryotic; european; evaluation; evidence; examined; examples; excellent; excess; exchange; exclusion; expansion; expensive; experience; experiments; exposure; expressed; expression; extended; extent; extract; extraction; facilitated; facilities; factors; faculty; family; far; fast; fatty; features; fed; feed; feeding; feedstock; fermentable; fermentation; fermentation conditions; fermentation process; fermented; fermentor; fibre; fibroin; filamentous; filtration; final; findings; fine; finland; fish; flasks; flavonoids; flavour; flora; flow; fluid; fluorescence; flux; fluxes; focused; folate; fold; following; food; formate; formation; forms; formulations; forward; foundation; fraction; fragment; framework; france; free; fructose; fruit; fucoidan; fuel; function; fundamental; fungal; fungi; fungus; fusarium; fusion; fusion protein; future; fviii; g l; gain; galactose; galactosidase; gas; gel; geldanamycin; gels; gene; gene expression; general; genetic; genome; genomic; genotypes; genus; germany; gfp; global; glucosamine; glucose; glucuronic; glutamate; glutamicum; glutathione; glycerol; glycine; glycolytic; glycoproteins; glycosylation; goal; god; good; gradient; gram; grant; grape; great; greater; green; group; growing; grown; growth; growth conditions; growth medium; growth rate; gsh; gut; half; hamster; hand; hbv; hcv; health; heat; heating; heavy; help; hepatitis; heterologous; hexane; hgh; hic; high; high activity; high cell; high level; high production; high temperature; high yield; higher; highest; his7tnf; histidine; homogeneity; homologous; homology; hormone; host; hplc; human; human cells; human growth; hungarian; hybrid; hybridization; hydrodynamic; hydrolysate; hydrolysis; hydrophobic; hypothesis; ibs; ideal; identical; identification; igg; iii; immobilization; immobilized; immune; immunological; impact; implementation; important; improved; improvement; increase; incubation; indicator; individual; induced; inducible; induction; industrial; industrial production; industry; infection; inflammatory; influence; infrared; ingredients; inhibited; inhibition; inhibitory; initial; innovative; inoculum; inorganic; inositol; insect; insight; insoluble; institute; instrument; insulin; integrated; intein; intended; interaction; interest; interesting; intermediates; internal; international; intestinal; intracellular; introduction; introns; inulinase; investigation; involved; iran; islands; isoforms; isolated; isolation; isomerase; isopropanol; isotherms; issues; japan; juice; kda; keto; kind; kinetic; kit; kits; kluyveromyces; knowledge; known; kobe; korea; l −1; labelling; laboratory; laccase; lack; lactate; lactic; lactic acid; lactobacillus; lactococcal; lactose; large; layer; lead; lee; length; level; level production; library; licheniformis; life; ligand; light; lignocellulosic; like; likely; limitations; limited; limiting; lincomycin; line; linear; lipase; lipase production; lipid; liquid; literature; little; living; load; loading; local; lodz; long; loop; loss; low; lower; ltd; luciferase; lund; lutein; lyase; lyngby; lyophilized; lysine; mabs; magnetic; mail; main; major; making; maltose; mammalian; management; manipulation; manner; manufacturing; marine; markers; market; marxianus; mass; material; mathematical; matrix; matter; maturation; maximal; maximum; means; measured; measurements; mechanism; media; medical; medicines; medium; membrane; mercury; metabolic; metabolic activity; metabolic engineering; metabolites; metabolome; metal; methionine; method; methodology; methyl; metu; mg l; mice; microalgae; microarrays; microbial; microbiology; microfluidic; microorganisms; microscopy; microspheres; middle; milk; mill; mineral; minimal; mixed; mixing; mixture; model; modeling; modern; modification; modified; modules; molasses; molecular; molecules; monitoring; monoclonal; monooxygenases; months; morphological; morphology; mothers; mouse; mrna; multiple; muscle; mutants; mutation; mycelium; myogenic; n19tnf; nacl; nadorcott; nadph; naproxen; national; natural; nature; necessary; need; negative; nerve; netherlands; network; neurons; new; niger; nir; nitrite; nitrogen; non; nonlinear; normal; novel; nuclear; nucleic; nucleotide; number; numerous; nutrient; nutritional; objective; observed; occurring; odor; oil; oligonucleotide; oligosaccharides; olive; omw; ones; open; operating; operation; operon; opportunity; optimal; optimization; optimum; order; organic; origin; oryzae; osmotic; overall; overcome; overlap; oxidase; oxidation; oxidative; oxygen; p.o; p450; paa; packed; page; paper; parallel; parameters; partial; particles; particular; partition; parts; pastoris; pathogenic; pathway; patients; patterns; pcr; pdh; pdna; pectin; peg; penicillium; pentose; people; peptide; perceptions; performance; period; peroxidase; perturbation; peter; petroleum; ph conditions; pharmaceutical; pharmacological; phase; phenol; phenotypic; phosphate; phylogenetic; physical; physiological; physiology; phytases; phytate; pichia; pilot; plant; plantarum; plasma; plasmid; plate; platform; pls; pnp; point; poland; pollen; pollution; polyclonal; polymer; polymorphisms; polypeptide; polysaccharides; population; portal; portion; portugal; positive; possibility; possible; post; potato; potential; powder; powerful; ppm; practical; practice; precipitation; precursor; preliminary; preparations; prepared; presence; present; present study; presentation; pressure; pretreatment; previous; primary; primers; principle; prior; probes; probiotic; problem; procedure; process; process conditions; process development; processes; processing; produce; production; production cost; production medium; production process; production strains; production system; production yield; productivity; products; profiles; profiling; progenitors; program; progress; project; prokaryotic; proliferation; promising; promoter; properties; protease; protective; protein; protein concentration; protein engineering; protein expression; protein production; proteolytic; proteome; proteomics; pseudomonas; public; puerto; pulp; pure; purification; purified; purity; purpose; putative; puvls; pınar; quality; quantification; quantitative; quantities; quantity; rabbits; racemic; random; range; rapid; rate; ratios; rats; raw; rbbr; rdc; reaction; reactive; reactors; real; reca; recd; recent; receptor; recognition; recombinant; recombinant enzyme; recombinant protein; recovered; recovery; reduced; reductase; reference; refolding; regeneration; region; regulated; regulation; regulatory; related; relationship; relative; release; relevant; reliable; removal; remove; renewable; repair; replacement; reported; reproducible; requirements; research; residual; residues; resistance; resources; respect; respective; respiration; respiratory; response; responsible; resulting; results; retention; reverse; rfviia; rhctla4ig; rhizopus; ribosomal; rice; rico; rise; risk; rnai; rnase; rnc; robust; robustness; role; root; route; rpl23; rpm; rrna; run; saccharomyces; safe; salt; samples; sampling; sandwich; sap; sbt; scaffolds; scale; scale production; scar; schistosomules; school; science; scientific; scientists; screening; sds; second; secondary; secretion; seeds; selection; selective; selectivity; self; sensitive; sensitivity; separated; separation; sepharose; sequence; sequencing; sera; series; serine; serum; set; sets; severe; shake; shaking; shock; short; shrimp; signal; signalling; significant; silencing; silica; silkworm; similar; similarity; simple; simulated; simulation; simultaneous; single; sirna; site; situ; size; skeletal; skin; sludge; small; smb; sodium; software; soil; sole; solid; solubility; soluble; soluble protein; solutes; solution; solvent; source; soybean; spain; special; species; specific; specific activity; specific growth; specificities; specificity; spectra; spectrometry; spectroscopy; spectrum; splicing; spores; spots; srb; stability; stable; stages; standard; starch; starting; state; stationary; statistical; status; stem cells; step; stirred; stoichiometric; storage; strains; strategies; strategy; straw; streptomyces; stress; strong; structure; students; studies; study; styrene; subjects; submerged; substances; substitution; substrate; subtilis; subunit; successful; sucrose; sugar; suitable; sulfate; sulphate; superior; supply; support; surface; survival; susceptibility; suspended; suspension; sweden; syndrome; synthase; synthesis; synthetic; syrup; system; systematic; tagatose; tags; tank; tannase; tannic; target; target protein; targeted; targeting; technical; technical university; technique; technologies; tehran; temperature; temporal; tendency; terminal; terms; tested; testing; tests; textile; therapeutic; therapy; thermal; thermophilic; thermostable; threonine; thrombin; throughput; thuringiensis; time; tissue; tobacco; today; tof; tolerance; tool; total; toxic; toxicity; toxins; tpi; traditional; training; transcription; transcriptome; transfer; transferase; transformants; transformation; transgenic; translational; transplantation; transport; treatment; trichoderma; trimethoprim; tropical; trypsinogen; tumor; turkey; type; typical; uncontrolled; understanding; unfolding; unique; unit; university; uptake; urease production; usa; use; useful; utilization; utilizing; valuable; value; variables; variants; variation; varied; variety; vector; vegetable; versicolor; viability; viable; view; vinyl; viral; virus; viruses; viscosity; vitro; vivo; volume; volumetric; vvm; wall; wastes; wastewater; water; wavelength; ways; weeks; weight; western; wet; whey; white; wide; widespread; wild; wildtype; wnt; work; workforce; working; world; worldwide; xylitol; xylitol production; xylose; years; yeast; yeast cells; yield; yogurt; zealand; zinc; zone cache: cord-008777-i2reanan.txt plain text: cord-008777-i2reanan.txt item: #88 of 647 id: cord-009261-97qegnlo author: Rieux, Charlotte title: Thiopurine Derivative-Induced Fpg/Nei DNA Glycosylase Inhibition: Structural, Dynamic and Functional Insights date: 2020-03-17 words: 11787 flesch: 47 summary: Fpg/Nei DNA glycosylases are composed of two globular domains, an N-terminal domain rich in beta-structures and a C-terminal domain rich in alpha-structures. Previous experiments strongly suggest the involvement of disulfide forms of 2TX and TXn in the inhibition of Fpg/Nei DNA glycosylases because TCEP completely abolished the inhibition of all the enzymes tested in this work (Figure 4) . keywords: 2tx; 2tx red; abasic; action; active; active site; activities; activity; analogs; analysis; associated; atom; base; best; binding; cancer; catalytic; cells; chemical; coli; complex; compounds; concentrations; conditions; crystal; cyclic; cysteine; damage; data; derivatives; determined; disulfide; disulfide forms; dithio; dmso; dna; dna binding; dna duplex; dna glycosylases; dna repair; docking; duplex; effect; effective; efficient; emsa; enzyme; exchange; excision; experiments; figure; finger; forms; fpg; free; glycosylases; group; high; hneil1; human; hypothesis; ic50; iii; inhibition; inhibitors; lesion; llfpg; loop; mass; mechanism; mer; mode; molecular; molecule; monothio; motif; mvnei1; nei dna; new; non; observation; ogg1; oxidation; oxidized; oxog; oxoguanine; potential; presence; present; previous; protein; purine; r260; ray; red; reduced; repair; residues; responsible; results; search; second; similar; site; site ii; small; species; strand; structure; studies; study; substrate; synthesis; table; targets; tcep; thf; thiol; thione; tx13; tx14; tx16; tx19; tx27; txn; work; zinc; znf; znlf cache: cord-009261-97qegnlo.txt plain text: cord-009261-97qegnlo.txt item: #89 of 647 id: cord-009376-a35a92gh author: Lovatt, Archie title: Applications of quantitative PCR in the biosafety and genetic stability assessment of biotechnology products date: 2002-01-07 words: 9218 flesch: 45 summary: The development and validation of PCR assays to meet the requirements of regulatory authorities is a key element in the production and marketing of final products. Further studies Quantitation of DNArRNA using real time PCR detection Inverted Alu repeats unstable in yeast are excluded from the human genome High throughput detection of retrovirus-associated reverse transcriptase using an improved Fluorescent Product Enhanced Reverse Ž Transcriptase Assay F-PERT and its comparison to conventional detection methods Pharmaceutical perspectives of nonviral gene therapy Zoonoses and haemorrhagic fever Elimination of background signals in a modified polymerase chain reaction-based reverse transcriptase assay The role of deer as a possible reservoir host of Potosi virus recognised arbovirus in the United States Simultaneous screening for HBV DNA and HCV RNA genomes in blood donations using a novel TaqMan PCR Rapid reverse transcription-PCR detection of hepatitis C virus RNA in serum using TaqMan fluorogenic detection system Development of a real-time PCR procedure including an internal control for the measurement of HCMV viral load Different real-time PCR formats compared for the quantitative detection of human cytomegalovirus DNA Human exposure to bovine polyomavirus: a zoonosis? Target selection and optimisation of amplification reactions Ultra-sensitive retro-v irus detection by a reverse transcriptase assay based on product enhancement Critical factors for successful PCR. keywords: acid; activity; addition; amplification; analysis; animal; appropriate; assay; assessment; available; biodistribution; biotechnology; bovine; cell; cellular; changes; circovirus; clearance; conditions; confidence; contamination; control; conventional; copies; copy; copy number; culture; data; detection; development; different; dna; endogenous; et al; example; expression; extraction; fig; final; gene; genetic; genome; guidelines; high; host; human; important; infectious; levels; limit; line; manufacturing; material; maximum; methods; minimum; mlv; molecules; negative; non; nucleic; number; pcr; pcr assays; pert; plasmid; point; porcine; positive; possible; presence; present; probe; problems; process; production; products; quantification; quantitative; range; reaction; real; recovery; removal; replicates; residual; results; retrovirus; reverse; rna; safety; sample; sensitive; sensitivity; sequence; serum; signals; significant; specific; spiked; stability; standard; studies; study; target; test; testing; therapeutic; therapy; throughput; time; tissue; transcriptase; validated; validation; value; vector; viral; virus; viruses; xenotropic cache: cord-009376-a35a92gh.txt plain text: cord-009376-a35a92gh.txt item: #90 of 647 id: cord-009562-b3qxlphe author: Feldkamp, Udo title: Dendritic DNA Building Blocks for Amplified Detection Assays and Biomaterials date: 2009-06-27 words: 1925 flesch: 41 summary: Two ABC monomers are bridged by hybridization in the presence of target DNA, and the resulting dimer can be photopolymerized to form polymer nanoparticles. [27] To this end, X-DNA motifs and plasmid vectors containing a proteinencoding gene, all of which bore the same palindromic sticky ends, were enzymatically ligated to produce a DNA hydrogel ( Figure 2) . keywords: abc; applications; approach; assembly; blocks; building; cell; cross; dendrimer; dendritic; detection; dna; ends; figure; gel; generation; green; high; hydrogel; image; like; materials; molecules; monomers; motifs; pads; production; protein; red; sequence; specific; sticky; target cache: cord-009562-b3qxlphe.txt plain text: cord-009562-b3qxlphe.txt item: #91 of 647 id: cord-009571-mygj2nd4 author: None title: Proceedings of the 42nd annual meeting of the american rheumatism association a section of the arthritis foundation june 1 & 2, 1978 new york city abstracts of papers presented date: 2005-11-23 words: 46205 flesch: 47 summary: Ten of 11 boys had disease onset prior to sexual maturation, whereas disease began after menarche in ADCC activity between patient cells and control cells when either the mixed mononuclear population or monocyte-depleted population were studied as effectors. Urate clear-ance appears to be the major determinant of serum uric acid concentration even in sickle cell patients with urate overproduction. keywords: abnormalities; abnormality; absence; absorption; acid; activation; active; active sle; activity; acute; adcc; addition; adherent; adult; agents; aggregated; altered; amounts; amyloid; ana; analysis; animals; anti; antibodies; antibody; antigen; antigenic; antisera; apparent; arthritis; arthritis patients; articular; aspirin; assay; assessment; associated; association; autoimmune; average; b27; bacterial; binding; biopsies; biopsy; blood; bmt; bone; buffer; calf; cartilage; cases; cause; cells; cellular; central; certain; changes; characteristics; characterized; chemotactic; children; chronic; classic; clearance; clinical; clq; cns; coated; colchicine; collagen; collagenase; column; common; complaints; complement; complexes; concentration; conditions; connective; contrast; control; correlation; counts; course; cpm; creatinine; criteria; cross; crp; crystals; csf; ctap; culture; cytotoxicity; data; day; days; decrease; defect; deficiency; definite; degradation; degree; dependent; deposits; depressed; determined; development; deviation; diagnosis; differences; different; diminished; direct; disease; disease activity; dna; dnp; dose; double; drug; duration; early; effect; effector; effusions; electron; elevated; enzyme; episodes; erythematosus; erythrocytes; established; evaluation; evidence; examination; excretion; experiments; factor; features; female; fever; findings; fixation; fluid; fold; following; followup; formation; fraction; fragments; free; frequency; function; gel; glass; glomerular; glomerulonephritis; glucose; gly; gradient; greater; group; growth; half; hdz; heat; high; higher; histone; history; hla; hours; human; hydroxyapatite; iga; igg; igm; immune; immune complexes; immunofluorescence; immunoglobulin; important; improved; improvement; inclusions; incorporation; increase; incubation; indomethacin; infection; inflammation; inflammatory; inhibited; inhibition; inhibitory; initial; interaction; involved; involvement; isolated; joint; jra; kidney; knee; laboratory; large; latex; lca; lesions; leukocyte; levels; light; like; lines; liver; long; loss; low; lower; lupus; lymphocytes; lysosomal; major; management; manifestations; marrow; material; matrix; mctd; mean; mechanisms; median; medical; medium; membrane; method; mice; microscopy; minutes; mixed; model; molecular; molecules; monocytes; mononuclear; months; motrin; mouse; muscle; native; natural; necrosis; negative; nephritis; neuronal; neutrophils; new; non; normal; nuclear; number; nzb; observed; old; onset; order; osteoarthritis; pain; parameters; passage; pathogenesis; pathway; patients; pattern; pbl; pbmc; peak; percent; period; peripheral; pge; pgs; pha; phenomenon; placebo; plasma; pmn; poly; polymyositis; population; positive; possible; pps; prednisone; preparations; presence; present; prevalence; previous; prior; procedure; production; products; progressive; prostaglandin; protein; proteinuria; pss; purified; ra patients; rabbits; radioimmunoassay; raji; rana; range; rats; raynaud; reaction; reactive; reduced; regions; relationship; release; renal; response; responsible; results; rheumatoid; rheumatoid arthritis; role; salivary; samples; sarcoidosis; scleroderma; secretion; sedimentation; sensitive; sensitivity; separate; sera; serologic; serum; severe; severity; significant; similar; single; sites; skin; sle; sle patients; sle sera; small; sodium; soluble; specific; specificity; spleen; spleen cells; ssdna; staining; standard; steroid; stimulation; strains; studies; study; subjects; supernatants; suppression; surface; surgery; suspensions; symptoms; syndrome; synovial; synovitis; synthesis; systemic; systemic lupus; t cells; table; target; technique; tests; therapy; time; tissue; tissue disease; titers; total; treatment; type; unknown; untreated; uptake; urate; uric; urinary; urine; use; values; vascular; virus; viruses; vitamin; vitro; vivo; vzl; weeks; weight; wrist; years; young cache: cord-009571-mygj2nd4.txt plain text: cord-009571-mygj2nd4.txt item: #92 of 647 id: cord-009615-xcz8m9a7 author: Stoner, Gerald L. title: Polyomavirus Models of Brain Infection and the Pathogenesis of Multiple Sclerosis date: 2008-01-28 words: 6400 flesch: 35 summary: Animal models have documented the important influence of host genetics in determining the outcome of virus infections (107, 108) . Note that the ham- ster brain infection currently provides a model of brain tumor induction and brain endothelial cell infection by JCV (124, 127) . keywords: agent; aids; animal; antigen; antigenic; astrocyte; autoimmune; autoimmunity; bkv; brain; capsid; cells; cellular; clinical; clusters; cns; data; demyelination; development; direct; disease; distribution; dna; eae; early; encephalomyelitis; endothelial; evidence; expression; factors; genetics; glial; hamster; host; human; immune; immunodeficiency; individuals; infected; infection; influence; jcv; large; latency; latent; lesions; leukoencephalopathy; likely; macaque; mice; model; multifocal; multiple; multiple sclerosis; nervous; normal; oligodendrocytes; paradigm; pathogenesis; pathology; patients; pcr; pml; polyomavirus; possible; primary; progressive; protein; reactivation; region; replication; response; role; sclerosis; sequence; simian; single; small; studies; study; sv40; system; target; tat; tissue; tumor; types; viral; virus; viruses cache: cord-009615-xcz8m9a7.txt plain text: cord-009615-xcz8m9a7.txt item: #93 of 647 id: cord-009655-ekc2p7k9 author: Norbäck, D. title: Dampness, indoor mould, fungal DNA and respiratory health – molecular methods in indoor epidemiology date: 2015-04-16 words: 2362 flesch: 41 summary: Another study reported a positive association between levels of Streptomyces DNA in home dust and exhaled nitrogen oxide (NO) in asthmatic children [26] . Environmental Relative Moldiness Index has been used in epidemiological studies, and higher ERMI levels have been found in home dust among children with asthma as compared to controls without asthma keywords: analysis; associations; asthma; asthmatic; children; dampness; dna; dust; endotoxin; environmental; epidemiological; ermi; european; exacerbation; exposure; fev1; fungal; group; health; higher; homes; index; indoor; moldiness; mould; pcr; prevalence; quantitative; relative; respiratory; species; specific; studies; study; values cache: cord-009655-ekc2p7k9.txt plain text: cord-009655-ekc2p7k9.txt item: #94 of 647 id: cord-009664-kb9fnbgy author: None title: Oral presentations date: 2014-12-24 words: 71226 flesch: 44 summary: Resistance to penicillin, clindamycin and tetracycline fluctuated over time at~75%, 4−8% and 2−10% respectively. The median expected power was 10.0% (IQR, 7.2−13.6%) for a risk ratio for mortality of 0.85 between the compared groups; 14.7% (IQR, 10.6−21.8%) for a risk ratio of 0.80; and 7.9% (IQR, 6.3−10.2%) for a reduction in mortality from 30% to 25%. keywords: 16s; abar1; ability; absence; account; acid; acinetobacter; acquisition; active; activity; acute; addition; adherence; administration; admission; adult; adverse; aeruginosa; aetiology; affected; agar; age; agents; aim; alternative; america; ampc; amt; anaerobes; anaerobic; analysis; animals; antibiotic; antibiotic resistance; antibodies; antibody; antifungal; antigen; antimicrobial; antimicrobial resistance; antiviral; aom; approach; appropriate; areas; assay; assessment; associated; association; aureus; available; average; azm; background; bacteraemia; bacterial; bacteriophages; bal; baseline; basis; baumannii; benefit; best; beta; better; biofilm; blactx; blakpc; blaoxa-58; blood; brain; broad; burden; cancer; candida; candidiasis; cap; care; cases; cassette; catheter; cause; cdi; ceftazidime; ceftriaxone; cells; central; centre; cephalosporins; cfu; changes; characterised; characteristics; children; chlorhexidine; choice; chromogenic; chromosomal; chronic; cihhv-6; ciprofloxacin; class; classes; clindamycin; clinical; clinical isolates; clinical samples; clinicians; clonal; clone; clostridium; closure; clsi; clusters; cmv; cohort; coli; collection; colonisation; colonised; combination; combined; common; community; comparable; comparison; complex; concentrations; concern; conclusion; conditions; confidence; confirmed; considerable; contact; contamination; contrast; control; conventional; correlation; cost; countries; course; coverage; cpt; critical; cross; csf; ctx; culture; cure; current; daily; damage; data; days; decrease; dengue; density; department; design; detection; determinants; developed; development; dfrk; diagnosis; diarrhoea; differences; different; difficile; difficult; direct; disease; dissemination; distinct; distribution; diversity; dna; dose; double; drug; drug resistance; duration; early; eastern; ebv; echinocandins; education; effect; effective; effectiveness; efficacy; efflux; eia; elbow; electrophoresis; elements; emergence; empiric; encoding; end; endemic; enterobacteriaceae; environmental; enzyme; epidemic; epidemiological; epidemiology; epidermidis; episodes; esbl; established; etest; europe; european; events; evidence; evolution; examination; exhibit; experimental; exposure; expression; extended; extent; factors; faecal; failure; family; farm; features; fever; field; figure; findings; fluconazole; fluid; fold; following; france; free; frequency; frequent; functional; future; gas; gbs; gel; gene; general; genetic; genome; genomic; genotype; germany; giemsa; global; good; gram; great; greater; greece; group; growth; guidelines; hai; half; hantaviruses; harboured; hbv; hcv; head; health; healthcare; heart; help; hepatitis; hev; high; higher; highest; history; hiv; homes; hospital; hospitalisation; host; hours; hpv; human; hybridisation; icu; identification; igg; illness; imipenem; immune; immunisation; immunity; impact; important; improved; improvement; incidence; increase; individual; infected; infection control; infections; inflammation; inflammatory; influenza; information; inhibitors; initial; insights; integron; intensive; interest; intervention; interviews; introduction; invasive; investigation; islands; isolates; isolation; issues; key; klebsiella; knowledge; known; kp342; kpc; laboratories; laboratory; lack; lactamases; large; lead; length; levels; life; like; likely; limited; literature; liver; local; location; long; longer; loss; low; lower; lps; macrolide; main; major; majority; malaria; male; management; manifestations; mass; mbl; mdr; mds; mean; measures; mechanisms; median; medical; medicine; medium; meningitis; meningofinder; meropenem; methicillin; methods; mice; microbiology; microscopy; mics; mlst; model; molecular; monitoring; months; morbidity; mortality; mothers; mrsa; mrsa isolates; mssa; multi; multidrug; multiple; mutants; mutations; mxf; n =; national; need; negative; netherlands; network; neutrophils; new; non; north; nosocomial; novel; nucleic; number; objectives; observational; observed; old; onset; opt-80; optimal; options; oral; order; organisms; origin; outbreak; outcome; overall; paediatric; parasites; particular; past; pathogenesis; pathogens; patients; patterns; pcr; penicillin; people; performance; period; persistence; persons; pfge; phage; phenotype; physicians; pigs; pip; pji; plasma; plasmid; pneumococcal; pneumoniae; point; poor; population; pork; positive; positive isolates; positive results; possible; post; potential; practice; pregnancy; preliminary; presence; present; presentation; prevalence; prevention; primary; primers; prior; probes; problem; process; producers; producing; production; products; profile; prolonged; promising; promoter; prophylaxis; proportion; prospective; protein; protocol; pseudomonas; pts; public; pulmonary; pvl; quality; questions; rama; ramr; randomised; range; rapid; rare; rate; reaction; readiness; real; realtime; recent; receptors; recipients; recognition; recombinant; recurrent; reduced; reference; regions; related; relative; relevant; replication; reported; reporting; reports; required; research; resistance; resistance genes; resistant isolates; respiratory; response; responsible; restriction; resulted; results; review; ribotype; rifampicin; risk; rna; role; routine; rrna; safety; salmonella; samples; sccmec; schools; screening; sdd; second; secondary; selection; selective; sensitive; sensitivity; sepsis; septic; sequence; sequencing; sera; serotype; serum; service; sesc; setting; severe; severity; shock; short; significant; similar; single; site; situation; skin; slime; small; soft; source; south; species; specific; specificity; specimens; spectrum; spp; spread; staff; staining; standard; staphylococcus; statistical; stay; stool; strains; strategies; strategy; streptococcus; strong; structure; studies; study; subjects; subsequent; successful; support; surgery; surgical; surveillance; survey; survival; susceptibility; susceptible; swab; symptoms; syndrome; system; systemic; table; target; tazo; techniques; technologies; technology; term; testing; tests; tetracycline; therapeutic; therapy; time; time pcr; tissue; tlr2; tools; total; toxin; tract; transcription; transmission; treatment; trends; trials; triazoles; trimethoprim; tuberculosis; type; typing; underlying; understanding; unique; unknown; urine; usa; use; vaccination; vaccine; value; vancomycin; vap; variation; viral; virulence; virus; viruses; visa; vitro; vx-166; vzv; ward; water; weeks; western; wide; women; work; world; worldwide; years cache: cord-009664-kb9fnbgy.txt plain text: cord-009664-kb9fnbgy.txt item: #95 of 647 id: cord-009894-iciaa829 author: Scott‐Taylor, Tim H. title: Detection of enteric adenoviruses with synthetic oligonucleotide probes date: 2005-12-07 words: 3697 flesch: 39 summary: key: cord-009894-iciaa829 authors: Scott‐Taylor, Tim H.; Ahluwalia, Gurmuk; Dawood, Magdy; Hammond, Gregory W. title: Detection of enteric adenoviruses with synthetic oligonucleotide probes date: 2005-12-07 journal: J Med Virol DOI: 10.1002/jmv.1890410414 sha: doc_id: 9894 cord_uid: iciaa829 The abilities of hybridization probes to detect all human adenovirus types and to identify enteric adenovirus types were evaluated. A number of fragments from different areas of the Ad41 genome were examined for their ability to differentiate between enteric adenovirus types. keywords: ad40; ad41; adenovirus; adenovirus types; antibody; children; cloned; concentration; conventional; culture; detection; diagnostic; dna; ecori; enteric; enzyme; et al; figure; fragment; gastroenteritis; gene; genome; hexon; hpii; hybridization; identification; immunoassay; isolates; methods; monoclonal; panel; plasmid; present; probe; reaction; samples; scott; sensitivity; sequences; specific; specificity; specimens; stool; strain; suspensions; synthetic; taylor; test; types; unique; use; viral cache: cord-009894-iciaa829.txt plain text: cord-009894-iciaa829.txt item: #96 of 647 id: cord-010027-r0tl01kq author: None title: Dublin Pathology 2015. 8th Joint Meeting of the British Division of the International Academy of Pathology and the Pathological Society of Great Britain & Ireland date: 2015-09-15 words: 36337 flesch: 44 summary: Tumoral melanosis refers to complete regression of a melanoma, a diagnosis that it is often missed because of the absence of tumour cells within the regressed area. Background: During the metastatic cascade, circulating tumour cells rapidly and efficiently adopt a platelet cloak. keywords: 16s; absence; accurate; acute; additional; adenocarcinoma; adult; advanced; affected; aggressive; aim; aims; alcohol; alk; analysis; anterior; application; approach; appropriate; area; arm; assay; assessment; associated; atypical; autopsy; available; axillary; background; bap1; barrett; basal; bbc; bcs; benign; better; biological; biomarkers; biopsies; biopsy; bladder; blbc; blocks; blood; braf; brain; brca1; breast; breast cancer; cancer; cancer cells; cancer patients; carcinoma; cases; cause; cd30; cd40; cd45; cell; cell lines; cell tumour; cellular; centre; cervical; challenging; changes; chemoresistance; chemotherapy; chronic; cisplatin; ck7; clear; clinical; clonality; cohort; colitis; college; colon; colorectal; colorectal cancer; combination; common; complete; complex; component; conclusion; control; cord; correlation; course; crc; criteria; cten; current; cycle; data; days; death; department; detection; developed; development; diagnosis; different; differential; differentiation; difficult; digital; disease; distinct; dna; double; dublin; dysplasia; early; effect; egfr; emt; endometrial; endoscopic; endosomal; epithelial; eqa; essential; evidence; examination; excision; experience; expert; exposure; expression; external; factor; faecal; features; female; ffpe; findings; fixed; following; free; frozen; function; future; gbm; gene expression; generation; genes; genetic; genomic; grade; grading; group; growth; guidelines; haematological; he4; head; her2; high; higher; histological; histology; history; hospital; hours; hpv; human; hypoxia; ibd; idh; igf; igfbp-2; ihc; iii; images; imaging; immune; immunohistochemistry; important; improved; include; increase; individual; infection; inflammatory; information; initial; injury; interpretation; introduction; invasive; investigation; involved; involvement; ipf; ireland; isolated; key; ki67; knockdown; knowledge; kras; laboratories; laboratory; large; leading; leeds; left; lesions; levels; light; like; lines; literature; liver; local; loss; low; lower; lung; lvi; lymphoma; mad2; main; major; males; malignancies; malignant; man-6; management; markers; mass; material; mean; mechanisms; medical; medicine; melanocytic; melanoma; mesenchymal; mesorectal; mesothelioma; metastases; metastatic; methods; migration; mirna; model; molecular; morphological; mortem; mucosa; multiple; muscle; mutant; mutated; mutations; myc; myd88; naevi; naevus; national; necessary; neck; necrosis; need; negative; neoplasia; new; nhs; nodal; nodes; non; normal; nottingham; novel; number; numerous; objective; observed; oesophagus; old; oncoscan; operative; optimal; order; outcome; ovarian; ovarian cancer; overall; p<0.0001; panel; paraffin; particular; pathological; pathologists; pathology; pathsoc; pathways; patients; pattern; pcr; performance; period; phenotype; platelets; poor; populations; positive; positivity; possible; post; potential; practice; predictive; presence; present; presentation; primary; prior; process; processes; profiling; prognosis; programme; progression; proliferation; prostate; prostate cancer; protein; pten; purpose; pyrosequencing; qpcr; quality; radiotherapy; range; rare; rates; recent; receptor; rectum; recurrence; reduced; region; relevant; renal; report; reporting; request; research; resection; response; results; review; risk; role; routine; royal; samples; sampling; sarcoma; scanned; schemes; score; screening; second; sections; sensitivity; sequencing; series; set; setting; sex; signalling; significant; similar; single; slide; small; smooth; snail; software; specific; specificity; specimens; spitz; stage; staging; staining; standard; status; studies; study; sub; subsequent; summary; support; surgery; surgical; survival; system; tamoxifen; target; targeted; techniques; technologies; technology; testing; therapeutic; therapy; time; tissue; tlr4; tma; tool; total; trauma; treatment; trial; tumour; tumour samples; turnaround; types; understanding; underwent; university; upn251; upper; use; variants; variation; vascular; week; western; wide; women; work; years cache: cord-010027-r0tl01kq.txt plain text: cord-010027-r0tl01kq.txt item: #97 of 647 id: cord-010037-1bpc8g6n author: Wu, Hui title: A high frequency of allopolyploid speciation in the gymnospermous genus Ephedra and its possible association with some biological and ecological features date: 2016-02-16 words: 8550 flesch: 42 summary: *** *** ns *** *** ** *** ns * *** ns E. gerardiana ns ns ns ns ns ns *** ns ns *** ns E. minuta ns ns ns ** ns ns *** ns ns *** ns E. monosperma *** *** ns *** *** ns *** ns ns *** ns E. sinica E. equisetina For example, the niche of E. glauca is completely different from that of E. minuta, but is slightly overlapped with that of E. monosperma and more overlapped with those of E. equisetina and E. przewalskii (Fig. 8a) ; keywords: adjacent; alleles; allopolyploid; allotetraploids; analysis; annual; anova; areas; asian; bio12; bioclim; china; chlorotypes; chromosome; clade; components; copy; cpdna; cytotypes; ddb2; different; diploid; distributions; divergence; dna; e. equisetina; e. gerardiana; e. glauca; e. intermedia; e. likiangensis; e. minuta; e. monosperma; e. przewalskii; e. regeliana; e. saxatilis; e. sinica; ecological; ephedra; et al; evolution; evolutionary; exception; fcm; fig; figs; flow; gene; genome; genus; gymnosperms; haplotypes; high; higher; hybridization; iii; individuals; information; levels; lfy; lineage; lower; mairei; maternal; network; new; niches; northern; ns e.; ns ns; nuclear; origin; phylogenetic; phylogenies; plants; plateau; ploidy; polyploids; populations; precipitation; progenitors; putative; qin; qinghai; qtp; quarter; regions; results; samples; sequences; significant; speciation; species; studies; study; table; taxa; tetraploid; tibetan; trees; tukey; unreduced; var; variables; variation; yang cache: cord-010037-1bpc8g6n.txt plain text: cord-010037-1bpc8g6n.txt item: #98 of 647 id: cord-010045-eqzs01au author: Britton, P. title: Sequence of the nucleoprotein gene from a virulent British field isolate of transmissible gastroenteritis virus and its expression in Saccharomyces cerevisiae date: 2006-10-27 words: 6194 flesch: 49 summary: The nucleoprotein gene was expressed in yeast cells under the control of two types of yeast promoters: the constitutive PGK promoter, and the inducible GAL1 promoter. Yeast cells containing recombinant plasmids, with the nucleoprotein gene in the correct orientation, produced a polypeptide of M, 47000, identical to the viral product, that reacted with a specific monoclonal antibody. keywords: acid; amino; antibody; britton; cdna; cells; cerevisiae; codon; coli; control; coronavirus; correct; end; expression; fig; fragment; frame; fs772/70; gal1; galactose; garwes; gastroenteritis; gene; glucose; homology; ibv; infected; isolated; kapke; kbp; lanes; membranes; method; mhv; monoclonal; mrna; mrna species; nucleoprotein; nucleoprotein gene; observed; open; orientation; pb620; pgk; plasmid; pma91; polypeptide; position; potential; presence; primer; product; promoter; proteins; pts15; puc9; purdue; purified; pyng2; reading; recombinant; regions; restriction; samhi; sds; second; sequence; site; species; strain; strand; synthesis; tgev; tgev nucleoprotein; transmissible; vector; viral; virus; yeast; yeast cells cache: cord-010045-eqzs01au.txt plain text: cord-010045-eqzs01au.txt item: #99 of 647 id: cord-010056-zfin4bko author: Mejia, Rojelio title: Impact of intestinal parasites on microbiota and cobalamin gene sequences: a pilot study date: 2020-04-19 words: 4086 flesch: 34 summary: Fiji Treatment for intestinal helminth infection. Review needed to take account of all relevant evidence, not only effects on growth and cognitive performance Effects of treatment for intestinal helminth infection on growth and cognitive performance in children: systematic review of randomised trials Improvements of growth, appetite, and physical activity in helminthinfected schoolboys 6 months after single dose of albendazole Improvements in appetite and growth in helminth-infected schoolboys 3 and 7 weeks after a single dose of pyrantel pamoate Influence of helminth parasite exposure and strategic application of anthelmintics on the development of immunity and growth of swine A systematic analysis of global anemia burden from 1990 to Burden and aetiology of diarrhoeal disease in infants and young children in developing countries (the Global Enteric Multicenter Study, GEMS): a prospective, case-control study Enteropathogens and chronic illness in returning travelers Use of quantitative molecular diagnostic methods to investigate the effect of enteropathogen infections on linear growth in children in lowresource settings: longitudinal analysis of results from the MAL-ED cohort study Intestinal parasitic infection alters bacterial gut microbiota in children Cross-modulation of pathogen-specific pathways enhances malnutrition during enteric co-infection with Giardia lamblia and enteroaggregative Escherichia coli Gut microbiota related to Giardia duodenalis, Entamoeba spp. keywords: alpha; alterations; analysis; b12; bacterial; biodiversity; biosynthesis; burden; changes; children; cobalamin; data; diversity; dna; duodenalis; enteric; evidence; fg/µl; fig; files; gastrointestinal; genes; giardia; giardiasis; global; group; growth; gut; health; helminth; higher; human; impact; infected; infections; intensity; intestinal; lmat; metagenomic; microbial; microbiota; multi; p =; parallel; parasites; prevotella; qpcr; quantitative; reads; real; results; review; samples; sequencing; shannonʼs; small; soil; species; specific; studies; study; synthesis; taxonomic; time; version; vitamin cache: cord-010056-zfin4bko.txt plain text: cord-010056-zfin4bko.txt item: #100 of 647 id: cord-010092-uftc8inx author: None title: Abstract of 29th Regional Congress of the ISBT date: 2019-06-07 words: 233543 flesch: 50 summary: One central question is the need of individual NAT screening (ID) versus minipool NAT screening (MP) approaches to identify all relevant viremias in blood donors. 3A-S02-03 Background: The screening of blood donors and returning travelers from active transmission areas have highlighted the importance of diagnosis of acute arboviral infections. keywords: /unit; aabb; abbott; abo blood; absence; abstract; accel; acceptable; access; accordance; account; accuracy; accurate; acid; activation; activities; activity; acute; addition; additive; adequate; adherence; adjusted; administration; admission; adsorption; adult; adverse; adverse reactions; adverse transfusion; aet; affected; african blood; age group; aged; agglutination; aggregation; agitation; agreement; ahg; aiha; aims; alert; algorithm; alinity; aliquots; allele; allergic; allergy; alloantibodies; alloantibody; allogeneic blood; allogeneic donors; alloimmunization; altered; alternative; american; amino; amotosalen; amounts; amplification; analysed; analysis; analytical; analyzer; anemia; annexin; annual; antenatal; anti; antibodies; antibody; antibody positive; antibody screening; antigen; antigen expression; antiglobulin; aop; apheresis; apheresis donors; apheresis platelet; apoptosis; apparent; application; applied; approach; appropriate; approval; april; architect; areas; arm; arms; array; arterial blood; arv; asia; aspects; assay; assessment; associated; association; assurance; asymptomatic; atp; atrs; attempt; attention; audit; august; australia; authorities; autoimmune; autologous blood; autologous donors; automated; availability; available; available blood; average; awareness; babesia; background; bacterial; bag; bags; balance; banks; baseline; basis; bcp; bct; bedside blood; beginning; behaviour; beneficial; benefit; best; beta; better; binding; bio; biological; biotin; bleeding; blood administration; blood background; blood bank; blood banking; blood cells; blood center; blood chimerism; blood collection; blood components; blood conservation; blood count; blood culture; blood demand; blood donation; blood donors; blood establishments; blood flow; blood gas; blood group; blood grouping; blood guide; blood haemoglobin; blood institute; blood loss; blood management; blood mixer; blood ordering; blood packs; blood plasma; blood platelet; blood pressure; blood processing; blood products; blood recipients; blood results; blood safety; blood samples; blood screening; blood sector; blood separation; blood services; blood specimens; blood supply; blood system; blood test; blood testing; blood transfusion; blood type; blood typing; blood units; blood utilization; blood volume; blood wastage; bombay; bone; breast; bsms; bts; buffy; burden; calcium; calculated; calculation; canada; cancer; capable; capacity; cardiac; cards; care; cases; categories; category; caucasian; cause; ccdee; cd177; cd34; cd36; cd38; cd62p; cell antibody; cell antigens; cell disease; cell donors; cell transfusion; cell units; cellular; centers; central blood; centre; centrifugation; certain; cfnas; cfu; chain; challenge; change; characteristics; characterization; characterized; check; chemotherapy; children; china; chinese blood; chronic; circulatory; classification; classified; clear; clinical; clinical data; clinical transfusion; clinicians; close; cmnc; cmv; coagulation; coat; coated; cobas; cobe; coding; coefficient; cohort; cold; collaboration; collagen; collected; collections; column; combination; combined; commercial; common; communication; community; comparable; comparative; compare; comparison; compatible blood; complement; complete; complete blood; completion; complex; compliance; complicated; complications; computer; concentrates; concentration; concern; conclusions; conditions; confirmation; confirmatory; confirmed; consecutive; consensus; consequences; considerable; consistent; constant; consumption; contact; contaminated blood; contamination; content; continued; continuous; contrast; control; control group; conventional; coombs; cord blood; correct; correlation; corresponding; cost; countries; country; counts; courses; coverage; cpp; criteria; critical; cross; crossmatch; crp; crucial; cryopreservation; cultured; current blood; curve; cytokines; cytometry; d antigen; d rhd; dae; daily; daily blood; daratumumab; data; data analysis; database; date; day; days; 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length; leukemia; leukocyte; leukoreduced; levels; life; lifestyle; light; like; likely; limited; limiting; linear; literature; little; local; logistic; long; longer; low; low hb; lower; lowest; lps; lung; lutheran blood; machine; main; maipa; major; major blood; majority; making; mandatory; manner; manual; manufacturer; manufacturing; march; marker; marrow; marrow donors; massive transfusion; matched; matching; materials; maternal; maximal; maximum; mean; measurement; measures; measuring; mechanism; median; mediators; medical; medium; mega blood; members; membrane; message; metabolic; methods; metrics; mfi; mice; microparticles; microvesicles; middle; migration; mild; milk; minimum; minor; mirasol; missing; mixed; mixing; mks; ml blood; mmhg; mmol; mns blood; mobile blood; model; moderate; modern; modified; molecular; molecules; monitoring; monoclonal; months; morbidity; mortality; mother; msm; multiple; multiple blood; murine; mutation; mvs; n =; national blood; nationwide blood; natural; necessary; need; needed; negative; negative blood; negative donors; negative results; negative samples; neonatal blood; neonates; netherlands; network; neutrophil; new blood; new donors; newborn; nhs blood; nhsbt; non; normal; normal blood; north; novel; november; nucleic; nucleotide; number; numerous; nurses; objective; observational; observed; occurrence; october; old; older blood; oncology; ongoing; online; operating; operational; operative; operators; opportunities; optia; optimal; optimal blood; option; oral; order; organ; organization; origin; outcomes; outside; overall; overload; oxidation; oxygen; p =; packed; pakistan; panel; papain; paper; parallel; parameters; partial; participants; particles; particular; particular blood; pas; past; pathogen; patient blood; patient safety; patients; patients samples; pattern; pbm; pbpc; pbsc; pcr; pcs; pdi; peak; pediatric; pediatric patients; people; percentage; performance; period; peripheral blood; personnel; pf4; phase; phenotype; physical; physicians; physiological; pilot; planned; plasma; plasma donation; plasma donors; plasma samples; plasma transfusion; plasma units; plasmapheresis; platelet; platelet antibodies; platelet antigens; platelet concentrates; platelet count; platelet donors; platelet function; platelet products; platelet storage; platelet transfusion; platelet units; platform; plt; plts; plus; pmet; point; policies; policy; polish blood; polymerase; polymorphisms; pooled; pooling; pools; poor; population; portugal; positive; positive anti; positive blood; positive donations; positive donors; positive group; positive patients; positive results; positive samples; positivity; possibility; possible; post; post transfusion; potassium; potential; potential donors; practical; practice; prbc; prc; precision; predictive; predictor; pregnancies; pregnancy; pregnant; pregnant blood; pregnant donors; preliminary; premedication; prenatal; preoperative; preparation; prepared; presence; present; present study; presentation; 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relevant; relevant blood; reliable; remote; remunerated blood; renal; repeat blood; repeat donors; replacement; replacement blood; reported; reporting; reports; reproductive; republic; request; require; requirements; research; residual; resistance; resource; respect; respiratory; respondents; response; responsible; restrictive; results; retention; retrospective; retrospective study; return; reveos; reveos blood; reverse; review; rh blood; rhce; rhd; rhd gene; rhd negative; rhd positive; rhdig; rhesus; rich; rise; risk; risk factors; risk patients; robust; roche; role; room; routine blood; russian; sagm; saharan; saline; sampling; sanger; sanguinis; sanquin blood; saving; scale; scd; scd patients; scenario; scientific; score; screening; season; second; second blood; secondary; sectional; selection; self; sensitive; sensitivity; sensitization; separate; september; sequence; sequencing; sera; serological; serology; seroprevalence; serum; set; setting; severe; severity; sex; sheep; shift; shock; short; shows; sickle; sigma; significant; significant blood; signs; similar; simple; single; single blood; sites; situation; size; skin; small; snp; snps; social; society; software; solid; soluble; solution; sources; south; spain; special; species; specific; specific blood; specificities; specificity; spectra; splice; split; spss; squ; square; src; ssp; stability; stable; staff; stakeholders; standard; standard blood; standardized; staphylococcus; start; starting; state; statistical; status; stem cell; step; stimulation; storage; storage period; storage time; stores; strains; strategies; strategy; strength; strong; structure; students; studies; study; study group; study period; subgroups; subjects; subsequent; substitutions; successful; sufficient; suitable; summary; supernatant; support; surface; surgery; surgical; surgical blood; surveillance; survey; survival; swirling; switzerland; symptoms; syndrome; syphilis; systematic; systems; t cell; ta6; ta7; taco; tacsi; tags; target; targeted; team; technical; technique; technologies; technology; temperature; temporary; terms; tertiary; terumo; test results; tested; testing; tests; thai blood; thalassemia; therapeutic; therapeutic blood; therapies; therapy; threats; threshold; thrombocytopenia; throughput; time donors; timely; times; tissues; titer; titre; tm blood; tool; total; total blood; total number; toxicity; tpe; tpo; traceability; training; trali; transcription; transfer; transfusion center; transfusion chain; transfusion data; transfusion events; transfusion guidelines; transfusion history; transfusion indications; transfusion institute; transfusion laboratory; transfusion management; transfusion medicine; transfusion models; transfusion policy; transfusion practice; transfusion process; transfusion protocol; transfusion reactions; transfusion recipients; transfusion results; transfusion safety; transfusion sample; transfusion service; transfusion strategies; transfusion support; transfusion testing; transfusion therapy; transfusion time; transfusion transmission; transfusions; transmission; transplantation; transpose; trauma; travel; treated; treatment; trend; trial; trigger; trima; true; ttis; tube; tumor; types; typing; uk blood; unclear; underlying; understanding; unique; united; universal; university; unknown; untreated; unusual; upper; uptake; usa; usage; use; useful; users; vaccination; valuable; value; variability; variables; variant; variation; varies; vasovagal; vector; vein; venous blood; version; versus; viral; virus; viruses; vitro; vivo; volumes; voluntary blood; vox; vvr; warm; washed; way; wb donors; wbc; wbd; weak; weak d; weeks; weight; western; wgs; white blood; wide; window; wnv; women; work; working; world; worldwide; wrong blood; years; yield; young; younger; zikv; à80 cache: cord-010092-uftc8inx.txt plain text: cord-010092-uftc8inx.txt item: #101 of 647 id: cord-010119-t1x9gknd author: None title: Abstract Presentations from the AABB Annual Meeting San Diego, CA ctober 7‐10, 2017 date: 2017-09-04 words: 230433 flesch: 50 summary: Probability of occurrence of cannabis metabolites in blood donor samples is likely to be highly variable across donor centers and is largely dependent on blood donor demographics. OBRR, CBER, FDA Background/Case Studies: Extended molecular typing of a large number of blood donors can increase the likelihood of identifying donor red blood cells (RBCs) that match those of the recipient. keywords: -ipf; 1,2; 2,3; 48c; 68c; 7)-d; aabb; abbott; abc; ability; abnormal; abo; abo blood; absence; absent; absolute; abstract; academic; acceptable; accepted; access; account; accuracy; accurate; acid; acoustic; activated; activations; activities; actual; acute; acute blood; adamts13; additional; additional blood; additive; address; adequate; adherence; adhesion; adjusted; administration; admission; adsorption; adult; adverse; aes; affected; african; agglutination; aggregation; agreement; ahg; ahus; aid; aim; aims; ais; albumin; alert; algorithm; alinity; aliquots; alleles; allergic; alloantibodies; alloantibody; allogeneic blood; alloimmunization; allow; alpha; altered; alternative; alyx; american; amicus; amino; amotosalen; amplification; amsc; amustaline; analysis; analytical; 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irradiation; isolated; issues; issuing; ivig; james; january; jennifer; jka; july; june; kell; key; kidd; kidney; kit; knowledge; known; label; labeling; laboratories; laboratory; laboratory results; laboratory testing; labs; lack; lactate; lancet; large; later; lead; leading; lean; learning; length; lesion; leukapheresis; leukemia; leukocyte; leukoreduced; leukoreduction; levels; ley; licensed; life; light; likely; limitations; limited; limited blood; limits; linear; lipid; liquid; liss; list; literature; little; loads; local; location; locus; logistic; long; longer; low; lower; lowest; lps; lrap; luminex; lung; lymph; lymphocytes; lymphoma; main; maintenance; majority; making; malaria; males; manner; manual; manufacturer; manufacturing; march; markers; marrow; massive transfusion; matched; matching; materials; maternal; maternal blood; maximum; mayo; mds; mean; measured; measurement; mechanisms; median; medical; medical center; medicine background; medium; meeting; members; membrane; 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range; rapid; rare; rare blood; rare donor; raritan; rate; ratios; rbc; rbc antibody; rbc antigens; rbc blood; rbc products; rbc samples; rbc storage; rbc transfusion; rbc units; rbc use; rbcs; rccs; rcf; reactive; reactive samples; reactivity; reagent; real; reasons; receipt; receiving; recent; recipients; recognized; recommendations; record; recovered; recovery; recruitment; recurrent; red blood; red cell; red cross; reduced; reduction; reference; refractoriness; refractory; regional blood; regions; regression; regular; regular blood; regulations; regulatory; rejection; rejuvenation; related; relationship; relative; release; relevant; reliable; remote blood; removal; removed; repeat; replacement; replicates; reported; reporting; reports; request; requirements; research; residents; residual; resolved; resources; respiratory; respondents; responder; response; responsible; results; resuscitation; retention; retrospective; retrospective study; return; reverse; review; revised; rflp; rh blood; rh(-; rhce; rhce*ce; rhd; rhd*diiia; rhig; rich; rise; risk; rna; robust; role; room; routine; routine blood; rrbc; rrv; rule; run; runs; sagm; saline; sample results; sampling; sandra; sanger; sanquin; saturation; savings; scale; scale blood; scd; scd patients; schedule; school; scientific; score; scott; screening; screens; sdp; second; secondary; secure; seeded; segment; selected; selection; sensitive; sensitivity; sensitization; separate; sepsis; september; septic; sequence; sequencing; series; seroconversion; serologic; serology; serum; session; set; sets; setting; severe; severity; sex; shelf; shock; short; shorter; shows; sickle; sieving; signal; significant; significant blood; signs; similar; similar results; simple; simulated; simulated transfusion; simulation; singapore; single; site; situations; size; size blood; small; smaller; snmvs; snp; snps; software; solid; solution; source; south; spc; spdp; special; species; specific; specifications; specificity; spectra; speed; spiked; spin; spleen; split; square; ssp; ssrbcs; stability; staff; stakeholders; standard; standard blood; standardized; starting; states; statistical; stay; stem cell; steps; sterile; storage; strategies; strategy; strength; strong; strs; students; study design; study group; study period; study population; subjects; subsequent; subset; substantial; substitution; successful; suitable; summer; supernatant; supplement; support; suppression; surface; surgeries; surgery; surgical blood; surveillance; survey; survival; susan; sxs; symptoms; syndrome; syringe; sysmex; systems; t cells; t&s; table; taco; taiwan; target; targeted; tasks; tattoo; team; technical; technique; technologists; technology; temperature; terms; tertiary; terumo; test results; tested; testing; testing method; testing time; tests; tetanus; tgf; thalassemia; thawed; thawing; therapeutic; therapeutic plasma; therapy; threshold; thrombin; thrombocytopenia; thrombotic; throughput; time; time donors; time period; time studies; time study; timely; tissue; titer; titer anti; titer results; tma; tms; tool; total; total blood; total number; total plasma; toxicity; tpe; tracking; traditional; training; trali; tranexamic; transfer; transfused; transfusion center; transfusion data; transfusion guidelines; transfusion laboratory; transfusion management; transfusion medicine; transfusion practice; transfusion process; transfusion protocol; transfusion quality; transfusion reactions; transfusion recipients; transfusion results; transfusion safety; transfusion sample; transfusion service; transfusion strategies; transfusion study; transfusion support; transfusion testing; transfusion therapy; transfusion transmission; transfusion volume; transfusion yield; transfusions; transmission; transplant; transplantation; transport; trauma; trauma patients; travel; treatment; tregs; trend; trial; triglyceride; trima; true; ttp; ttp patients; tube; tube method; tumor; turnaround; txa; txs; types; typing; typing results; u.s; ucb; underlying; understanding; underwent; unique; unit transfusion; united; units; universal; universal blood; university; unknown; unrelated; untreated; urgent; urine; usage; use; useful; users; uv1r; uva; vaccination; vaccine; validation; values; variable; variants; variations; varied; vein; venous; venous blood; verification; version; viability; viable; viral; virtuo; virus; viruses; vision; visual; vitro; vivo; volumes; voluntary blood; volunteers; vs.; vvr; vwf; waiha; walk; warm; washed; washing; wastage; waste; way; wbc; wbcs; wbd; wbf; weak; weak d; weekly; weeks; weight; white blood; wide; williams; window; women; work; workflow; working; workload; workup; world; wrong blood; x10; yale; year; yfv; yield; young; zealand blood; zika; zikv; zkv; zpp cache: cord-010119-t1x9gknd.txt plain text: cord-010119-t1x9gknd.txt item: #102 of 647 id: cord-010443-4jblod8j author: Meduri, Gianfranco Umberto title: General Adaptation in Critical Illness: Glucocorticoid Receptor-alpha Master Regulator of Homeostatic Corrections date: 2020-04-22 words: 18853 flesch: 10 summary: Timeliness of corticosteroid use in icu patients with pneumonia and ards Efficacy of corticosteroids in acute respiratory distress syn-drome: an observational study early administration of hydrocortisone replacement after the advent of septic shock: impact on survival and immune response * Early initiation of low-dose corticosteroid therapy in the management of septic shock: a retrospective observational study Glucocorticoid treatment in community-acquired pneumonia Hydrocortisone plus fludrocortisone for adults with septic shock Immune effects of corticosteroids in sepsis Vasopressin deficiency contributes to the vasodilation of septic shock Circulating vasopressin levels in septic shock Dieter ayers for the, and I. Septic shock trial, interaction of vasopressin infusion, corticosteroid treatment, and mortality of septic shock The Australian-New Zealand intensive care society clinical trials, adjunctive glucocorticoid therapy in patients with septic shock Successful treatment of acute lung injury with pitavastatin in septic mice: potential role of glucocorticoid receptor expression in alveolar macrophages Influence of drug treatment on glucocorticoid receptor levels in patients with coronary heart disease Mechanistic insights into the protective impact of zinc on sepsis The protection potential of antioxidant vitamins against acute respiratory distress syndrome: a rat trial An historical review of glucocorticoid treatment in sepsis. The role and effects of glucocorticoid-induced leucine zipper in the context of inflammation resolution Glucocorticoids promote nonphlogistic phagocytosis of apoptotic leukocytes Glucocorticoid-mediated regulation of granulocyte apoptosis and macrophage phagocytosis of apoptotic cells: implications for the resolution of inflammation Glucocorticoids induce protein S-dependent phagocytosis of apoptotic neutrophils by human macrophages Glucocorticoids induce differentiation of a specifically activated, anti-inflammatory subtype of human monocytes Saturated-efferocytosis generates pro-resolving CD11blow macrophages: Modulation by resolvins and glucocorticoids Local amplification of glucocorticoids by 11 betahydroxysteroid dehydrogenase type 1 promotes macrophage phagocytosis of apoptotic leukocytes Local amplification of glucocorticoids by 11beta-hydroxysteroid dehydrogenase type 1 and its role in the inflammatory response Glucocorticoids promote survival of anti-inflammatory macrophages via stimulation of adenosine receptor A3 Modulation of phagocytosis of apoptotic neutrophils by supernatant from dexamethasone-treated macrophages and annexin-derived peptide Ac(2-26) New lives given by cell death: macrophage differentiation following their encounter with apoptotic leukocytes during the resolution of inflammation Glucocorticoid resistance as a major drive in sepsis pathology Systemic inflammation-associated glucocorticoid resistance and outcome of ARDS Adrenal function and dysfunction in critically ill patients Proinflammatory cytokines regulate human glucocorticoid receptor gene expression and lead to the accumulation of the dominant negative beta isoform: a mechanism for the generation of glucocorticoid resistance Expression of the glucocorticoid receptor is decreased in experimental Staphylococcus aureus sepsis Cecal ligation and puncture alters glucocorticoid receptor expression Down regulation of hepatic glucocorticoid receptors after endotoxin treatment Nitric oxide up-regulates the glucocorticoid receptor and blunts the inflammatory reaction in porcine endotoxin sepsis Effects of different doses of hydrocortisone on acute lung injury in rats with early septic shock Glucocorticoid receptor expression on acute lung injury induced by endotoxin in rats Endothelial glucocorticoid receptor is required for protection against sepsis Modulation of glucocorticoid receptor expression, inflammation, and cell apoptosis in septic guinea pig lungs using methylprednisolone Low-dose dexamethasone alleviates lipopolysaccharide-induced acute lung injury in rats and upregulates pulmonary glucocorticoid receptors Mice with an increased glucocorticoid receptor gene dosage show enhanced resistance to stress and endotoxic shock Decreased cytosolic glucocorticoid receptor levels in critically ill patients Glucocorticoid receptor mRNA levels are selectively decreased in neutrophils of children with sepsis Reduced glucocorticoid receptor protein expression in children with critical illness Corticosteroid resistance in sepsis is influenced by microRNA-124-induced downregulation of glucocorticoid receptor-alpha Tissue mRNA expression of the glucocorticoid receptor and its splice variants in fatal critical illness An expanded definition of the adult respiratory distress syndrome Endothelial response to glucocorticoids in inflammatory diseases Dexamethasone potentiates in vitro blood-brain barrier recovery after primary blast injury by glucocorticoid receptor-mediated upregulation of ZO-1 tight junction protein Endothelial biomarkers in human sepsis: pathogenesis and prognosis for ARDS Dysregulation of the angiopoietin-Tie-2 axis in sepsis ARDS Angiopoietin-1 and angiopoietin-2 as clinically informative prognostic biomarkers of morbidity and mortality in severe sepsis Endothelial activation and blood-brain barrier injury as risk factors for Delirium in critically Ill patients Vitamin C revisited Microcirculatory alterations: potential mechanisms and implications for therapy. keywords: acid; acth; actions; activation; active; activity; acute; adaptation; adaptive; addition; adhesion; administration; adrenal; aging; alpha; alterations; anti; antioxidant; apoptosis; apoptotic; ards; ascorbic; ascorbic acid; association; atp; axis; barrier; binding; bioenergetic; blood; body; brain; capacity; care; cells; cellular; changes; chronic; circi; circulating; clinical; complex; concentrations; control; corrections; corticosteroid; cortisol; critical; critical illness; cytokines; damage; days; defense; deficiency; dehydrogenase; density; dependent; development; dexamethasone; different; disease; distress; dna; dose; dysfunction; dysregulated; early; effects; endothelial; energy; essential; evidence; evolutionary; experimental; expression; factor; failure; figure; function; gcs; genes; genome; genomic; gland; glucocorticoid; glucocorticoid receptor; glucocorticoid treatment; glutathione; glycocalyx; grα; high; homeostatic; homeostatic corrections; hospital; host; hpa; human; hydrocortisone; hypovitaminosis; icu; iii; il-1β; il-6; illness; immune; impact; important; improved; increase; induced; inflammation; inflammatory; injury; innate; insufficiency; interaction; interventions; intracellular; key; kinase; known; leukocytes; levels; life; liver; low; lps; lung; macrophages; major; markers; mechanisms; mediators; membrane; metabolic; methylprednisolone; mice; mitochondrial; molecules; monocytes; mortality; mrna; mtdna; multiple; muscle; natural; neuroendocrine; neutrophils; nitric; non; nuclear; nucleus; number; organ; organism; outcome; oxidative; oxide; oxygen; pathways; patients; peripheral; persistent; phagocytosis; phase; physiological; plasma; pneumonia; process; prolonged; protein; randomized; rapid; recent; receptor; reduced; reduction; regulated; regulation; release; reserves; resistance; resolution; respiratory; response; review; risk; role; ros; section; sepsis; septic; septic shock; serum; severe; shock; signaling; significant; skeletal; species; specific; stress; studies; study; subject; support; survival; syndrome; synthesis; systemic; systemic inflammation; systems; target; term; therapy; thiamine; time; tissue; tnf; transcription; treatment; trial; type; vascular; vital; vitamin; vitamin d; years cache: cord-010443-4jblod8j.txt plain text: cord-010443-4jblod8j.txt item: #103 of 647 id: cord-010500-ajmj2hyj author: ELLEGREN, H. title: Limited polymorphism at major histocompatibility complex (MHC) loci in the Swedish moose A. alces date: 2008-06-28 words: 3573 flesch: 45 summary: Preserving MHC polymorphism has in fact been put forward as being a prime objective in all conservation programs (Hughes 1991) . As an illustration of the varying levels of MHC polymorphism in cattle and moose, a blot with bovine PVuII digests hybridized with the same human DQB probe as employed in the present study is shown in Fig. I@) . keywords: alleles; analysis; animals; bottleneck; bovine; cattle; class; complex; data; degree; different; disease; diversity; dna; dqb; drb; ellegren; et al; evolution; fig; fingerprinting; fragments; genes; genetic; histocompatibility; hla; human; hybridization; individuals; klein; levels; limited; loci; locus; low; major; mhc; moose; mutations; natural; o'brien; pathogens; pcr; polymorphism; population; probes; selection; sequence; similar; single; species; sscp; study; swedish; variability cache: cord-010500-ajmj2hyj.txt plain text: cord-010500-ajmj2hyj.txt item: #104 of 647 id: cord-010511-eoc0ex3i author: Yousefi, Shida title: In vivo evidence for extracellular DNA trap formation date: 2020-04-30 words: 9224 flesch: 21 summary: An endonuclease allows Streptococcus pneumoniae to escape from neutrophil extracellular traps Secreted phosphatase and deoxyribonuclease are required by Pseudomonas aeruginosa to defend against neutrophil extracellular traps Capsule and D-alanylated lipoteichoic acids protect Streptococcus pneumoniae against neutrophil extracellular traps Neutrophil extracellular trap formation in the Streptococcus suis-infected cerebrospinal fluid compartment Neutrophil extracellular traps in the central nervous system hinder bacterial clearance during pneumococcal meningitis Neutrophil extracellular traps entrap and kill Borrelia burgdorferi sensu stricto spirochetes and are not affected by Ixodes ricinus tick saliva Eosinophils suppress Th1 responses and restrict bacterially induced gastrointestinal inflammation Excessive neutrophils and neutrophil extracellular traps contribute to acute lung injury of influenza pneumonitis Neutrophil extracellular traps cause airway obstruction during respiratory syncytial virus disease Host DNA released by NETosis promotes rhinovirusinduced type-2 allergic asthma exacerbation Neutrophil extracellular traps capture and kill Candida albicans yeast and hyphal forms Molecular mechanisms regulating NETosis in infection and disease Neutrophils sense microbe size and selectively release neutrophil extracellular traps in response to large pathogens Extracellular traps are associated with human and mouse neutrophil and macrophage mediated killing of larval Strongyloides stercoralis Toxoplasma gondii triggers release of human and mouse neutrophil extracellular traps Rapid sequestration of Leishmania mexicana by neutrophils contributes to the development of chronic lesion Wolbachia endosymbionts induce neutrophil extracellular trap formation in human onchocerciasis Neutrophil extracellular trap mitochondrial DNA and its autoantibody in systemic lupus erythematosus and a proof-of-concept trial of Metformin Systemic lupus erythematosus and DNA degradation and elimination defects The role of neutrophils in the pathogenesis of systemic lupus erythematosus Neutrophils-important communicators in systemic lupus erythematosus and antiphospholipid syndrome The role of neutrophils and neutrophil extracellular traps in vascular damage in systemic lupus erythematosus An emerging role of neutrophils and NETosis in chronic inflammation and fibrosis in systemic lupus erythematosus (SLE) and ANCA-associated vasculitides (AAV): implications for the pathogenesis and treatment Neutrophils activate plasmacytoid dendritic cells by releasing self-DNA-peptide complexes in systemic lupus erythematosus Oxidized mitochondrial nucleoids released by neutrophils drive type I interferon production in human lupus Netting neutrophils are major inducers of type I IFN production in pediatric systemic lupus erythematosus Intrinsically distinct role of neutrophil extracellular trap formation in antineutrophil cytoplasmic antibody-associated vasculitis compared to systemic lupus erythematosus Netting neutrophils induce endothelial damage, infiltrate tissues, and expose immunostimulatory molecules in systemic lupus erythematosus Netting neutrophils activate autoreactive B cells in lupus Impairment of neutrophil extracellular trap degradation is associated with lupus nephritis Differential ubiquitination in NETs regulates macrophage responses in systemic lupus erythematosus Peptidylarginine deiminase inhibition reduces vascular damage and modulates innate immune responses in murine models of atherosclerosis A critical reappraisal of neutrophil extracellular traps and NETosis mimics based on differential requirements for protein citrullination Netting neutrophils in autoimmune small-vessel vasculitis Neutrophil extracellular traps mediate transfer of cytoplasmic neutrophil antigens to myeloid dendritic cells toward ANCA induction and associated autoimmunity Neutrophil extracellular traps as a potential source of autoantigen in cocaine-associated autoimmunity Excessive neutrophil extracellular trap formation in ANCAassociated vasculitis is independent of ANCA Neutrophil extracellular traps exacerbate Th1-mediated autoimmune responses in rheumatoid arthritis by promoting DC maturation Neutrophil extracellular traps exert both pro-and antiinflammatory actions in rheumatoid arthritis that are modulated by C1q and LL-37 Aggregated neutrophil extracellular traps limit inflammation by degrading cytokines and chemokines Mast cells and neutrophils release IL-17 through extracellular trap formation in psoriasis Monocytes enhance neutrophil-induced blister formation in an ex vivo model of bullous pemphigoid Therapeutic strategies for eosinophilic dermatoses NET formation in bullous pemphigoid patients with relapse is modulated by IL-17 and IL-23 interplay The monogenic autoinflammatory diseases define new pathways in human innate immunity and inflammation Neutrophil extracellular traps regulate IL-1beta-mediated inflammation in familial Mediterranean fever Skin and systemic inflammation in schnitzler's syndrome are associated with neutrophil extracellular trap formation Dysregulated neutrophil responses and neutrophil extracellular trap formation and degradation in PAPA syndrome Eosinophil and neutrophil extracellular DNA traps in human allergic asthmatic airways Recombinant human deoxyribonuclease therapy improves airway resistance and reduces DNA extracellular traps in a murine acute asthma model Biological function of eosinophil extracellular traps in patients with severe eosinophilic asthma Oxidative damage of SP-D abolishes control of eosinophil extracellular DNA trap formation Neutrophil extracellular traps are associated with inflammation in chronic airway disease Neutrophil extracellular trap formation and extracellular DNA in sputum of stable COPD patients NETopathic inflammation in chronic obstructive pulmonary disease and severe asthma Neutrophil extracellular traps are associated with disease severity and microbiota diversity in patients with chronic obstructive pulmonary disease Extracellular eosinophilic traps in association with Staphylococcus aureus at the site of epithelial barrier defects in patients with severe airway inflammation Eosinophil extracellular trap formation is closely associated with disease severity in chronic rhinosinusitis regardless of nasal polyp status Extensive accumulation of eosinophil extracellular traps in bullous delayed-pressure urticaria: a pathophysiological link? Active eosinophilic esophagitis is characterized by epithelial barrier defects and eosinophil extracellular trap formation An emerging role for neutrophil extracellular traps in noninfectious disease Presence of luminal neutrophil extracellular traps in atherosclerosis Auto-antigenic protein-DNA complexes stimulate plasmacytoid dendritic cells to promote atherosclerosis Inflammation. Neutrophil extracellular traps license macrophages for cytokine production in atherosclerosis Roles of PAD4 and NETosis in experimental atherosclerosis and arterial injury: Implications for superficial erosion Cholesterol efflux pathways suppress inflammasome activation, NETosis, and atherogenesis P-selectin promotes neutrophil extracellular trap formation in mice Elevated levels of circulating DNA and chromatin are independently associated with severe coronary atherosclerosis and a prothrombotic state Markers of neutrophil extracellular traps are associated with adverse clinical outcome in stable coronary artery disease Host DNases prevent vascular occlusion by neutrophil extracellular traps Tissue factor-positive neutrophils bind to injured endothelial wall and initiate thrombus formation Externalized histone H4 orchestrates chronic inflammation by inducing lytic cell death Blocking CCL5-CXCL4 heteromerization preserves heart function after myocardial infarction by attenuating leukocyte recruitment and NETosis VWF-mediated leukocyte recruitment with chromatin decondensation by PAD4 increases myocardial ischemia/reperfusion injury in mice Neutrophil extracellular traps participate in all different types of thrombotic and haemorrhagic complications of coronary atherosclerosis Coronary neutrophil extracellular trap burden and deoxyribonuclease activity in ST-elevation acute coronary syndrome are predictors of ST-segment resolution and infarct size Extracellular traps derived from macrophages, mast cells, eosinophils and neutrophils are generated in a time-dependent manner during atherothrombosis The emerging role of NETs in venous thrombosis and immunothrombosis Monocytes, neutrophils, and platelets cooperate to initiate and propagate venous thrombosis in mice in vivo Cooperative PSGL-1 and CXCR2 signaling in neutrophils promotes deep vein thrombosis in mice Deep vein thrombosis in mice is regulated by platelet HMGB1 through release of neutrophil-extracellular traps and DNA Natural killer cells induce neutrophil extracellular trap formation in venous thrombosis Neutrophil extracellular traps promote deep vein thrombosis in mice Plasma DNA is elevated in patients with deep vein thrombosis Circulating extracellular DNA is an independent predictor of mortality in elderly patients with venous thromboembolism Extracellular DNA traps promote thrombosis Regulation of neutrophil extracellular trap formation by anti-inflammatory drugs Role of thromboxane-dependent platelet activation in venous thrombosis: aspirin effects in mouse model The role of platelets in inflammation A proposed role for neutrophil extracellular traps in cancer immunoediting Priming of neutrophils toward NETosis promotes tumor growth Low density neutrophils (LDN) in postoperative abdominal cavity assist the peritoneal recurrence through the production of neutrophil extracellular traps (NETs) keywords: able; activation; activity; acute; addition; airways; anti; associated; asthma; atherosclerosis; aureus; authors; autoantibodies; autoimmune; bacterial; barrier; blood; cancer; cells; chronic; clearance; complexes; conditions; coronary; csf; damage; death; deep; defense; dendritic; dependent; development; disease; dna; dna traps; dnase; dsdna; dvt; eets; effects; eosinophils; epithelial; erythematosus; evidence; experimental; extracellular; extracellular dna; extracellular traps; factor; fig; formation; function; granule; growth; hand; high; histone; host; human; ifn; immune; induced; infected; infection; infiltration; inflammation; inflammatory; inhibition; injury; innate; killing; lesions; levels; like; liver; lung; lupus; mechanisms; metastasis; mice; mitochondrial; model; mouse; mpo; mtdna; murine; net formation; netosis; nets; neutrophil; neutrophil extracellular; number; pad4; pathogenesis; patients; peptidylarginine; plasma; presence; production; proteins; reduced; release; responses; role; self; sepsis; serum; severe; severity; signaling; size; skin; sle; stimuli; structures; studies; syndrome; systemic; thrombi; thrombosis; tissue; trap formation; traps; tumor; type; vascular; venous; vitro; vivo; −/− cache: cord-010511-eoc0ex3i.txt plain text: cord-010511-eoc0ex3i.txt item: #105 of 647 id: cord-010564-7c9h16bi author: Unolt, Marta title: Pathogenic variants in CDC45 on the remaining allele in patients with a chromosome 22q11.2 deletion result in a novel autosomal recessive condition date: 2019-09-02 words: 4689 flesch: 38 summary: Here we identified CDC45 variants in a cohort of patients with a 22q11.2 deletion and craniosynostosis and/or other atypical developmental anomalies. To screen seven more patients (Table S1 ) with a combination of 22q11.2 deletion and rare CDC45 variants, CDC45 exons, splice sites, and untranslated regions were sequenced. keywords: absent; additional; age; allele; analysis; anomalies; anorectal; associated; atypical; autosomal; available; biallelic; birth; cause; cdc45; cell; chop; chromosome; cleft; clinical; cohort; condition; congenital; craniosynostosis; data; defect; deletion; diaphragmatic; differences; dna; exome; exons; expression; features; fig; findings; fish; gastrointestinal; gene; heart; hemizygous; hernia; history; human; initiation; lcr22a; lip; malformations; mgs; nonsynonymous; novel; palate; pathogenic; pathogenic variants; patients; pcr; phenotype; pregnancy; protein; rare; reads; recessive; recql4; replication; sequencing; severe; short; stature; study; subset; syndrome; table; toes; variants; years cache: cord-010564-7c9h16bi.txt plain text: cord-010564-7c9h16bi.txt item: #106 of 647 id: cord-010621-d1utt8j3 author: Yamamoto, N. title: Assessing allergenic fungi in house dust by floor wipe sampling and quantitative PCR date: 2011-08-09 words: 5423 flesch: 42 summary: Indoor fungal composition is geographically patterned and more diverse in temperate zones than in the tropics Standard Practice for Collection of Settled Dust Samples Using Wipe Sampling Methods for Subsequent Lead Determination Quantitative PCR analysis of fungal DNA in Swedish day care centers and comparison with building characteristics and allergen levels Seasonal variability of culturable fungal genera in the house dust of inner-city residences Current indoor allergen levels of fungi and cats, but not house dust mites, influence allergy and asthma in adults with high dust mite exposure Nuclear DNA content and genome size of trout and human Pulmonary aspergillosis in patients with chronic obstructive pulmonary disease: incidence, risk factors, and outcome Method of identifying and quantifying specific fungi and bacteria Strain-dependent variation in 18S ribosomal DNA Copy numbers in Aspergillus fumigatus Fungal types and concentrations from settled dust in normal residences Effect of viability of actinomycete spores on their ability to stimulate production of nitric oxide and reactive oxygen species in RAW264 Accuracy, precision, and detection limits of quantitative PCR for airborne bacteria and fungi measurement Estimating precision using duplicate measurements Temporal and spatial variation of fungal concentrations in indoor air Microbial content of house dust samples determined with qPCR Exposure, sensitization, and mechanisms of fungus-induced asthma Evaluation of quantitative PCR and culture methods for detection of house dust fungi and streptomycetes in relation to moisture damage of the house Aspergillosis case -fatality rate: systematic review of the literature An isolate of Alternaria alternata that is pathogenic to both tangerines and rough lemon and produces two hostselective toxins Quantitative PCR analysis of house dust can reveal abnormal mold conditions Public health and economic impact of dampness and mold Analysis of fungal flora in indoor dust by ribosomal DNA sequence analysis, quantitative PCR, and culture Indoor mold concentration in Eastern France The relation between fungal propagules in indoor air and home characteristics Laboratory comparison of vacuum, OSHA, and HUD sampling methods for lead in household dust Future research should examine the potential role of air exchange rates and of particle filtration affecting measured concentrations of fungi of outdoor origin in home surface dust. keywords: aaltr; accuracy; adults; allergens; analysis; area; asthma; california; cell; chrysogenum; concentrations; county; covs; cumulative; detection; dna; duplicate; dust; enigr; et al; exposure; extraction; ff2; field; floor; fr1; fumigatus; fungal; fungal concentrations; fungi; growth; heating; homes; house; house dust; indoor; laboratory; lead; mdls; measurements; method; methodologies; multiple; nondetected; observed; older; overall; pairs; potential; precision; present; qpcr; quantitative; quantities; reaction; research; results; samples; sampling; season; spatial; species; specific; spores; standard; studies; study; surface; table; time; universal; usa; variation; vesper; wipe cache: cord-010621-d1utt8j3.txt plain text: cord-010621-d1utt8j3.txt item: #107 of 647 id: cord-010680-lc1onm53 author: Patel, Ami title: In Vivo Delivery of Nucleic Acid-Encoded Monoclonal Antibodies date: 2020-03-10 words: 13069 flesch: 37 summary: The original studies surrounding in vivo antibody gene delivery focused primarily on gene delivery using recombinant viral vectors such as AAV and adenovirus (Ad), which were advanced clinically, building on work in the traditional gene therapy-based field. Understanding the safety of gene delivery platforms is paramount for in vivo antibody gene delivery to progress. keywords: aav; acid; activity; additional; adeno; administration; advanced; adverse; animal; antibodies; antibody; antigen; approaches; biologics; bispecific; building; cancer; cell; chain; challenge; chikv; clinical; combination; control; cost; ctla4; data; date; days; delivery; dengue; dependent; development; different; disease; dmab; dna; dose; drug; early; ebolavirus; efficacy; electroporation; encoding; engineering; et al; evaluation; events; exposure; expression; field; fig; formulation; gene; genome; healthy; high; higher; hiv; human; hyaluronidase; igg; igg1; immune; immunity; immunogenicity; impact; important; increase; infection; influenza; informative; infusion; initial; innate; integration; lala; lethal; levels; life; likely; limited; lnp; long; mab; mab delivery; mabs; macaques; manufacturing; mice; models; modifications; modified; monoclonal; mouse; mrna; multiple; muscle; natural; need; neutralizing; new; non; novel; nucleic; optimizations; overall; parallel; patel; patients; pdna; peak; people; pharmacokinetics; phase; plasmid; plasmid dna; platforms; post; potential; preclinical; promising; protection; protein; rabies; rapid; recent; receptor; recombinant; ref; related; responses; results; safety; sequence; significant; similar; single; stability; strategies; studies; study; synthetic; system; systemic; target; technologies; term; therapy; time; traditional; translation; treatment; trial; tumor; vaccine; vectors; viral; virus; viruses; vitro; vivo; vivo delivery; vivo expression; weeks; zika cache: cord-010680-lc1onm53.txt plain text: cord-010680-lc1onm53.txt item: #108 of 647 id: cord-010784-khvrklqt author: Waki, Kayoko title: Integrity of plasma DNA is inversely correlated with vaccine-induced antitumor immunity in ovarian cancer patients date: 2020-05-11 words: 3081 flesch: 43 summary: The decrease in cfDNA integrity in the IgG response-positive patients was significantly greater than that in the IgG response-negative patients, and although nearly 92% of the IgG-positive patients showed decreased cfDNA integrity, significantly fewer IgG-negative patients showed it (~ 60%). GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries Final overall survival of a randomized trial of bevacizumab for primary treatment of ovarian cancer Identification of an immunodominant peptide of HER-2/neu protooncogene recognized by ovarian tumor-specific cytotoxic T lymphocyte lines Study of HLA class I restriction and the directed antigens of cytotoxic T lymphocytes at the tumor sites of ovarian cancer Sensitivity of undifferentiated, high-TCR density CD8+ cells to methylene groups appended to tumor antigen determines their differentiation or death Feasibility study of personalized peptide vaccination for recurrent ovarian cancer patients Personalized peptide vaccination for cervical cancer patients who have received prior platinum-based chemotherapy A phase 2 randomized controlled trial of personalized peptide vaccine immunotherapy with low-dose dexamethasone versus dexamethasone alone in chemotherapy-naive castration-resistant prostate cancer A randomized phase II trial of personalized peptide vaccine plus low dose estramustine phosphate (EMP) versus standard dose EMP in patients with castration resistant prostate cancer Next-generation peptide vaccines for advanced cancer Combination therapy of personalized peptide vaccination and low-dose estramustine phosphate for metastatic hormone refractory prostate cancer patients: an analysis of prognostic factors in the treatment Assessment of immunological biomarkers in patients with advanced cancer treated by personalized peptide vaccination A randomized phase II trial of personalized peptide vaccine with low dose cyclophosphamide in biliary tract cancer Phase II study of personalized peptide vaccination for previously treated advanced colorectal cancer A phase II study of a personalized peptide vaccination for chemotherapy-resistant advanced pancreatic cancer patients Personalized peptide vaccination for advanced biliary tract cancer: IL-6, nutritional status and pre-existing antigen-specific immunity as possible biomarkers for patient prognosis Personalized peptide vaccination in patients with refractory non-small cell lung cancer Plasma levels of highmobility group Box 1 during peptide vaccination in patients with recurrent ovarian cancer Overview of cell death signaling pathways Cell-free DNA in human blood plasma: length measurements in patients with pancreatic cancer and healthy controls Increased integrity of free circulating DNA in sera of patients with colorectal or periampullary cancer: direct quantitative PCR for ALU repeats Cell-free circulating dna integrity based on peripheral blood as a biomarker for diagnosis of cancer: a systematic review Clinical value of ALU concentration and integrity index for the early diagnosis of ovarian cancer: a retrospective cohort trial Prediction of the efficacy of immunotherapy by measuring the integrity of cell-free DNA in plasma in colorectal cancer keywords: advanced; alu-115; alu-247; biomarkers; cancer; cell; cfdna; cfdna integrity; clinical; ctl; cycle; death; decreased; fig; fragments; free; group; igg; immune; integrity; levels; negative; ovarian; ovarian cancer; patients; pcr; peptide; personalized; plasma; positive; pre; recurrent; response; samples; study; therapy; trial; tumor; vaccination; vaccine cache: cord-010784-khvrklqt.txt plain text: cord-010784-khvrklqt.txt item: #109 of 647 id: cord-011030-o4jn5883 author: Hakki, Morgan title: Moving Past Ganciclovir and Foscarnet: Advances in CMV Therapy date: 2020-01-24 words: 7471 flesch: 34 summary: 11030 cord_uid: o4jn5883 PURPOSE OF REVIEW: CMV DNA polymerase inhibitors such as ganciclovir and foscarnet have dramatically reduced the burden of CMV infection in the HCT recipient. We review recent developments in CMV antivirals and immune-based approaches to mitigating CMV infection. keywords: action; activity; adoptive; agent; allogeneic; analysis; antiviral; benefit; blind; bone; cell; cellular; clinical; cmv; cmv infection; combination; complex; cyclopropavir; cytomegalovirus; daily; development; disease; dna; donor; dose; double; drug; effects; efficacy; exposure; filociclovir; ganciclovir; gcv; hct; hct recipients; healthy; hematopoietic; high; human; immune; infection; inhibition; inhibitors; intravenous; kinase; letermovir; load; maribavir; marrow; mechanism; mutations; novel; oral; patients; pharmacokinetics; phase; placebo; polymerase; preemptive; prevention; primary; prophylaxis; randomized; recipients; refractory; renal; replication; resistance; risk; safety; seropositive; significant; similar; sot; specific; stem; studies; study; terminase; therapy; time; transplantation; treatment; trial; ul56; ul97; use; vaccine; valganciclovir; viral; viremia; vivo; weeks cache: cord-011030-o4jn5883.txt plain text: cord-011030-o4jn5883.txt item: #110 of 647 id: cord-011053-gza05hsv author: Tiew, Pei Yee title: The Mycobiome in Health and Disease: Emerging Concepts, Methodologies and Challenges date: 2020-01-01 words: 10942 flesch: 22 summary: Stop neglecting fungi Global and multi-national prevalence of fungal diseases-estimate precision Global warming will bring new fungal diseases for mammals An overview of fungal infections An official American Thoracic Society clinical practice guideline: the clinical utility of bronchoalveolar lavage cellular analysis in interstitial lung disease An epidemic of coccidioidomycosis in Arizona associated with climatic changes Molecular evidence that the range of the Vancouver Island outbreak of Cryptococcus gattii infection has expanded into the Pacific Northwest in the United States The global problem of antifungal resistance: prevalence, mechanisms, and management Fungal infections in HIV/AIDS Early diagnosis of fungal infection in immunocompromised patients Revised definitions of invasive fungal disease from the European Organization for Research and Treatment of Cancer/Invasive Fungal Infections Cooperative Group and the National Institute of Allergy and Infectious Diseases Mycoses Study Group (EORTC/MSG) Consensus Group Diagnostic value of galactomannan antigen test in serum and bronchoalveolar lavage fluid samples from patients with nonneutropenic invasive pulmonary aspergillosis Serum galactomannan-based early detection of invasive aspergillosis in hematology patients receiving effective antimold prophylaxis Use of bronchoalveolar lavage to detect galactomannan for diagnosis of pulmonary aspergillosis among nonimmunocompromised hosts Finding the 'missing 50%' of invasive candidiasis: how nonculture diagnostics will improve understanding of disease spectrum and transform patient care What is the clinical significance of positive blood cultures with Aspergillus sp. In this state-of-the-art review, we discuss current diagnostic and therapeutic challenges associated with fungal disease and provide key examples where the application of sequencing technologies has potential diagnostic application in assessing the human ‘mycobiome’. keywords: abundance; addition; airway; allergic; amplicon; analysis; antifungal; application; approaches; aspergillosis; aspergillus; assessment; associated; asthma; available; axis; bacterial; bacteriome; bias; body; bowel; brain; bronchiectasis; building; candida; candidemia; candidiasis; care; case; cell; challenges; chronic; clinical; coccidioidomycosis; colonisation; commensal; communities; community; composition; contamination; control; coverage; cross; cryptococcus; culture; current; cystic; date; dermatitis; detection; development; diagnosis; disease; diversity; dna; drug; dysbiosis; early; endemic; environment; epidemiology; exposure; extraction; factors; fibrosis; fig; fumigatus; function; fungal; fungal disease; fungi; future; generation; glabrata; global; guidelines; gut; gut mycobiome; healthy; high; higher; hiv; host; human; ibd; identification; immune; immunity; impact; importance; independent; individuals; indoor; infection; interaction; intestinal; invasive; invasive fungal; its1; its2; key; large; likely; limited; lower; lung; malassezia; management; metagenomic; methods; microbial; microbiomes; microbiota; molecular; mortality; multiple; mycobiome; new; ngs; non; number; overall; pathogenesis; patients; pcr; penicillium; pneumocystis; possible; potential; practice; present; primer; pulmonary; range; rates; region; relative; research; resistance; respiratory; results; review; risk; role; rrna; samples; sclerosis; selection; sequences; sequencing; shotgun; significant; sites; skin; society; species; specific; spectrum; spp; studies; study; syndrome; systems; targeted; taxa; taxonomic; therapeutic; tissue; treatment; understanding; use; validation; yeast; yield cache: cord-011053-gza05hsv.txt plain text: cord-011053-gza05hsv.txt item: #111 of 647 id: cord-011073-uiabpbxd author: Gebrekidan, Hagos title: An appraisal of oriental theileriosis and the Theileria orientalis complex, with an emphasis on diagnosis and genetic characterisation date: 2019-12-06 words: 7019 flesch: 32 summary: (2012) Nested PCR for ITS-1-5.8S-ITS-2 region Aktas et al. (2007) Loop-mediated isothermal amplification (LAMP) for p33 and ITS1-5.8S-ITS2 region Wang et al. (2010b) , Liu et al. However, only two studies have reported the use of LAMP for the diagnosis of T. orientalis infection in China (Wang et al. 2010; Liu et al. 2013 ). keywords: 18s; amplification; annulata; assay; associated; australia; babesia; blood; bovines; buffeli; cattle; cause; chain; characterisation; chitose; clinical; comparison; complex; conventional; cpcr; detection; development; diagnostic; different; differentiation; diseases; distinct; dna; et al; gebrekidan; gene; genetic; genotypes; high; hybridisation; ikeda; infected; infection; isothermal; izzo; lamp; limitations; loop; main; major; markers; members; methods; molecular; mpsp; nested; new; npcr; orientalis; orientalis complex; outbreaks; p23; parasites; parva; pathogenic; pcr; perera; piroplasm; polymerase; primers; protein; qpcr; quantitative; rapid; reaction; real; region; rlb; rrna; samples; sensitive; sensitivity; sequence; sergenti; serological; significant; signs; simultaneous; species; spp; surface; technique; test; theileria; theileria orientalis; theileriosis; tick; time; tools; traditional; use; vectors; watts; zealand cache: cord-011073-uiabpbxd.txt plain text: cord-011073-uiabpbxd.txt item: #112 of 647 id: cord-011113-n1yf0o2o author: Chen, Weiye title: A seven-gene-deleted African swine fever virus is safe and effective as a live attenuated vaccine in pigs date: 2020-03-01 words: 5973 flesch: 49 summary: A proteomic atlas of the African swine fever virus particle Approaches and perspectives for development of African swine fever virus vaccines Development of a highly effective African swine fever virus vaccine by deletion of the I177L gene results in sterile immunity against the current epidemic Eurasia strain Deletion of CD2-like gene from the genome of African swine fever virus strain Georgia does not attenuate virulence in swine Studies with HINDE attenuated African swine fever virus African swine fever virus (ASFV) protection mediated by NH/ P68 and NH/P68 recombinant live-attenuated viruses Molecular characterization of African swine fever virus Spatio-temporal analysis of African swine fever in Sardinia Immunization of pigs by DNA prime and recombinant vaccinia virus boost to identify and rank African swine fever virus immunogenic and protective proteins Outbreak of African swine fever in South Korea Development of a TaqMan® PCR assay with internal amplification control for the detection of African swine fever virus The progressive adaptation of a Georgian isolate of African swine fever virus to vero cells leads to a gradual attenuation of virulence in swine corresponding to major modifications of the viral genome Outbreak of African swine fever Hemadsorption and cytopathic effect produced by African swine fever virus in swine bone marrow and buffy coat cultures BA71ΔCD2: a new recombinant live attenuated African swine fever virus with cross-protective capabilities Evaluation of an African swine fever (ASF) vaccine strategy incorporating priming with an alphavirus-expressed antigen followed by boosting with attenuated ASF virus African swine fever virus Georgia isolate harboring deletions of MGF360 and MGF505 genes is attenuated in swine and confers protection against challenge with virulent parental virus African swine fever virus Georgia 2007 with a deletion of virulenceassociated gene 9GL (B119L), when administered at low doses, leads to virus attenuation in swine and induces an effective protection against homologous challenge Simultaneous deletion of the 9GL and UK genes from the African swine fever virus Georgia 2007 isolate offers increased safety and protection against homologous challenge Epidemiology of African swine fever in Poland since the detection of the first case Genetic characterization of African swine fever virus isolates from soft ticks at the wildlife/domestic interface in Mozambique and identification of a novel genotype A simple method of estimating fifty percent endpoints Deletion of African swine fever virus interferon inhibitors from the genome of a virulent isolate reduces virulence in domestic pigs and induces a protective response Deletion of the African swine fever virus gene DP148R does not reduce virus replication in culture but reduces virus virulence in pigs and induces high levels of protection against challenge African swine fever virus biology and vaccine approaches African swine fever (ASF): five years around Europe Development of vaccines against African swine fever virus DNA-protein vaccination strategy does not protect from challenge with African swine fever virus Armenia Architecture of African swine fever virus and implications for viral assembly Genome sequences derived from pig and dried blood pig feed samples provide important insights into the transmission of African swine fever virus in China Replication and virulence in pigs of the first African swine fever virus isolated in China To investigate whether the attenuated viruses could induce protective immunity, the HLJ/18-6GD-, HLJ/18-9GL&UKdel-, and HLJ/18-7GD-inoculated pigs were challenged intramuscularly (i.m.) with 200 PLD 50 of HLJ/18 virus; four 10-week-old SPF pigs were challenged similarly as a control. keywords: 0/6; 6gd; 7gd; african; asfv; attenuated; blood; challenge; china; day; days; del; detection; different; dna; dose; et al; fever; figure; gene; groups; hlj/18; inoculation; lethal; live; lymph; mgf360; mgf505; node; o'donnell; organs; p.i; passage; period; pigs; post; protection; safety; samples; sows; spf; spleen; strain; swine; table; tcid; vaccine; viral; viral dna; virulence; virulent; virus; viruses cache: cord-011113-n1yf0o2o.txt plain text: cord-011113-n1yf0o2o.txt item: #113 of 647 id: cord-011630-lfm34fsw author: Li, Yan title: Epigenetic inheritance of circadian period in clonal cells date: 2020-05-27 words: 5704 flesch: 36 summary: Interestingly, we found that depletion of DNMT1 and DNMT3A had opposite effects on circadian period, suggesting non-redundant roles in circadian gene regulation. key: cord-011630-lfm34fsw authors: Li, Yan; Shan, Yongli; Kilaru, Gokhul Krishna; Berto, Stefano; Wang, Guang-Zhong; Cox, Kimberly H; Yoo, Seung-Hee; Yang, Shuzhang; Konopka, Genevieve; Takahashi, Joseph S title: Epigenetic inheritance of circadian period in clonal cells date: 2020-05-27 journal: nan DOI: 10.7554/elife.54186 sha: doc_id: 11630 cord_uid: lfm34fsw Circadian oscillations are generated via transcriptional-translational negative feedback loops. keywords: -source; additional; analysis; bioluminescence; candidate; cell; cell lines; circadian; circadian period; clock; clonal; clonal cell; complex; consistent; control; core; correlated; data; different; differential; dmrs; dna; dna methylation; dnmt1; dnmt3a; effects; enriched; epigenetic; et al; expressed; expression; figure; functional; gene expression; genes; genome; group; heritable; heterogeneity; heterogeneous; important; jones; knockdown; large; length; lines; mammalian; methylation; modules; mouse; multiple; networks; noise; novel; oscillations; package; passages; pathway; patterns; period; periodicity; profiles; protein; reads; regulated; regulation; results; rhythms; rna; role; rpkm; scale; seq; sequencing; signaling; significant; single; subclones; takahashi; test; transcriptional; underlying; value; variation cache: cord-011630-lfm34fsw.txt plain text: cord-011630-lfm34fsw.txt item: #114 of 647 id: cord-012418-6ralcn8p author: Schwanke, Hella title: Of Keeping and Tipping the Balance: Host Regulation and Viral Modulation of IRF3-Dependent IFNB1 Expression date: 2020-07-07 words: 15774 flesch: 31 summary: Due to repulsion caused by the newly acquired negative charges, IRF3 proteins could also dissociate from the adaptor complex before dimerisation and converge subsequently either (i) in the cytoplasm, (ii) after translocation into the nucleus or (iii) after engagement of coactivators during recruitment to the enhancer. Further, we will inspect the regulatory mechanisms of these steps imposed by the host cell and present the manifold strategies viruses have evolved to intervene with IFNβ transcription downstream of IRF3 activation in order to secure establishment of a productive infection. keywords: activation; active; activity; adaptor; addition; aie; antiviral; antiviral response; assembly; associated; association; auto; basal; beta; beta interferon; binding; cbp; cells; cellular; chromatin; cluster; coactivators; colleagues; complex; conditions; constitutively; contrast; creb; crucial; cytoplasm; dbd; degradation; dependent; different; dimerisation; dimers; distinct; dna; domain; early; elements; enhanceosome; enhancer; essential; evasion; example; expression; factor; family; formation; function; gene; gene expression; high; holocomplex; host; human; iad; ifn; ifn regulatory; ifn response; ifnb1; ifnb1 expression; ifnb1 transcription; ifnβ; immune; immune response; immunity; import; induced; inducible; induction; infected; infection; inhibition; inhibits; initial; innate; interaction; interferon; interferon regulatory; irf3; irf3 activation; irf3 activity; irf7; isoform; kinase; latent; later; levels; like; line; low; macrophages; mechanisms; modification; molecules; motif; murine; negative; non; nuclear; nucleus; order; p300; p50; p65; phosphorylation; potential; production; promoter; protein; recognition; recruitment; region; regulation; regulatory; regulatory factor; related; required; response; rna; role; second; sequence; signalling; similar; sites; specific; state; steps; stimulation; strategies; structural; studies; subunit; system; target; targeting; tbk1; terminal; transcription; transcription factor; translocation; type; ubiquitination; variant; viral; virus; virus infection; viruses; way; yy1 cache: cord-012418-6ralcn8p.txt plain text: cord-012418-6ralcn8p.txt item: #115 of 647 id: cord-012461-v8d91fdo author: Marnissi, Boutheina title: Generation of ssDNA aptamers as diagnostic tool for Newcastle avian virus date: 2020-08-13 words: 6116 flesch: 47 summary: DNA polymerase Aptasensors as the future of antibiotics test kits-a case study of the aptamer application in the chloramphenicol detection New Prostate Cancer Targets for Diagnosis, Imaging, and Therapy: Focus on Prostate-Specific Membrane Antigen Screening of nucleic acid aptamer of lung cancer cells based on cell exponential enrichment ligand system evolution and its application in tumor diagnosis and treatment Rapid and highly sensitive method for influenza A (H1N1) virus detection Exploiting enzyme catalysis in ultra-low ion strength media for impedance biosensing of avian influenza virus using a bare interdigitated electrode A novel method for detection of H9N2 influenza viruses by an aptamer-real time-PCR Advancements in Nucleic Acid Based Therapeutics against Respiratory Viral Infections One round of SELEX for the generation of DNA aptamers directed against KLK6 A combined enrichment and aptamer pulldown assay for Francisella tularensis detection in food and environmental matrices FASTAptamer: A Bioinformatic Toolkit for High-throughput Sequence Analysis of Combinatorial Selections Development of a real-time reverse-transcription PCR for detection of newcastle disease virus RNA in clinical samples Limit of blank, limit of detection and limit of quantitation Investigations on the interface of nucleic acid aptamers and binding targets Increased inhibitory ability of conjugated RNA aptamers against the HCV IRES Evolution of a T7 RNA polymerase variant that transcribes 2'-Omethyl RNA New NTP analogs: the synthesis of 4'-thioUTP and 4'-thioCTP and their utility for SELEX Magnetic Separation-Based Multiple SELEX for Effectively Selecting Aptamers against Saxitoxin, Domoic Acid, and Tetrodotoxin Selection of aptamers by systematic evolution of ligands by exponential enrichment: addressing the polymerase chain reaction issue Emulsion PCR: a high efficient way of PCR amplification of random DNA libraries in aptamer selection Development and validation of a new PCR optimization method by combining experimental design and artificial neural network Optimization and troubleshooting in PCR Quantitative selection of DNA aptamers through microfluidic selection and high-throughput sequencing Selection, Characterization and Interaction Studies of a DNA Aptamer for the Detection of Bifidobacterium bifidum Identification and application of ssDNA aptamers against H(3)(7)Rv in the detection of Mycobacterium tuberculosis A self-assemble aptamer fragment/target complex based high-throughput colorimetric aptasensor using enzyme linked aptamer assay A colorimetric sandwich-type assay for sensitive thrombin detection based on enzymelinked aptamer assay Aptamers as a replacement for antibodies in enzyme-linked immunosorbent assay. The first step was the elution of high affinity aptamers using high concentration of NaCl. keywords: affinity; analysis; antibodies; apt_ndv01; aptamers; assay; avian; background; binding; buffer; combination; concentration; control; detection; diagnostic; different; digoxigenin; disease; dna; elaa; enrichment; farm; fastaptamer; fig; file; high; influenza; lasota; library; live; lloq; lod; mean; method; min; molecules; nacl; ndv; negative; newcastle; pbs; pcr; plate; polymerase; poultry; production; protein; qrt; rapid; results; rna; rounds; samples; sandwich; sandwich elaa; scientific; selection; selex; sequences; sequencing; specificity; ssdna; step; strain; study; table; target; test; thermofisher; throughput; times; vaccine; viral; virus; viruses; wells cache: cord-012461-v8d91fdo.txt plain text: cord-012461-v8d91fdo.txt item: #116 of 647 id: cord-012473-p66of6kq author: Celniker, Susan E. title: Unlocking the secrets of the genome date: 2009-06-17 words: 2559 flesch: 30 summary: Intrinsic signals that define the boundaries of protein-coding genes can only be partly recognized by current algorithms, and signals for other functional elements are even harder to find and interpret. The core of the modENCODE project consists of ten groups who use high-throughput methods to identify functional elements (see Table 1 ). keywords: analysis; biological; biology; cell; chip; chromatin; coding; common; community; complete; complex; data; developmental; different; dna; drosophila; elegans; elements; example; experiments; factors; fly; functional; genes; genetic; genome; genomic; groups; human; information; melanogaster; model; modencode; new; organisms; powerful; project; regulatory; replication; sequencing; specific; studies; transcription; types; understanding; use; worm cache: cord-012473-p66of6kq.txt plain text: cord-012473-p66of6kq.txt item: #117 of 647 id: cord-012654-m8nlsutd author: Song, Zhiquan title: Genome-wide identification of DNA-PKcs-associated RNAs by RIP-Seq date: 2019-07-05 words: 623 flesch: 40 summary: Geometry of a complex formed by double strand break repair proteins at a single DNA end: recruitment of DNA-PKcs induces inward translocation of Ku protein Autophosphorylation of the DNA-dependent protein kinase catalytic subunit is required for rejoining of DNA double-strand breaks Beyond DNA repair: DNA-PK function in cancer Human Ku70/80 interacts directly with hTR, the RNA component of human telomerase The human telomerase RNA component, hTR, activates the DNA-dependent protein kinase to phosphorylate Regulation of RNA alternative splicing is a crucial process in RNA-binding proteins function, and aberrant splicing is often associated with various human diseases including cancers; 8 therefore, to discern how DNA-PKcs modulates bound RNAs, we sought to determine whether DNA-PKcs could affect CD44 alternative splicing. keywords: alternative; analysis; article; cd44; commons; creative; dna; fig; human; license; pkcs; protein; rna; rnas; splicing cache: cord-012654-m8nlsutd.txt plain text: cord-012654-m8nlsutd.txt item: #118 of 647 id: cord-012802-xm2ftrw2 author: Zhao, Wu-li title: The novel quinolizidine derivate IMB-HDC inhibits STAT5a phosphorylation at 694 and 780 and promotes DNA breakage and cell apoptosis via blocking STAT5a nuclear translocation date: 2020-01-13 words: 7551 flesch: 46 summary: These results showed that IMB-HDC possessed a stronger anticancer effect compared with its parent sophoridinol. IMB-HDC induces cell apoptosis via the mitochondria-mediated apoptotic pathway Cell apoptosis was assessed by flow cytometric analysis, and the results showed that IMB-HDC could extensively induce HCT-8 cells apoptosis in a dose-dependent manner, and at lower concentrations of 1 μM and 2 μM, the total apoptotic cells were 10.04% and 40% of the untreated cells, respectively, and at the higher concentration of 4 μM, the ratio was up to 65% (Fig. 2a) , indicating that IMB-HDC plays its anticancer role in apoptosis inducement. To evaluate the effect of IMB-HDC on tumor cells, 5 μM IMB-HDC was added into the human colon carcinoma cell HCT-8, and cell morphology was observed at 3, 7, and keywords: acid; activation; activity; addition; analysis; anticancer; apoptosis; assay; associated; atr; breakage; carcinoma; cells; colony; comet; concentration; control; cytoplasm; damage; data; days; ddr; dependent; derivatives; dna; dna breakage; dose; effect; expression; fig; formation; gene; growth; h2ax; hct-8; hdc; hepg2; human; imb; induced; inhibition; inhibitory; level; location; manner; mechanism; mice; novel; nuclear; nucleus; nude; p53; phosphorylation; previous; proliferation; protein; rad51; repair; response; results; role; s780; sophoridine; staining; stat5a; structure; study; target; time; tissues; transcriptional; translocation; treatment; tumor; ucn-01; usa; volume; western; wlz; y694 cache: cord-012802-xm2ftrw2.txt plain text: cord-012802-xm2ftrw2.txt item: #119 of 647 id: cord-013223-f43hks44 author: Chronopoulos, Antonios title: Emerging role of bacterial extracellular vesicles in cancer date: 2020-10-15 words: 5802 flesch: 20 summary: Tissue Barriers The influence of the gut microbiome on cancer, immunity, and cancer immunotherapy Microbial translocation is a cause of systemic immune activation in chronic HIV infection The microbiome in cancer immunotherapy: diagnostic tools and therapeutic strategies Inter-kingdom signalling: communication between bacteria and their hosts Analyzing bacterial extracellular vesicles in human body fluids by orthogonal biophysical separation and biochemical characterization Global proteomic profiling of native outer membrane vesicles derived from Escherichia coli Environmentally controlled bacterial vesicle-mediated export Through the wall: extracellular vesicles in Gram-positive bacteria, mycobacteria and fungi Bacterial membrane vesicles transport their DNA cargo into host cells Bacteria-human somatic cell lateral gene transfer is enriched in cancer samples Neisserial outer membrane vesicles bind the coinhibitory receptor carcinoembryonic antigen-related cellular adhesion molecule 1 and suppress CD4+ T lymphocyte function Helicobacter pylori and gastrointestinal tract adenocarcinomas Circulating bacterial membrane vesicles cause sepsis in rats Outer membrane vesicles of a human commensal mediate immune regulation and disease protection Extracellular vesicles derived from gut microbiota, especially Akkermansia muciniphila, protect the progression of dextran sulfate sodium-induced colitis The role of pattern-recognition receptors in innate immunity: update on Toll-like receptors Toll-like receptor 4 signaling licenses the cytosolic transport of lipopolysaccharide from bacterial outer membrane vesicles Pseudomonas aeruginosa outer membrane vesicles modulate host immune responses by targeting the Toll-like receptor 4 signaling pathway Differential responses of pattern recognition receptors to outer membrane vesicles of three periodontal pathogens Mycobacteria release active A. Chronopoulos, R. Kalluri membrane vesicles that modulate immune responses in a TLR2-dependent manner in mice Bacterial membrane vesicles mediate the release of mycobacterium tuberculosis lipoglycans and lipoproteins from infected macrophages Membrane vesicles from Pseudomonas aeruginosa activate the noncanonical inflammasome through caspase-5 in human monocytes Outer membrane vesicles from probiotic and commensal Escherichia coli activate NOD1-mediated immune responses in intestinal epithelial cells Bacterial membrane vesicles deliver peptidoglycan to NOD1 in epithelial cells Aggregatibacter actinomycetemcomitans outer membrane vesicles are internalized in human host cells and trigger NOD1-and NOD2-dependent NF-kappaB activation Outer membrane vesicles prime and activate macrophage inflammasomes and cytokine secretion in vitro and in vivo Gene-microbiota interactions contribute to the pathogenesis of inflammatory bowel disease DNA sensing by the cGAS-STING pathway in health and disease B cell activation by outer membrane vesicles-a novel virulence mechanism Toll-like receptor signalling Increased levels of systemic LPS-positive bacterial extracellular vesicles in patients with intestinal barrier dysfunction The uptake, trafficking, and biodistribution of bacteroides thetaiotaomicron generated outer membrane vesicles Fantastic voyage: the journey of intestinal microbiota-derived microvesicles through the body Metagenome analysis of bodily microbiota in a mouse model of alzheimer disease using bacteria-derived membrane vesicles in blood The healthy human blood microbiome: fact or fiction? Integration of bacterial DNA sequences has been in fact detected more frequently in human cancer cells versus normal cells, especially in gastrointestinal (GI)-related tumors with close proximity to the gut microbiome, suggesting a potential role of bacterial DNA in carcinogenesis [31] . keywords: access; acids; activation; antigens; bacteria; bacterium; barrier; bevs; biogenesis; blood; body; brain; cancer; cargo; cells; circulation; commensal; communication; components; composition; controls; cross; cytoplasmic; dendritic; dependent; different; direct; disease; distant; dna; endocytosis; envelope; epithelial; evidence; exosomes; extracellular; factors; formation; function; genetic; genome; gram; group; gut; healthy; host; human; immune; immunity; immunotherapy; inflammatory; inter; intestinal; kingdom; like; likely; lps; luminal; mechanism; membrane; membrane vesicles; microbial; microbiome; negative; nucleic; number; omvs; organs; outer; outer membrane; pancreatic; pathogenic; patients; peptidoglycan; plasma; positive; possibility; potential; presence; proteins; receptors; responses; rna; role; route; sensing; sequencing; species; specific; study; surface; systemic; tissue; toll; tract; tumor; underlying; universal; vesicles; virulence; wall cache: cord-013223-f43hks44.txt plain text: cord-013223-f43hks44.txt item: #120 of 647 id: cord-013290-j3assowx author: Guibinga, Ghiabe H. title: Protection against Borreliella burgdorferi infection mediated by a synthetically engineered DNA vaccine date: 2020-08-12 words: 5089 flesch: 43 summary: Ebola GP DNA vaccine is temperature stable and safely demonstrates cellular and humoral immunogenicity advantages in healthy volunteers Safety and immunogenicity of an Anti-Zika virus DNA vaccine -preliminary report Safety and immunogenicity of an anti-Middle East respiratory syndrome coronavirus DNA vaccine: a phase 1, open-label, single-arm, dose-escalation trial Augmentation of cellular and humoral immune responses to HPV16 and HPV18 E6 and E7 antigens by VGX-3100 Safety, efficacy, and immunogenicity of VGX-3100, a therapeutic synthetic DNA vaccine targeting human papillomavirus 16 and 18 E6 and E7 proteins for cervical intraepithelial neoplasia 2/3: a randomised, double-blind, placebo-controlled phase 2b trial Identification of a Borrelia burgdorferi OspA T cell epitope that promotes anti-OspA IgG in mice Anti-OspA DNA-encoded monoclonal antibody prevents transmission of spirochetes in tick challenge providing sterilizing immunity in mice Pre-exposure prophylaxis with OspA-specific human monoclonal antibodies protects mice against tick transmission of lyme disease spirochetes Increased immune response elicited by DNA vaccination with a synthetic gp120 sequence with optimized codon usage Multiple effects of codon usage optimization on expression and immunogenicity of DNA candidate vaccines encoding the human immunodeficiency virus type 1 Gag protein CD14 signaling restrains chronic inflammation through induction of p38-MAPK/SOCS-dependent tolerance Signaling through CD14 attenuates the inflammatory response to Borrelia burgdorferi, the agent of lyme disease Borrelia burgdorferi changes its surface antigenic expression in response to host immune responses Rapid and sensitive quantification of Borrelia burgdorferi-infected mouse tissues by continuous fluorescent monitoring of PCR An effective second-generation outer surface protein A-derived Lyme vaccine that eliminates a potentially autoreactive T cell epitope DNA vaccination and gene therapy: optimization and delivery for cancer therapy Lyme borreliosis in laboratory mice Gene expression profiling provides insights into the pathways involved in inflammatory arthritis development: murine model of Lyme disease Characterization of guinea pig T cell responses elicited after EP-assisted delivery of DNA vaccines to the skin Development of an intradermal DNA vaccine delivery strategy to achieve single-dose immunity against respiratory syncytial virus Reactivity with a specific epitope of outer surface protein A predicts protection from infection with the Lyme disease spirochete, Borrelia burgdorferi Protective immunization with plasmid DNA containing the outer surface lipoprotein A gene of Borrelia burgdorferi is independent of an eukaryotic promoter An OspA-based DNA vaccine protects mice against infection with Borrelia burgdorferi DNA vaccines expressing a fusion product of outer surface proteins A and C from Borrelia burgdorferi induce protective antibodies suitable for prophylaxis but Not for resolution of Lyme disease Electroporation delivery of DNA vaccines: prospects for success CpG DNA as a vaccine adjuvant CpG oligonucleotides as adjuvants for vaccines targeting infectious diseases CD4+ T cells promote antibody production but not sustained affinity maturation during Borrelia burgdorferi infection Diversity of the lyme disease spirochetes and its influence on immune responses to infection and vaccination Identification of Borrelia burgdorferi ospC genotypes in canine tissue following tick infestation: implications for Lyme disease vaccine and diagnostic assay design Incomplete protection of hamsters vaccinated with unlipidated OspA from Borrelia burgdorferi infection is associated with low levels of antibody to an epitope defined by mAb LA-2 Monoclonal antibodies specific for the outer surface protein A (OspA) of Borrelia burgdorferi prevent Lyme borreliosis in severe combined immunodeficiency (scid) mice OspA DNA vaccine, pLD1 in combination with CELLECTRA® in vivo delivery technology. keywords: animals; antibodies; antibody; antigen; arthritis; assay; bacterial; borrelia; borreliella; burgdorferi; cases; cell; cellectra; cellular; challenge; consensus; control; crlyme; data; delivery; disease; dna; dose; durable; efficacy; epitope; expression; figure; guinea; hen; human; humoral; immune; immunity; immunization; immunized; immunogenicity; infection; intradermal; la-2; lyme; lyme disease; mab; mice; min; model; mouse; number; ospa; ospc; outer; pigs; plates; pld1; protection; protein; recombinant; responses; robust; sequence; serum; spirochetes; studies; study; surface; synthetic; temperature; tick; tissues; titers; vaccination; vaccine; weeks cache: cord-013290-j3assowx.txt plain text: cord-013290-j3assowx.txt item: #121 of 647 id: cord-013412-gj443yei author: Lebedeva, Natalya Sh. title: The Application of Porphyrins and Their Analogues for Inactivation of Viruses date: 2020-09-23 words: 13472 flesch: 42 summary: There are several different types of photosensitized oxidation which may be important in biological systems Photodynamic efficiency: From molecular photochemistry to cell death Singlet oxygen-mediated damage to proteins and its consequences Effect of irradiation spectral range on porphyrin-Protein complexes Sewage bacteriophage inactivation by cationic porphyrins: Influence of light parameters Photodynamic inactivation of bacteriophage MS2: The A-protein is the target of virus inactivation TMPyP functionalised chitosan membrane for efficient sunlight driven water disinfection Oxidation of virus proteins during UV254 and singlet oxygen mediated inactivation Photodynamic inactivation of mammalian viruses and bacteriophages Photo-oxidation of proteins and its role in cataractogenesis Oxidative modification of cytochrome c by singlet oxygen. The most serious human diseases caused by RNA viruses are Ebola hemorrhagic fever, SARS, COVID-19, rabies, influenza, hepatitis C and E, West Nile fever, poliomyelitis, measles, etc. keywords: acid; activity; affinity; analogues; antiviral; approach; attachment; authors; bases; binding; blood; capsid; carborane; case; cationic; cationic porphyrins; cd4; cell; changes; chemical; cleavage; complex; complexes; compounds; concentration; damage; different; dna; duplex; effect; electron; energy; enveloped; ester; example; external; figure; formation; free; fusion; genetic; genome; glycoprotein; gp120; gp120 protein; gp41; group; guanine; high; hiv; hiv-1; host; host cell; human; important; inactivation; infections; influenza; inhibition; interaction; intercalation; introduction; large; linking; lipid; main; material; mechanism; membrane; meso; metal; methods; new; number; oxidation; oxygen; p&a; p&as; peripheral; photochemical; photodynamic; photoinactivation; photoinduced; photosensitizer; porphyrins; possible; potential; process; promising; protease; protein; protoporphyrin; quadruplexes; reaction; receptor; region; replication; results; reverse; rna; rna viruses; selectivity; similar; singlet; small; soret; stage; structure; studies; substituents; sulfonated; surface; target; targeting; tmpyp4; transfer; type; viral; viral rna; virion; virucidal; virus; viruses cache: cord-013412-gj443yei.txt plain text: cord-013412-gj443yei.txt item: #122 of 647 id: cord-013415-110b95cg author: Aquino-Martinez, Ruben title: Periodontal Disease and Senescent Cells: New Players for an Old Oral Health Problem? date: 2020-10-09 words: 10338 flesch: 23 summary: For this reason, many researchers have used various genotoxic agents to accelerate cell senescence. key: cord-013415-110b95cg authors: Aquino-Martinez, Ruben; Khosla, Sundeep; Farr, Joshua N.; Monroe, David G. title: Periodontal Disease and Senescent Cells: New Players for an Old Oral Health Problem? date: 2020-10-09 journal: Int J Mol Sci DOI: 10.3390/ijms21207441 sha: doc_id: 13415 cord_uid: 110b95cg The recent identification of senescent cells in periodontal tissues has the potential to provide new insights into the underlying mechanisms of periodontal disease etiology. keywords: accumulation; actinomycetemcomitans; activation; activity; addition; aging; apoptosis; apoptotic; arrest; associated; bacterial; cancer; capacity; cause; cdt; cells; cellular; cellular senescence; chronic; concentrations; context; cytokines; damage; defense; dependent; destruction; development; different; disease; dna; dna damage; dysfunctional; effect; elimination; environment; epithelial; essential; evidence; exposure; expression; factors; fibroblasts; genomic; genotoxic; gingival; gram; growth; healthy; host; human; il6; immune; impact; important; infection; inflammation; inflammatory; inhibition; key; length; like; local; lps; mechanism; mice; mitotic; negative; nuclear; oxidative; oxidative stress; p53; pathogenesis; pathogenic; pathways; periodontal; periodontitis; persistent; phenotype; potential; premature; process; progression; proliferation; reaction; regeneration; renewal; replicative; response; result; role; ros; sasp; senescence; senescent cells; shortening; signaling; signals; source; stem; stress; studies; system; telomere; tissue; unrelated cache: cord-013415-110b95cg.txt plain text: cord-013415-110b95cg.txt item: #123 of 647 id: cord-013614-j6h338qa author: Liu, Xiaojing title: ERCC6L2 promotes DNA orientation-specific recombination in mammalian cells date: 2020-04-30 words: 8241 flesch: 50 summary: Gene knockout cells were cultured with DNA damage chemicals at IC 20 for 12 days (from Day 0 to Day 12) before harvested for genomic DNA purification. Interestingly, ERCC6L2 deficient cells were depleted upon Zeocin treatment which induces DSBs (Fig. 1d ), but not in the presence of Cisplatin or Veliparib treatment which creates ICLs and SSBs, respectively (Fig. 1e ). keywords: 53bp1; activity; aid; analysis; antibody; assay; atm; b cells; bmf; bone; breaks; cas9; catalytic; cells; ch12f3; chemical; chromatin; class; consistent; controls; core; crispr; csr; d270n; damage; data; day; deficiency; deletion; different; directional; dna; domains; double; dsb; dsbs; effects; end; ends; ercc6l2; factors; failure; fig; fisher; focused; function; genes; genome; gfp; helicase; iga; indicated; induced; information; inhibitors; isogenic; joining; junctions; knockout; lesions; levels; lig4; line; liu; mageck; manner; marrow; mice; model; mouse; mri; new; nhej; non; optimal; orientation; patients; paxx; programmed; protein; ratio; recombination; regions; repair; resection; response; results; rna; role; scientific; screening; sensitivity; seq; sequences; sgrnas; similar; specific; strand; supplementary; supplementary information; switch; table; terminal; test; thermo; transcription; transfection; treatment; v(d)j; wide; xlf; xrcc4; −/− cache: cord-013614-j6h338qa.txt plain text: cord-013614-j6h338qa.txt item: #124 of 647 id: cord-013837-x95r6bz8 author: Chai, Qiyao title: New insights into the evasion of host innate immunity by Mycobacterium tuberculosis date: 2020-07-29 words: 11232 flesch: 20 summary: To prevent the successful establishment of Mtb infection in the lungs, host immune cells, and various nonclassical immune cells in the airway are equipped with a set of cell-surface and intracellular PRRs to recognize the invading mycobacteria, such as Toll-like receptors, C-type lectin receptors, Nod-like receptors (NLRs), complement receptors, and scavenger receptors (SRs). Upon infection, host cells detect Mtb through a set of innate immune receptors and launch a range of cellular innate immune events. keywords: acid; activation; addition; aim2; anti; antiviral; apoptosis; autophagy; bacterial; bcg; binding; cell; certain; cgas; clearance; components; control; cytokines; cytosolic; damage; death; defense; dependent; different; direct; dna; early; effectors; essential; esx-1; eukaryotic; evasion; evidence; example; expression; factors; findings; flux; functions; growth; histone; host; host cell; host cytosolic; host immune; host innate; human; ifn; immune; immune responses; immunity; infected; infection; inflammasome; inflammatory; inhibition; inhibits; innate; innate immune; insights; interactions; intracellular; intrinsic; irf3; key; kinase; ligase; like; likely; lipid; lung; machinery; macrophages; maturation; mda5; mechanisms; membrane; methylation; mice; molecular; monocytes; mtb; mtb immunity; mtb infection; multiple; mycobacterium; mycobacterium tuberculosis; necroptosis; necrosis; new; nlrp3; nuclear; nucleus; pathogen; pathogenesis; pathway; phagocytosis; phagosomes; pkr; plasma; potential; production; protective; protein; ptpa; range; recent; receptors; recognition; regulation; regulatory; replication; resistance; responses; restriction; rig; rna; role; secretion; selective; sensors; signaling; sting; strains; strategies; studies; study; surveillance; survival; system; targeting; targets; tnf; trafficking; tuberculosis; tuberculosis infection; type; ubiquitin; ubiquitination; understanding; virulent; vivo; wide; xenophagy cache: cord-013837-x95r6bz8.txt plain text: cord-013837-x95r6bz8.txt item: #125 of 647 id: cord-014368-4nasrbs6 author: None title: Gene Chip for Viral Discovery date: 2003-11-17 words: 10009 flesch: 47 summary: This finding has important practical implications for spinal-cord patients-if different cells can perform the same functions, then surgeons have far more flexibility in how and where they can introduce electrodes or other functional enhancements into the brain. Presenting results from a series of long-term studies in monkeys, they demonstrate that the same set of brain cells can control two distinct movements, the reaching and grasping of a robotic arm. keywords: access; antigen; apoptosis; authors; better; biological; biology; brain; cancer; case; cell; cellular; challenge; changes; checkpoint; chip; clamp; colleagues; complexes; components; connections; conserved; control; damage; data; dendrites; development; different; distinct; dna; downstream; drosophila; drug; elements; experiments; expression; factor; falciparum; field; function; gain; genes; genetic; genome; genomics; groups; growth; hirschman; human; immune; important; information; kind; known; like; limb; literature; malaria; map; mechanisms; medline; mining; model; molecular; motor; mueller; multiple; muscles; neurons; new; novel; number; organism; organization; papers; pathways; pho4; phosphate; position; problem; process; products; program; proteins; question; rag; receptor; regions; relevant; repair; replication; researchers; response; results; rhr; role; rsr; scientists; searches; searching; sequence; set; signaling; signals; similar; single; sites; slik; small; software; specific; structure; studies; survival; system; tcr; text; textpresso; time; tools; type; use; viral; web; worms; years; yeast cache: cord-014368-4nasrbs6.txt plain text: cord-014368-4nasrbs6.txt item: #126 of 647 id: cord-014397-7b88ycv8 author: Gavora, JS title: Resistance of livestock to viruses: mechanisms and strategies for genetic engineering date: 1996-12-15 words: 11586 flesch: 35 summary: The transgenic birds that expressed only the viral envelope coding region of the recombinant genome were shown to be resistant to the corresponding subgroup of the avian leukosis virus (Salter and Crittenden, 1989; Gavora et al, 1995a) , due to a blockage of virus receptors by the viral envelope proteins. and 1 Erythrocyte P antigen: cellular receptor for B 19 parvovirus Resistance to parvovirus B19 infection due to lack of virus receptor (erythrocyte P antigen) keywords: ability; animals; antigen; antisense; approach; attachment; available; avian; binding; biological; birds; bovine; breeding; capsid; cause; cells; cellular; chickens; consequence; control; conventional; cost; crittenden; culture; cycle; design; development; different; disease; disease resistance; dna; dominant; effects; embryonic; encoding; endogenous; engineering; entry; envelope; et al; evolution; example; expression; factor; function; gavora; gene; general; genetic; genome; herpes; high; histocompatibility; host; host cells; host resistance; human; immune; important; improvement; infected; infection; influenza; inhibition; instances; introduction; leukemia; leukosis; life; likely; lines; livestock; major; marek; mechanisms; mhc; mice; molecules; mosaic; mrna; multiple; natural; new; new resistance; non; observed; pathogen; penetration; physiological; plants; poliovirus; possible; potential; presence; process; production; protein; proviruses; range; receptor; recombination; replication; research; resistance; resistance mechanisms; response; results; retroviral; retroviruses; review; rna; rule; selection; self; sequences; similar; simplex; situation; species; specific; strategies; subgroup; surface; susceptibility; synthesis; system; techniques; tobacco; transcription; transfer; transgene; type; variation; viral; viral genes; viral genome; viral infection; virion; virus; viruses cache: cord-014397-7b88ycv8.txt plain text: cord-014397-7b88ycv8.txt item: #127 of 647 id: cord-014462-11ggaqf1 author: None title: Abstracts of the Papers Presented in the XIX National Conference of Indian Virological Society, “Recent Trends in Viral Disease Problems and Management”, on 18–20 March, 2010, at S.V. University, Tirupati, Andhra Pradesh date: 2011-04-21 words: 35463 flesch: 47 summary: The following virus isolates have been used in the analysis: GTPV-Uttarkashi, P60, vaccine virus; GTPV Mukteswar, P10, Challenge virus; GTPV (Akola), GTPV Bareilly/00, GTPV Ladakh/01 and GTPV Sambalpur/82, field isolates and SPPV Srinagar, P40; SPPV Ranipet, P50; SPPV-RF, P50, vaccine viruses and SPPV Makdhoom/07, SPPV CIRG/08, SPPV Pune/08, SPPV Bareilly, SPPV 183/03 and SPPV 125/02, field isolates. Present paper discusses about virus disease of quarantine importance affecting ornamental and fruit plants such as Chrysanthimum, Dahlia, Dianthus, Rosabengalensis, Cattleya, Cymbidium, Dendrobium, Lilium, Citrus, Vitis etc. keywords: acid; activity; acute; addition; affected; amino; amplification; analysis; andhra; animals; antibodies; antibody; antigen; antigenic; approach; appropriate; aquaculture; areas; asia; assay; association; availability; available; begomovirus; bengal; bitter; blood; blot; bovine; breeding; brinjal; btv; buffaloes; capture; car; cases; cassava; cause; cells; cellular; chain; challenge; characterization; chikungunya; chikungunya virus; chikv; children; chilli; citrus; clinical; cloned; cloning; cmv; coat; coli; commercial; common; complete; conditions; contagious; control; conventional; core; cost; cotton; countries; country; cowpea; crop; ctv; cultivars; culture; curl; curl disease; curl virus; current; data; days; dcm; decades; delhi; delhi virus; dengue; dengue virus; department; detection; developed; development; diagnosis; different; disease; distinct; distribution; district; dna; dna vaccine; dose; drug; dsmv; earlier; early; economic; effective; efficiency; elisa; enteric; enzyme; essential; etc; experimental; expression; family; farmers; fever; field; findings; fluid; fmdv; food; foot; form; free; fruit; ganjv; gbnv; genbank; gene; general; generation; genetic; genome; genomic; genotype; genus; geographical; global; goats; groundnut; group; growth; gtpv; h1n1; hbsag; hcv; healthy; hepatitis; high; higher; highest; hiv; homology; hospital; host; hsv; human; humoral; identification; identity; igm; il-18; il-6; immune; immunity; immunization; important; incidence; india; induced; industry; infected; infection; information; inoculation; insect; isolates; isolation; jatropha; kit; laboratory; large; leaf; leaf curl; leaf samples; leaf virus; leaves; length; lesions; levels; like; limitations; limited; lineage; long; losses; lymphocytes; major; management; marker; material; maximum; measures; methods; mice; mmr; molecular; morbidity; mortality; mosaic; mosaic disease; mosaic virus; movement; multiple; nadu; natural; nature; necrosis; need; negative; new; non; ns1; nss; nucleic; nucleotide; number; order; orf; outbreaks; overall; page; palampur; papaya; paper; partial; particular; pathogens; patients; pcr; people; period; phase; phylogenetic; plant; planting; plasmid; polymerase; poor; population; positive; positivity; possible; post; potency; potential; potyvirus; pox; pradesh; presence; present; present study; prevalence; primers; probe; produce; production; products; progress; protein; protein gene; prsv; public; pune; purified; quality; quantification; quarantine; rabies; rapid; reaction; real; recent; recombinant; recombination; region; regulatory; related; relationship; replication; reported; research; resistance; response; responsible; results; rice; risk; rna; role; rotavirus; rtbv; rtsv; safety; samples; sap; scientific; screening; scylv; second; seed; selection; self; sensitive; sensitivity; sequence; sequence analysis; sequencing; sera; serological; serotypes; serum; severe; sheep; shrimp; significant; silencing; silkworm; single; size; small; south; species; specific; specific primers; specificity; specimens; sppv; spread; standard; states; sti; strains; strategies; strategy; structural; studies; study; sub; sugarcane; sunflower; symptoms; system; tamil; tcid; technology; temperature; tested; tests; time; tissue; tomato; tomato leaf; tool; total; traditional; transformation; transgenic; transmission; trials; tsv; tungro; typical; umbel; vaccinated; vaccination; vaccine; value; variability; variation; varieties; vector; vegetable; vein; vigs; viral; viral disease; virulent; virus; virus infection; virus resistance; virus specific; viruses; viz; vp1; vp2; water; weight; west; wide; world; yak; years; yellow cache: cord-014462-11ggaqf1.txt plain text: cord-014462-11ggaqf1.txt item: #128 of 647 id: cord-014597-66vd2mdu author: None title: Abstracts from the 25th European Society for Animal Cell Technology Meeting: Cell Technologies for Innovative Therapies: Lausanne, Switzerland. 14-17 May 2017 date: 2018-03-15 words: 50744 flesch: 43 summary: [3] ) -Error frequency does not invalidate use of direct observation methods for cell cloning -Single cell seen by both scientists is highly likely to be monoclonal -During method development, strategies established to control potential sources of error ( Table 1 ) Use of a contemporaneous visualisation approach, a strict control strategy, and a suitable statistical model (which takes into account potential errors) results in: -The CACC method being at least as robust as the LDC method -The CACC method being a reliable, single-step method for cloning to achieve a high P(monoclonality) The main feature of our CI-SCREEN technology is the ability to combine the advantage of cell linesthe unlimited cell supplywith the advantage of primary cellsthe physiological relevance. keywords: -hq; aav; acid; activity; addition; advanced; affinity; aggregation; alkali; alternative; ambr; ambr15; amino; amounts; analysis; analytical; animal; antibodies; antibody; antibody production; antigen; application; applied; approach; assay; assessment; associated; attributes; authors; automation; available; background; baicalein; basal; batch; batch culture; batch process; batches; beneficial; best; better; binding; biologics; biopharmaceuticals; bioprocess; bioreactor; blot; breast; buffer; cancer; candidate; capacity; capture; cas9; case; cell; cell boost; cell clones; cell cloning; cell concentration; cell culture; cell densities; cell density; cell engineering; cell growth; cell line; cell lysates; cell metabolism; cell pools; cell productivity; cell retention; cell specific; cell viability; cellular; chain; challenge; changes; characteristics; characterization; chinese; cho; cho cell; chromatography; chromosome; clarification; clinical; clones; cloning; collected; column; combination; comparable; comparison; complete; complex; components; comprehensive; concentration; conditions; constant; consumption; content; continuous; control; conventional; copies; copy; core; corresponding; cost; cr19; critical; cspr; cultivation; culture conditions; culture medium; culture process; cultures; current; data; day; days; degradation; degree; demand; dependent; depth; design; determined; developed; development; dg44; differences; different; different cell; differentiation; difficult; distribution; dll1; dna; doe; downstream; drug; e.g.; early; easy; effect; effective; efficacy; efficient; elements; elisa; encoding; end; energy; engineering; erbitux; established; estimation; evaluated; evaluation; example; exchange; exclusion; experiments; expression; extracellular; fab; factor; fed; feed; feeding; fig; filter; filtration; final; flasks; flow; focus; fold; following; formulation; fraction; free; function; future; gene; gene expression; genedata; generation; genetic; genome; genomic; germany; gfp; glucose; glycan; glycoproteins; glycosylation; goi; hamster; harvest; heavy; hek-293; hek293; hek293 cell; high; high cell; higher; highest; host cell; hours; hplc; hts; human; huob; icellis; identification; ifnα2b; igf; igg; igg1; igg3; igm; imaging; impact; important; improved; increase; incubation; industrial; industry; influence; information; initial; intact; integrated; integration; interest; investigated; investigation; k1 cells; key; lactate; large; lead; lectin; levels; light; like; limited; limiting; line development; lines; lipids; liquid; low; lower; mab; mab production; mabs; magnetic; main; major; making; mammalian cell; manufacturing; marker; mass; materials; matriptase; maximum; maximum cell; measurement; media; medium; membrane; metabolic; method; microvesicles; model; modifications; modified; molecular; molecules; monitoring; monoclonal; monoclonality; mrna; mtx; mva; nano; need; new; non; novel; number; nutrient; omv; online; operations; optimal; optimization; order; ovary; overall; panel; parallel; parameters; particles; pathways; pcr; peak; peipro; performance; perfusion; pharmaceutical; phase; physiological; plasmid; platform; point; polar; pools; positive; possible; post; potential; preparation; presence; present; primary; probability; process; process development; process performance; processes; processing; producer; producer cell; product quality; production; production cell; production process; productivities; productivity; products; profiles; promising; promoter; properties; protease; protein; protein expression; protein production; proteolytic; prototype; purification; purified; quality; quantification; raav; rabies; range; rate; rcho; reaction; real; recombinant; recombinant cho; recombinant protein; reduced; reference; related; relevant; reliable; research; response; results; retention; robust; role; run; runs; samples; sartorius; sc20; sc39; scale; scfv; scientific; screening; second; secretion; seed; selection; semi; separated; sequence; serum; set; sfm; shake; shows; sialylation; signaling; significant; similar; simple; single; single cell; sirna; site; size; small; solution; specific; specific productivity; spectrometry; spheroids; spiked; stability; stable; standard; stars; state; statistical; step; strategies; strategy; stress; structure; studies; study; sub; successful; suitable; supernatant; supplements; support; suspension; suspension cell; synthesis; system; t cells; t98hr; target; targeted; targeting; technologies; technology; temperature; terms; tested; therapeutic; therapy; throughput; time; titer; tool; total; traditional; transfection; transfer; transgene; transient; trastuzumab; treatment; tunicamycin; type; tzmb; upstream; uptake; use; vaccine; values; variants; vcd; vector; viability; viable cell; viral; virus; viruses; vitro; vivo; volume; way; weeks; western; work; workflow; working; yield cache: cord-014597-66vd2mdu.txt plain text: cord-014597-66vd2mdu.txt item: #129 of 647 id: cord-014661-mrh2pbi6 author: Dumitrascu, Georgiana R. title: Critical physiological and pathological functions of Forkhead Box O tumor suppressors date: 2013-12-31 words: 9254 flesch: 30 summary: The advances in understating the mechanism of FOXOs regulation of stem cells, cancer stem cells and how non-coding RNAs are regulated and regulate the function of FOXO genes/protein are presented. Similarities between stem cells and cancer stem cells were best described in the hematopoietic system, where similar surface markes and signal transduction patterns were described between the hematopoietic stem cells and leukemia-initiating cells 121 . keywords: abl; activation; activity; aging; akt; angiogenesis; apoptosis; apoptotic; arrest; bcr; beta; body; box; breast; cancer; cancer cells; cardiac; cell; cell cycle; cellular; conserved; critical; cycle; cyclin; damage; dbd; death; dependent; development; diabetes; differentiation; diseases; dna; domain; effects; endothelial; example; expression; factors; family; fas; forkhead; forkhead transcription; formation; foxo; foxo family; foxo proteins; foxo transcription; foxo3a; functions; genes; glucose; helix; hematopoietic; high; human; important; induced; induction; inflammation; inflammatory; inhibition; insulin; known; leukemia; levels; lines; liver; loss; maintenance; members; metabolism; mice; micrornas; mir-182; mirnas; mouse; muscle; new; number; order; oxidative; pathway; physiological; pi3k; processes; progression; proliferation; proteins; regulation; regulators; related; repair; resistance; response; results; role; ros; self; sequence; signaling; specific; stem; stem cells; stress; structure; studies; study; subsequent; suppressors; survival; system; target; terminal; tissues; trail; transcription; transcription factors; tumor; variety; vascular; wide cache: cord-014661-mrh2pbi6.txt plain text: cord-014661-mrh2pbi6.txt item: #130 of 647 id: cord-014674-ey29970v author: None title: Dreizehnter Bericht nach Inkrafttreten des Gentechnikgesetzes (GenTG) für den Zeitraum vom 1.1.2002 bis 31.12.2002 : Die Arbeit der Zentralen Kommission für die Biologische Sicherheit (ZKBS) im Jahr 2002 date: 2003 words: 2525 flesch: 47 summary: and therefore is not expected to allow specific amplification of p-35S sequences.] In the sequences of the amplification products AF434754, -55, -56, -57 in which the iPCR primer sequences can be identified the nucleotide sequences ahead of the primers are not from p-35S.The expected p-35S sequence is only partially present ahead of iCVM1 in AF434758. keywords: adh1; af434754; af434761; amplification; auf; aus; authors; bereich; bis; blast; bt11; case; chapela; cmv; construct; criollo; das; data; dem; den; der; des; die; dna; ecorv; expected; fact; fig; für; gene; genome; gentechnik; gentechnikgesetzes; gentg; ipcr; landraces; maize; nach; nucleotide; oaxaca; p-35s; p-35s sequences; present; primers; products; promoter; quist; region; samples; sequences; sites; transgenic; und; vom; zkbs; zur cache: cord-014674-ey29970v.txt plain text: cord-014674-ey29970v.txt item: #131 of 647 id: cord-014685-ihh30q6f author: None title: Posters P788 - P999 date: 2005-09-21 words: 38408 flesch: 42 summary: 12 physical property parameters of protein structure were chosen to construct a 12-dimension physical property space. These systems have proven to be also valuable as membrane mimetic structures, as promising matrices for controlled-release and delivery of proteins, vitamins and small drugs in pharmacological applications, and they offer a 3D lipid matrix for successful crystallization of membrane proteins which do not easily crystallize in bulk solution. keywords: -atpase; -crystallins; absence; absorption; accumulation; acid; acidic; activation; active; activity; addition; afm; agents; aggregates; aggregation; aim; alpha; amino; amphiphilic; amyloid; analogues; analysis; anionic; annealing; antibiotics; apparatus; applications; approach; aqueous; assembly; associated; association; atp; backbone; bacterial; band; base; beta; better; bilayer; binding; biochemistry; biological; biology; biophysics; blood; bovine; brils; buffer; calcium; cancer; capacity; cars; case; catalytic; cation; cells; cellular; certain; chain; changes; channels; characteristics; characterization; characterized; charge; chemical; chemistry; chemotherapy; chitosan; chlorophyll; cholesterol; ciency; cient; circular; cnrs; coil; coli; collagen; combined; common; complete; complex; complexes; components; composition; compounds; concentration; conditions; confocal; conformational; conserved; consistent; consists; content; contrast; control; conventional; conversion; copolymers; copper; correlated; correlation; cort; cross; crucial; crystal; crystal structure; ctac; cycle; damage; data; decrease; degree; delivery; denaturation; density; department; dependent; derivatives; design; details; development; dichroism; different; diffusion; dimensional; dimeric; dimerization; direct; diseases; distinct; distribution; dna; docking; domain; drug; duplex; dynamics; effect; eld; electric; electron; electrostatic; emission; encapsulation; energy; ensemble; enzyme; equilibrium; essential; evolution; exchange; excited; exhibit; exibility; exible; existence; experiments; exposure; expression; extended; external; factor; faculty; family; far; fast; faster; fhua; folding; force; forms; fragments; france; free; function; genes; germany; global; gradient; group; growth; hairpin; half; hand; heat; helical; helices; helix; high; higher; human; hydration; hydrogen; hydrophobic; hyp; identi; imaging; important; increase; individual; induced; information; inhibited; inhibition; inhibitors; insights; institute; intensity; interaction; interface; intermediate; investigation; involved; italy; japan; key; kinesin; kinetics; kissing; known; laboratory; lah4; landscape; large; laser; lead; leak; level; lhcii; life; ligand; light; like; linear; lipid; liposomes; lms; local; long; loop; loss; low; lower; luciferase; magnetic; major; maturation; mct1; mdr; means; measurements; mechanism; medical; membrane; membrane protein; metal; method; microscopy; model; modeling; modi; molecular; molecules; monomeric; motif; motor; movement; mpg; mrna; multidrug; muscle; mutant; mutation; nano; national; native; natural; nbce1; near; network; new; nity; nmr; non; nonionic; novel; nuclear; nucleic; nucleotide; number; observed; oligomerization; optical; optimization; order; organization; outer; overall; oxford; oxygen; parameters; particles; particular; pathway; peptide; permeation; phase; photosynthetic; photosystem; physical; physiological; pigment; plasma; plasmid; polymerized; polypeptide; pore; possible; post; potential; prediction; presence; present; pressure; primary; process; processes; promoter; properties; property; protease; protein; protein folding; protein structure; proteoliposomes; proton; prp; psii; pumps; puri; radiation; random; range; rapid; rate; ray; reaction; receptor; recombinant; refolding; region; related; release; remains; replication; research; residues; resistance; response; responsible; results; retinal; rna; rnas; role; rrf; rst; samples; saxs; scattering; school; sciences; screening; secondary; secondary structure; selection; self; sensitive; sequence; series; set; sheet; shift; short; signals; signi; silk; similar; simulations; single; site; size; small; sodium; solid; solution; solvation; solvent; space; speci; speci c; species; spectra; spectroscopy; stability; stabilization; stable; stacking; state; step; stochastic; strain; stress; strong; structure; studies; study; substrates; subunits; suitable; support; supramolecular; surface; synchrotron; system; target; techniques; technology; temperature; terminal; tertiary; tested; theoretical; theory; therapeutic; therapy; thermal; thermodynamic; thylakoid; time; tissue; tnt; tokyo; toxin; transfer; transition; translocation; transmembrane; transport; transporters; treatment; trna; trp; trpase; trpzipalpha; tryptophan; tumor; type; understanding; unfolded; unfolding; university; uorescence; uptake; use; values; variants; variations; vesicles; viral; virus; vitro; vivo; voltage; volume; water; wide; wild; work; yeast; yefm cache: cord-014685-ihh30q6f.txt plain text: cord-014685-ihh30q6f.txt item: #132 of 647 id: cord-014712-5u4e00q6 author: None title: Selected Abstracts from the 100th J Project Meeting, Antalya, Turkey, March 12-14, 2014 date: 2014-08-02 words: 36956 flesch: 46 summary: Recurrent severe complicated infections developed in 90% of PID patients. Register for PID patients has been set up in Bulgaria that allowed the collection of data on the incidence and prevalence of PID and the negative effect of these conditions on the population. keywords: abnormal; abscess; absolute; acid; activation; activity; acute; additional; administration; adult; adult patients; adverse; affected; age; aged; aim; allergic; allergy; analysis; anemia; angioedema; antibiotic; antibodies; antibody; antibody deficiency; associated; association; asthma; ataxia; atopic; attacks; autoimmune; autoimmunity; autosomal; awareness; b cells; background; bcg; better; biopsy; birth; blood; bone; boy; boys; brain; bronchiectasis; burst; candida; candidiasis; care; case; causes; cd19; cd3; cd4; cd40; cd8; cells; cellular; center; central; cervical; cgd; changes; characterized; chest; children; chronic; class; clinical; cmc; cohort; collaboration; combined; common; complement; complete; complex; complications; conclusion; congenital; consanguineous; consanguinity; controls; costs; count; countries; country; course; cvid; cvid patients; cytometry; data; days; death; defective; defects; deficiencies; deficiency; degree; delay; deletion; department; dermatitis; detection; determined; developed; development; dgs; diagnosis; different; disease; disorders; dna; dock8; donor; dose; drug; early; education; effect; elevated; eosinophils; esid; european; evaluation; events; examination; exons; expected; expression; factors; failure; families; family; father; features; female; fever; findings; flow; follow; following; food; form; foxp3; frequency; frequent; function; fungal; gene; generalized; genetic; genomic; george; girl; gof; good; granulomatous; group; healthy; heart; heterozygous; hies; high; higher; higm; history; hla; homozygous; hospital; hsct; human; humoral; hyper; hypogammaglobulinemia; identification; iga; igd; ige; igg; ighy; igm; igsc; il-12rb1; immune; immunity; immunodeficiency; immunoglobulin; immunological; immunology; impaired; important; improvement; incidence; increase; individuals; infancy; infections; inflammatory; infusion; initial; institute; international; intravenous; introduction; ivig; known; laboratory; lack; later; lead; left; lesions; levels; life; like; likely; liver; local; long; loss; low; lower; lung; lymphadenitis; lymphocyte; lymphopenia; main; major; majority; malignancy; management; manifestations; marrow; mean; median; medical; memory; methods; mhc; molecular; molecules; months; mortality; mother; msmd; mucocutaneous; multiple; mutation; mycobacterial; n =; national; negative; new; non; normal; novel; number; old; omenn; onset; oral; otitis; outcome; outpatient; oxidase; parents; past; pathway; patients; pediatric; percentage; period; peripheral; persistent; phenotype; phox; physical; physicians; pid; pid patients; pids; pneumonia; pnp; population; positive; possible; presence; present; presentation; prevalence; prevention; primary; primary immunodeficiency; process; production; progressive; project; protein; pulmonary; quality; rare; rate; ratio; reactions; recent; receptor; recessive; recurrent; recurrent infections; reduced; regional; registry; regular; related; replacement; report; research; respiratory; response; results; right; risk; role; russia; salmonella; sap; scid; scig; screening; second; secondary; sequencing; serum; severe; severe infections; sibling; sigad; significant; signs; similar; single; sinusitis; sister; site; skin; small; specific; stat3; stimulation; studies; study; subclass; subcutaneous; surface; survival; susceptibility; symptoms; syndrome; system; systemic; t cells; tafa; telangiectasia; term; test; therapeutic; therapy; time; tissue; total; tract; transplantation; treatment; tuberculosis; turkey; types; university; unknown; upper; use; vaccinated; vaccination; vaccine; variable; vasculitis; viral; wasp; week; weight; wheezing; xla; years; years old cache: cord-014712-5u4e00q6.txt plain text: cord-014712-5u4e00q6.txt item: #133 of 647 id: cord-014794-yppi30a0 author: None title: 19th European Congress of Pathology, Ljubljana, Slovenia, September 6-11, 2003 date: 2003-07-31 words: 158305 flesch: 41 summary: The comparison in paired tumor and normal tissue samples showed that phosphorylated ERK-1/ERK-2 expression was higher in tumor cells as compared to surrounding normal salivary parenchyma. IRF-1 derepression by invading tumor cells was associated with poor prognosis. keywords: aah; abc; abdominal; aberrant; abnormalities; abnormality; absence; absent; abundant; academy; accumulation; accuracy; accurate; acid; actin; activated; activation; activity; acute; addition; adenocarcinoma; adenocarcinoma cells; adenomas; adenomatous; adenosis; adenosquamous; adhesion; adipose; adjacent; adrenal; adult; advanced; affected; aged; aggregates; aggressive; agnor; agreement; aim; aims; alcian; alcl; alpha; alterations; altered; alternative; aml; amplification; analysis; analyzed; anaplastic; ancillary; androgen; angiogenesis; angiogenic; angiomyolipoma; animals; ankara; antibodies; antibody; antigen; apoptosis; apoptotic; apoptotic cells; appearance; application; applied; approach; architecture; areas; arm; array; arterial; arteries; aspiration; assay; assessment; associated; association; atrium; atrophic; atrophy; atypia; atypical; authors; automated; autopsy; available; average; axillary; b cell; background; bak; basal; basal cell; base; basis; bax; bcl-2; bcl2; bcl6; behaviour; benefit; benign; best; beta; better; bilateral; binding; biological; biopsies; biopsy; biotin; biphasic; birth; bladder; bladder cancer; blocks; blood; blot; blue; bone; borderline; bowel; boy; bph; braf; brain; breast; breast cancer; breast carcinoma; breast lesions; breast tissue; breast tumors; bronchial; bucharest; cadherin; calcitonin; calculated; cancer; cancer cases; cancer cells; cancer patients; capillaries; capsule; carcinogenesis; carcinoid; carcinoma; carcinoma cases; carcinoma introduction; cardiac; case report; cases; cases introduction; caspase; catenin; catenin expression; cathepsin; cause; cd10; cd10 expression; cd117; cd20; cd30; cd31; cd34; cd4; cd43; cd5; cd68; cd8; cdk9; cdna; cdx1; cdx2; cea; celiac; cell carcinoma; cell cycle; cell death; cell differentiation; cell growth; cell lines; cell lung; cell lymphoma; cell morphology; cell proliferation; cell type; cells; cells expression; cells number; cellular; center; central; centre; certain; cervical; cervix; chain; changes; characteristics; characterized; checkpoint; chemotherapy; chest; childhood; children; chromogranin; chromophobe; chromosome; chronic; cip1; ck-14; ck19; ck20; ck34sse12; ck7; classical; classification; clear cell; clinical; clinical diagnosis; clinical stage; clinicopathological; cll; clone; clusters; cns; collagen; collected; colon; colonic; colorectal; combination; combined; common; compare; comparison; compartments; complete; complex; complications; component; composite; composition; computer; concentration; conclusion; conclusion expression; conditions; consecutive; consistent; content; contrast; control; control group; controversial; conventional; copd; cord; corpus; correct; correlate; correlation; corresponding; cortex; cortical; count; countries; course; cox; cpt; crc; creatinine; criteria; criterion; croatia; crucial; current; cutaneous; cx43; cycle; cyclin; cystic; cysts; cytogenetic; cytokeratin; cytological; cytology; cytometry; cytoplasmic; dako; damage; data; days; dcis; death; decreased; defects; degeneration; degree; density; department; deposition; deposits; dept; design; desmin; detailed; detection; determination; determined; developed; developing; development; diagnosis; diameter; differences; different; differential; differential diagnosis; differentiation; difficult; diffuse; diffusely; digital; diploid; direct; discussion; disease; disorders; dissection; dissemination; distal; distant; distinct; distinction; distribution; dlbcl; dna; double; drugs; ductal; duodenal; duration; dysplasia; earlier; early; ebv; edema; effect; effective; effusions; egfr; electron; elements; elevated; embryonal; endocrine; endometrial; endomyocardial; endoscopic; endothelial; enhanced; enlarged; entity; enzyme; eosinophilic; epithelial; epithelial cells; epithelioid; erbb-2; erbb-2 expression; erbb2; estrogen; european; evaluation; event; evidence; evident; examination; excised; excision; existence; exon; experience; experimental; expressed; expression; expression analysis; expression levels; expression patterns; expression status; extensive; extent; extracellular; extranodal; ezrin; factor; faculty; failure; fallopian; familial; family; fas; fasl; fat; fatal; fatty; favorable; fddnp; features; federation; female; female patients; fever; fibroblasts; fibroma; fibrosis; fibrous; fields; figures; files; final; findings; fine; fish; flow; fls; fluid; fna; fnab; focal; foci; foetal; fold; follicle; follicular; follow; following; formaldehyde; formalin; forms; fraction; free; frequency; frequent; fresh; frozen; function; gain; galectin-3; gallbladder; gamma; gastric; gastric cancer; gastric carcinoma; gastritis; gastrointestinal; gbm; gcs; gdnf; gelsolin; gender; gene expression; general; genes; genetic; genital; genomic; genotype; germ; gfralpha1; giant cells; giemsa; gieson; gists; gland; glandular; gleason; glial; global; glomerular; glomerulonephritis; goblet cells; gonadoblastoma; good; grade; grade carcinoma; grading; graft; granular; granulomas; granulomatous; greater; greece; gross; group; growth; guidance; h&e; half; hand; hcc; hcg; hch; hcl; hcv; head; healing; healthy; heart; help; helpful; hematoxylin; hemorrhage; hemosiderin; hepatic; hepatitis; hepatocellular; hepatocytes; her-2; her2; herceptest; hereditary; heterogeneous; hhv8; hier; high; high expression; high grade; higher; highest; histogenesis; histological; histological diagnosis; histological grade; histological type; histology; histopathological; histopathology; history; hmlh1; hodgkin; hormone; hospital; host; hours; hpf; hpv; hsp17; hsp70; htert; human; hybridization; hypermethylation; hyperplasia; hypothesis; hypoxia; hysterectomy; idc; identical; identification; ihc; iii; ilc; image; imaging; immune; immunofluorescence; immunohistochemical; immunohistochemical analysis; immunohistochemical expression; immunohistochemical results; immunohistochemical staining; immunohistochemical study; immunological; immunophenotype; immunopositivity; immunoreactivity; immunostained; immunostaining; impact; implants; important; improved; incidence; increased; increasing; independent; index; indirect; individual; induced; infected; infection; infiltrate; infiltration; inflammation; inflammatory; inflammatory cells; influence; information; inhibitor; initial; injury; instability; institute; intense; intensity; intercellular; interferon; intermediate; internal; interstitial; interstitial cells; intestine; intimal; intraductal; intraepithelial; intraoperative; introduction; invasion; invasive; invasive breast; invasive carcinoma; investigation; involved; involvement; iplc; irregular; isoforms; isolated; istanbul; junctions; karyotype; kdr; ki-67; ki67; kidney; kinase; kit; knowledge; known; labeling; laboratory; lack; lamina; large; large cell; laryngeal; later; layers; lead; left; leiomyoma; leiomyosarcoma; length; lesions; leukemia; levels; like; like cells; likely; limited; lines; lipid; literature; little; liver; lncb; lobe; lobular; localization; location; loh; long; longer; loss; losses; low; low expression; low grade; lower; luminal; lung; lung cancer; lupus; lymph; lymph node; lymphatic; lymphocytes; lymphoid; lymphoid cells; lymphoma; macrophages; main; majority; males; malignancies; malignant; malignant cells; malignant tumors; malt; mammary; management; manifestation; mann; mantle; margins; marked; markers; marrow; marsh; mass; masses; massive; mast; mast cells; material; matrix; maturation; mature; mcd; mcp-1; mds; mean; mechanism; median; mediastinal; medical; medicine; medium; medullary; melanoma; members; membrane; mesangial; mesenchymal; mesothelioma; metaplasia; metastases; metastatic; metastatic tumors; methods; methods tissue; methylation; mexico; mib-1; mice; microarray; microdissected; micrometastases; microsatellite; microscopy; microvessel; migration; mild; minimal; mitoses; mitotic; mixed; model; moderate; modified; molecular; molecules; monoclonal; mononuclear; montenegro; months; morphological; morphology; morphometric; mortality; mouse; mrna; msi; muc1; muc2; muc4; mucinous; mucins; mucoepidermoid; mucosa; mucous; multiple; multivariate; muscle; muscle cells; muscle tumors; mutations; mvc; mvd; myc; myocardial; myocarditis; myoepithelial; myofibroblastic; myxoid; myxoma; nasopharyngeal; national; ncam; necessary; neck; necrosis; necrotic; needle; negative; negative cases; negative patients; negativity; neonatal; neoplasms; neoplastic; neoplastic cells; nerve; nervous; nests; neu; neuroendocrine; new; nhl; nodal; node; nodular; nodule; non; normal; normal breast; normal tissue; novel; nuclear; nuclear expression; nuclei; nucleoli; nucleus; number; numerical; numerous; observed; obstruction; occasional; occult; occur; old; oncogene; oncology; oncoprotein; ones; onset; open; operation; optical; order; organs; origin; osteosarcoma; outcome; oval; ovarian; ovarian carcinoma; ovary; overall; overexpression; oxyphilic; p-53; p16; p16ink4a; p21; p21waf1; p27; p53; p53 expression; p53 protein; p63; p<0.001; p<0.05; paediatric; pah; pain; palpable; pancreas; pancreatic; pancreatitis; panel; papillary; papillary carcinoma; paraffin; parameters; parathyroid; parietal; parotid; partial; particles; particular; parts; pas; pathogenesis; pathologists; pathology; pathway; patients; pattern; pca; pcna; pcr; peptide; percentage; period; peripheral; peritoneal; peritumor; pgr; phase; phenotype; phosphorylated; picture; pigmented; pineal; pituitary; placental; plasma cells; pleomorphic; pleural; pll; ploidy; point; polyclonal; polymorphism; poor; population; positive; positive cases; positive cells; positive correlation; positive expression; positive patients; positive staining; positive tumors; positivity; possibility; possible; post; postoperative; potential; precise; precursor; predictive; predominant; pregnancy; preliminary; premalignant; preoperative; preparations; prepared; presence; present; present study; presentation; preserved; preterm; prevalence; previous; primary; primary breast; primary tumor; prior; probes; problem; procedure; process; processes; product; profile; progesterone; prognostic; progression; proliferation; prominent; promoter; proper; proportion; propria; prostate; prostate cancer; prostate carcinoma; prostatectomy; prostatic; protein expression; proteins; proteinuria; protocol; proximal; psa; pts; pulmonary; pure; purpose; quality; quantitative; quantity; radical; range; rapid; rare; rare cases; rate; rats; rcc; rccs; reaction; reactive; rearrangement; recent; receptor; recurrence; reduced; reduction; refractory; region; regional; regulated; regulation; relapse; related; relationship; relative; relevance; relevant; reliable; relp; remission; removed; renal; renal cell; repair; reperfusion; report; reported; representative; republic; research; resected; resection; residual; respiratory; response; responsible; results; ret; retrieval; retroperitoneal; retrospective; review; rhabdoid; rich; right; ring; rise; risk; role; romania; rostov; routine; rupture; russian; s-100; s100; salivary; samples; sarcoidosis; sarcoma; scale; scan; scc; schistosomal; school; sclerosis; score; screening; second; secondary; sections; semi; sensitive; sensitivity; sentinel; sequence; sequencing; serbia; serial; series; serous; serum; setting; severe; sex; short; showing; signal; signet; significant; significant correlation; signs; sil; similar; single; sinonasal; sinus; site; situ; size; skin; slides; small; small cell; smaller; smears; smmhc; smooth; soft; software; solid; solitary; solution; special; specific; specificity; specimens; spectrum; spinal; spindle; spindle cells; spleen; spontaneous; sporadic; spread; spreading; squamous; squamous cell; stage; staging; staining; stains; standard; statistical; status; steatosis; step; stomach; stromal; stromal cells; stromal tumors; strong; structures; studied; study; study group; study introduction; study material; subjects; subsequent; subtypes; sudden; sufficient; superficial; support; suppressor; surface; surgery; surgical; survival; survivin; survivin expression; symptoms; synaptophysin; synchronous; syndrome; synovial; synthesis; system; systemic; target; tashkent; technique; technology; telepathology; telomerase; temporal; tenascin; tenascin expression; terminal; test; testicular; testis; tgf; tgfbeta1; therapeutic; therapy; thessaloniki; thickening; thickness; thin; thp; thyroid; thyroid carcinoma; thyroiditis; time; timp-2; tissue; tissue expression; tissue samples; tissue sections; tma; tnf; tnm; tool; topo; torsion; total; tract; transcription; transformation; transitional; transitional cell; transplant; transplantation; trb1; treatment; true; tuberculosis; tubular; tubules; tumor cells; tumor grade; tumor mass; tumor progression; tumor proliferation; tumor size; tumor stage; tumor tissue; tumoral; tumorous; tumors; tumors introduction; tumour; turkey; type; tyrosine; ulcer; ultrasound; ultrastructural; uncommon; underlying; understood; underwent; undifferentiated; unique; univariate; university; unknown; unusual; upper; urinary; urothelial; usa; useful; uterine; valuable; value; variable; variant; varied; variety; vascular; vasculitis; vegf; ventricle; ventricular; versican; vessels; viii; villi; vimentin; viral; virus; vitro; vivo; volume; vs.; wall; weak; weeks; weight; western; white; whitney; wide; wilms; women; work; worse; xenin; years; years old; yellow; young; zone cache: cord-014794-yppi30a0.txt plain text: cord-014794-yppi30a0.txt item: #134 of 647 id: cord-014875-xhzxhwgo author: None title: Book Reviews date: 2003 words: 7146 flesch: 44 summary: Having read a few of these type of books, the first thing that struck me about this book was the title. I strongly recommend this book to labs that are working on membrane transporter based drug delivery, design, and discovery. keywords: addition; analysis; apoptotic; application; approach; area; aspects; audience; autoimmunity; basic; bioinformatics; biological; book; cell; chapters; coating; components; comprehensive; computational; data; deals; delivery; design; development; different; discovery; disease; dna; drug; example; experimental; field; function; gene; general; generation; good; great; growth; hplc; imaging; important; information; interested; interesting; introduction; knowledge; level; material; mechanisms; membrane; membrane transporters; methods; microdrop; molecular; molecules; new; overview; pharmaceutical; polymers; practical; present; presentations; products; properties; proteins; protocols; public; readers; reference; related; research; researchers; role; science; scientific; scientists; second; section; specific; stability; step; strategies; structure; summary; synthesis; systems; techniques; technologies; technology; therapy; time; topics; transporters; type; understanding; useful; vectors; viral; volume; years cache: cord-014875-xhzxhwgo.txt plain text: cord-014875-xhzxhwgo.txt item: #135 of 647 id: cord-014908-jys1y0k9 author: Yadav, Rakesh title: Trends and Perspectives of Biosensors for Food and Environmental Virology date: 2010-05-19 words: 5123 flesch: 21 summary: A color-shifting glycopolythiophene sensor that contains sialic acid as the receptor and a fluorescent polymer as the transducer has been reported for virus detection at the zeptomole level (Leclerc 1999; Baek et al. 2000) . Genosensor on gold films with enzymatic electrochemical detection of a SARS virus sequence Design and synthesis of novel glycopolythiophene assemblies for colorimetric detection of Influenza virus and E. coli Evaluation of viral extraction methods on a broad range of ready-to-eat foods with conventional and real-time RT-PCR for Norovirus GII detection A biosensor for Dengue virus detection: keywords: acid; affinity; amperometric; amplification; analysis; analyte; antibodies; applications; approach; aptamers; biorecognition; biosensing; biosensor; cell; certain; components; crystal; culture; dengue; detection; development; device; diagnosis; direct; dna; dsdna; electrochemical; elements; environmental; enzyme; et al; food; foodborne; gold; hepatitis; host; human; hybridization; identification; illnesses; immobilized; immunosensor; influenza; ligands; low; magnetic; methods; microbalance; microfluidic; molecular; molecules; nasba; nucleic; nucleoproteins; optical; pathogenic; pcr; polymerase; preparation; present; properties; proteins; quartz; range; rapid; real; recognition; related; research; resonance; respiratory; reverse; rna; rotavirus; sample; sars; sensitive; sensitivity; sensors; sequence; signal; single; small; specific; step; structural; surface; systems; techniques; technology; time; tools; transducers; viral; virion; virology; virus; viruses cache: cord-014908-jys1y0k9.txt plain text: cord-014908-jys1y0k9.txt item: #136 of 647 id: cord-015348-qt0worsl author: None title: Abstract date: 2010-07-30 words: 74228 flesch: 40 summary: The role of autophagy in cancer seems to be dual: On one hand, there is a growing body of evidence supporting the idea that autophagy may represent a tumor suppressor mechanism by reducing intratumoral necrosis, restricting oxidative stress and limiting chromosomal instability; on the other hand, autophagy may be an important process used by tumor cells to escape various types of stress and even therapeutic agents. At a higher magnification, tumor cells are grouped in small nests formed by large cells, with an abundant, pale, mucus-laden cytoplasm and an eccentric nucleus. keywords: abdominal; abnormal; abnormalities; absence; abundant; accepted; accumulation; accurate; activation; activity; acute; addition; adenocarcinoma; adenoma; adjacent; adults; advanced; affected; age; agents; aggressive; aim; akt; alb; alk; allergic; alterations; alveolar; amplification; amyloid; analysed; analysis; angiosarcoma; animals; antibodies; antibody; antigen; appearance; appendiceal; appendix; application; applied; approach; appropriate; architecture; area; aspects; aspiration; assessment; associated; association; atypia; atypical; autophagy; autopsy; available; axillary; background; basal; basis; bcr; behaviour; benign; best; better; biochemical; biological; biology; biopsies; biopsy; bladder; bleeding; blood; bone; bowel; braf; brain; breast; breast cancer; breast lesions; bronchial; budding; c4d; cadherin; cancer; cancer patients; carcinoid; carcinoma; cardiac; cases; categories; cause; cd117; cd34; cd56; cd8; cdlu; cell carcinoma; cell lung; cells; cellular; center; central; cervical; changes; characteristics; chemotherapy; children; chromogranin; chronic; ck7; classification; clinical; clinicopathological; collagen; colon; colorectal; combination; common; comparison; complete; complex; component; computer; conclusion; conditions; congenital; consistent; context; contrast; control; conventional; cord; correct; correlate; correlation; countries; course; crc; criteria; critical; crucial; cruz; current; cutaneous; cystic; cysts; cytokeratin; cytological; cytology; cytoplasm; damage; data; death; decrease; degree; density; department; deposition; deposits; dept; desmin; desmoplastic; detection; determined; development; diabetes; diabetic; diagnosis; diameter; differences; different; differential; differential diagnosis; differentiated; difficult; diffuse; digital; digitized; direct; disease; disorders; distant; distinction; distribution; dna; dose; dox; doxorubicin; drug; ductal; dysfunction; dysplasia; e.g.; early; ecs; effect; effective; egfr; electron; endocrine; endometrial; endoscopic; endothelial; entire; entities; entity; eosinophilic; epithelial; epithelioid; essential; european; evaluated; evaluation; evidence; examination; example; excised; excision; exon; experience; expression; extensive; ezrin; factors; false; familial; family; fcd; features; female; fetus; ffpe; fibers; fibres; fibroblastic; fibrosis; field; final; findings; fine; fish; fixation; fna; foci; focus; follicles; follicular; following; formalin; forms; free; frequency; frequent; frontal; frozen; function; future; gallbladder; gastric; gastrointestinal; gbl; gene; gene expression; general; genetic; germany; gland; glioblastoma; gliomas; glomerular; goblet; good; grade; grading; graft; great; gross; group; growth; guidelines; gvhd; h&e; hand; head; heart; help; hematoxylin; hepatic; her2; high; higher; highest; histological; histology; histopathological; histopathology; history; hodgkin; hospital; host; hpv; human; hur; hyaline; hybridization; hyperplasia; hypertension; identification; ihc; images; imaging; imatinib; immature; immune; immunohistochemical; immunohistochemical expression; immunostaining; impact; implementation; important; improved; incidence; includes; inclusions; increase; independent; index; individual; induced; infection; infiltrate; infiltration; inflammation; inflammatory; influence; information; inhibitors; initial; injury; institute; intensity; interest; interstitial; intraepithelial; invasion; invasive; investigation; involved; involvement; italy; kai1; ki67; kidney; kinase; kit; knowledge; known; kras; laboratories; laboratory; lack; large; layer; left; lesions; levels; lfs; lgr5; like; likely; limited; literature; liver; lobe; local; localization; location; long; loss; low; lower; lung; lymph; lymphangiogenesis; lymphatic; lymphocytic; lymphoid; lymphoma; macrophages; main; major; majority; males; malignancies; malignant; mammary; management; marked; markers; marking; marrow; mass; material; matrix; mean; mechanisms; median; medical; medicine; melanocytic; melanoma; membrane; membranous; mena; mesenchymal; mesothelioma; metaplasia; metastases; metastatic; method; methylation; mgmt; mib-1; microscopy; mild; minimal; mitochondrial; mitotic; mixed; mlcnec; mmp-9; model; molecular; molecules; monoclonal; months; morphological; morphology; mortality; mtor; mucinous; mucosa; mucus; multiple; multivariate; muscle; muscular; mutations; myxoid; naevi; national; nature; necessary; neck; necrosis; needle; negative; neoplasms; neoplastic; neoplastic cells; nephropathy; nerve; nervous; network; neuroendocrine; new; node; nodular; nodules; non; normal; notch1; novel; nsclc; nuclear; nuclei; nucleoli; nucleus; number; numerous; objective; observed; ofd; old; oncology; optimal; order; organ; origin; outcome; ovarian; ovary; overall; overexpression; oxidative; p16; p53; p63; p<0.001; p<0.05; pancreatic; panel; papillary; paraffin; parameters; parenchyma; partial; particular; pas; pathogenesis; pathological; pathologists; pathology; pathway; patients; pattern; pcr; pdgfra; percentage; period; peripheral; peritoneal; phenotype; pigment; placental; plasma; play; pleomorphic; pleural; poland; poland objective; polish; polyps; poor; population; positive; positive cases; positive cells; positive expression; positivity; possibility; possible; post; potential; practice; predictive; predominant; preoperative; presence; present; presentation; prevalence; previous; primary; prior; problems; procedures; process; processes; production; profiles; progesterone; prognostic; progression; proliferation; prominent; promoter; prostate; prostatic; protein; protein expression; protocol; psa; pseudomyxoma; ptc; pten; pulmonary; purpose; qrt; quality; radiation; radical; radiologic; radiotherapy; range; rare; ras; rate; rats; reaction; reactive; recent; receptor; recognition; recurrence; reduced; region; related; relationship; relevant; reliable; renal; report; reporting; research; resection; residual; resolution; respect; response; results; review; rich; right; risk; role; routine; s-100; s100; salivary; samples; santa; sarcoma; scha; score; scpv; screening; second; secondary; sections; selection; sensitive; sensitivity; sentinel; sequencing; series; serous; serum; setting; severe; sex; short; shows; signaling; significant; signs; similar; single; sinonasal; site; situ; size; skin; slides; small; small cell; smears; smoking; smooth; snomed; soft; software; solid; special; specific; specificity; specimens; spectrum; spindle; sporadic; squamous; stage; staging; staining; standard; standardization; statistical; status; step; stomach; stress; stromal; strong; structure; students; studies; study; submucosal; subset; subtypes; support; suppressor; surface; surgery; surgical; survival; suspicious; symptoms; synaptophysin; syndrome; system; targeted; targets; technical; techniques; teratoma; terms; testing; tests; therapeutic; therapies; therapy; thickness; thyroid; time; tirapazamine; tissue; tnm; tool; total; tract; transplantation; treatment; true; tubular; tumor; tumor cells; tumoral; tumours; type; tyrosine; uip; ultrastructural; uncommon; underlying; understanding; underwent; unique; university; unknown; unusual; upper; urothelial; usa; use; useful; uterine; validation; value; variable; variant; vascular; vegf; vessels; vimentin; virtual; volume; wall; weeks; white; wide; women; workup; world; years; young cache: cord-015348-qt0worsl.txt plain text: cord-015348-qt0worsl.txt item: #137 of 647 id: cord-015368-a0qz4tb9 author: None title: 48th Annual Meeting of the Austrian Society of Surgery, Graz, June 7–9, 2007 date: 2007 words: 86712 flesch: 48 summary: In an unselected cohort of surgical patients those presenting with infection prior to surgery and those undergoing abdominal surgery are at highest risk of death from infection. After resection patients should have long term follow up. keywords: = =; aaa; abdomen; abdominal; abdominal surgery; ablation; abscess; acceptable; accepted; access; accessory; acid; activation; active; activity; acute; additional; adenocarcinoma; adequate; administration; advanced; advantages; adverse; affected; agb; age; aim; alternative; anaesthesia; analysed; analysis; anastomosis; anatomical; aneurysms; animals; anterior; anti; aorta; aortic; apoptosis; appendectomy; appendicitis; appendix; application; approach; arch; area; arf; arteries; artery; arthrosis; asa; aspects; assessment; associated; atresia; atrial; austria; available; average; axillary; background; balloon; banding; bariatric; barrett; baseline; basis; bei; benefit; benign; best; better; biceps; bilateral; bile; biliary; bilirubin; biopsies; biopsy; birth; bladder; bleeding; blockade; blood; bmi; body; bone; bowel; brachial; breast; burns; bypass; cabg; cancer; cancer patients; carcinoma; carcinoma patients; cardiac; cardiac surgery; cardiopulmonary; care; carotid; cases; catheter; cause; cavity; cbd; cell; cellular; centers; central; cervical; changes; chemotherapy; chest; children; choice; cholecystectomy; choledochal; chronic; classification; classified; clinical; clinical results; clip; closure; cohort; collected; colon; colonic; colorectal; combination; combined; common; comparable; comparison; complete; complex; complications; compression; concept; conclusions; concomitant; condition; congenital; connective; consecutive patients; consequence; conservative; constant; contrast; control; conventional; conversion; converted; coronary; correlation; cosmetic; cosmetic results; course; coverage; cpb; crc; crc patients; creatinine; criteria; crucial; ctx; curative; current; curve; cycles; cyst; cystic; daily; damage; data; days; death; december; decision; decrease; deep; defect; delayed; department; dependent; descending; detailed; detection; determined; developed; development; device; diabetic patients; diagnosis; diameter; diaphragm; diaphragmatic; die; differences; different; differential; difficult; dilatation; direct; discharge; discussion; disease; dissection; distal; distance; distribution; diverticulitis; dna; dose; double; drainage; drug; duct; ductoscopy; duodenal; duplex; duration; dysfunction; dysplasia; earlier; early; early results; easy; effective; effects; efficacy; eine; elderly; elective; elevated; emergency; endarterectomy; endoluminal; endoscopic; endothelin; endovascular; energy; episodes; ercp; esb; esophageal; esophagectomy; esophagus; evaluated; evaluation; evar; events; evidence; exact; examination; excellent; excision; expansion; expected; experience; experimental; exploration; exposure; expression; extended; extensive; extent; external; extremity; facial; factors; failure; false; fascia; fast; feasibility; feasible; features; female patients; females; femoral; fetal; fgf18; fibrin; field; findings; fistula; fixation; flap; flow; fluid; follow; following; formation; forms; fractures; free; frequency; frequent; function; fundoplication; fxiii; für; gallstone; gastric; gastro; gastrointestinal; gastroschisis; gender; general; genes; gerd patients; germany; gfr; goal; good; good results; grade; graft; grafting; graz; greater; group; growth; gsd; h&e; hand; head; healing; health; heart; hemangiomas; hepatic; hernia; high; higher; highest; histological; histology; histopathological; histopathology; history; hiv; hospital; hours; hpv; htx; human; identification; iii; ileus; iliac; image; imaging; immediate; immune; impact; impedance; implantation; important; improved; improvement; incidence; incision; incontinence; increased; indexed; indication; individual; infection; inflammatory; influence; inguinal; initial; injuries; injury; inoperable patients; institution; insufficiency; intensive; interdisciplinary; internal; intervention; intestinal; intraabdominal; intraductal; intraoperative; invasion; invasive; investigated; investigation; involved; ischemia; isolated; iv patients; january; joint; kidney; known; laboratory; lack; laparoscopic; laparoscopic surgery; laparotomy; large; laser; lead; leakage; learning; left; leg; length; lesions; levels; lich; life; ligation; like; limited; line; linz; liquid; literature; liver; local; long; loss; lost; lower; lumen; lung; lviv; lymph; lymphatic; mae; main; major; majority; males; malignancies; malignant; management; mandatory; manometry; marker; massive; matrix; mean; mean age; median; medical; mesh; meshes; metastases; metastatic; methods; mid; mii; mild; min=1.73; minimal; minimum; minor; minutes; mitral; model; moderate; modified; monitored; monitoring; months; moon; morbidity; mortality; motility; motion; mri; mucosa; multimodal; multiple; muscle; mutation; myocardial; n ¼; necessary; neck; necrosis; need; needed; needle; negative; neoadjuvant; nerve; neurological; new; nissen; node; nog; nog patients; non; normal; novel; number; nur; obese; obese patients; obesity; objective; observation; observed; obstruction; occlusion; old; older patients; oncological; open; open surgery; operating; operation; operation time; optimal; option; order; organ; outcome; ovarian; overall; oxygen; p ¼; p53; pain; palliative; pancreas; pancreatic; paralysis; parameters; parietal; partial; past; patch; pathologies; patients; patients background; patients data; patients medical; pcr; pct; pediatric; percent; perforation; pericardial; period; peripheral; peritoneal; peritonitis; permanent; persistent; pet; phase; physical; placebo; plantar; plate; pleural; plexus; pneumonectomy; pneumothorax; population; position; positive; positive patients; possibilities; possible; posterior; postoperative; postoperative complications; postoperative mortality; postoperative results; posttraumatic; potential; precise; predictive; preoperative; preparation; presence; present; preservation; preserving; pressure; previous; primary; prior; problems; procedure; process; prognosis; progression; prolapse; prolonged; promising; prospective; prosthesis; protein; protocol; proximal; pth; pts; pull; pulmonary; pump; purpose; quality; radical; radiochemotherapy; radius; randomized; range; rapid; rare; rate; rats; ray; reasons; recent; receptor; reconstruction; recovery; rectal; rectum; recurrence; reduced; reduction; reflux; regard; regimen; region; regional; rehabilitation; related; relevant; remains; remodeling; removal; renal; repair; reperfusion; replacement; report; reported; resection; respiratory; response; restrictive; results; retrograde; retroperitoneal; retrospective; retrosternal; review; revision; right; risk; risk patients; role; routine; rupture; safe; samples; sampling; satisfaction; satisfactory; scale; scan; scar; score; screening; screws; second; secondary; segment; self; sensitivity; sepsis; septic; sequences; series; serum; severe; sex; sfrp1; shock; short; shorter; shoulder; shows; shunting; sich; sigmoid; significant; signs; similar; simple; single; site; situation; size; skin; sleeve; small; sns; soft; sonography; special; specialized; specific; specificity; sphincter; spleen; splenectomy; splenic; squamous; stable; staff; stage; staining; standard; standardized; stapling; statistical; status; stay; stenosis; stent; stenting; step; sternotomy; stimulation; stomach; stones; strategy; stripping; strong; studies; study; subclavian; subcutaneous; subjects; success; successful; suffering; sufficient; suitable; superficial; superior; supply; support; surface; surgeons; surgery; surgical; surgical complications; surgical intervention; surgical methods; surgical patients; surgical procedure; surgical therapy; surgical treatment; survival; suture; suturing; sympathetic; symptomatic; symptoms; syndrome; system; systemic; targets; teaching; team; technical; technique; technology; term; term results; test; testing; therapeutic; therapy; thoracic; thyroid; thyroid surgery; time; tipp; tissue; tool; total; track; tracking; traditional; training; transplantation; transport; transposition; trauma; treatment; trials; tube; tumor; type; typical; ulcer; ultrasound; unclear; underlying; underwent; unit; university; upper; use; useful; values; valve; vascular; vats; vbg; vein; vena; venous; ventricular; versus; vessels; video; vienna; vivo; volume; von; vs.; wall; way; weeks; weight; werden; western; women; working; wound; wurde; years; younger patients; yrs; zur cache: cord-015368-a0qz4tb9.txt plain text: cord-015368-a0qz4tb9.txt item: #138 of 647 id: cord-015394-uj7fe5y6 author: None title: Scientific Abstracts date: 2008-12-23 words: 242809 flesch: 48 summary: The highest level of -tubulin acetylation (2.5-fold) was observed with Vinblastine at 10-fold IC 50 after 48 h. Exposure to Microtubule interacting agents and TSA resulted in increased cell surface expression of Ep-CAM in a time and dose dependent manner. Finally, we elucidated a link between the RA and TGF-pathways by assessing the impact of RA treatment of TGF-3 expression, demonstrating that TGF-3 template decreased to levels comparable to myometrial cell expression (0.84±0.12 fold). keywords: -tubulin; 1,2; 11b; 12h; 18s; 24h; 48h; abc; abdominal; aberrant; ability; abnormal; abnormalities; abortion; abruption; absence; absent; abundance; abundant; account; accumulation; accuracy; acetate; acetylation; acid; acidemia; acidosis; acth; actin; activation; active; activin; activities; activity; acts; acute; adaptive; addition; adenomyosis; adenosine; adequate; adhesion; adiponectin; adjacent; adjusted; adjustment; adma; administration; admission; adrenal; adult; adulthood; advanced; adverse; aea; aea levels; afc; affected; affects; affymetrix; age; aged; agents; aim; aims; akt; alcohol; alk1; allele; alpha; alterations; altered; alternative; amh; amino; amniocentesis; amnion; amniotic; amounts; amplification; analysis; anandamide; androgen; androstenedione; anesthesia; aneuploidy; angeles; angii; angiogenesis; angiogenic; angiotensin; animals; anomalies; anova; antagonist; antenatal; anti; antibiotics; antibodies; antibody; antigen; antihypertensive; antioxidant; aorta; apgar; apoptosis; apoptotic; apparent; application; applied; approach; appropriate; approval; aqp1; arbitrary; areas; arginine; aromatase; aromatase expression; array; arrest; arterial; arteries; artery; assay; assayed; assess; assessment; assisted; associated; association; atgl; atp; attached; attenuated; australia; available; average; avp; axis; b cells; b levels; babies; background; bacterial; balance; balloon; band; basal; baseline; bax; benign; best; beta; betamethasone; better; bewo; bewo cells; big; bilateral; bile; binding; biochemical; biological; biology; biomarkers; biopsies; biopsy; biosynthesis; birth; birthweight; blastocysts; bleeding; blinded; block; blocking; blood; blood cells; blood flow; blood pressure; blood samples; blot; blot analysis; blotting; bmi; bnp; body; bouin; bpa; brain; branch; breast; breastfeeding; buffer; bypass; c fetal; cadherin; calcium; calculated; california; camp; cancer; cancer cells; candidate; capacity; carboplatin; carcinoma; cardiac; cardiovascular; care; carriers; cascade; cases; caspase; caspase-3; catheters; caucasian; cause; caveolae; cb1; cbf; cd25; cd3; cd4; cd44; cd45; cd55; cd8; cdb; cdna; cell culture; cell cycle; cell death; cell function; cell growth; cell line; cell proliferation; cell protein; cell types; cells; cellular; center; centile; central; centre; cerebral; cervical; cervical cells; cervix; cesarean; cfos; cgrp; chain; changes; channels; characteristics; characterized; chd; chemokine; chemotherapy; chi; chicago; child; cholesterol; chorioamnionitis; choriocarcinoma; chorion; chorionic; chromatin; chromosome; chronic; chymotrypsin; cigarette; cincinnati; circulating; circumference; cisplatin; class; cleavage; clinical; clip-170; clomiphene; clp; coagulation; cohort; cohort study; collagen; collection; college; colon; colonic; combination; combined; common; communication; comparable; comparison; complete; complex; compliance; complicated; complications; components; composition; comt; concentrations; conception; conclusions; conditions; confidence; confluent; confocal; congenital; conjugated; consecutive; consistent; constant; content; continued; continuous; contractile; contractility; contractions; contrast; contribute; control; control cells; control group; control pregnant; control study; control women; cord; corin; correlated; correlation; corresponding; cortex; cortical; cortisol; counseling; couples; course; cox-2; cpb; cpeb; cranberry; crf; crf expression; crh; criteria; critical; cross; crp; crucial; csf; ctr; culture; cultured human; cumulative; cumulus cells; current; curve; cvs; cycle; cyclin; cyp17; cytokine expression; cytokines; cytometry; cytoplasmic; cytotrophoblast; daily; dallas; damage; dams; data; database; date; david; dawley; day; days; dcs; death; decidual cells; decidualization; decline; decrease; defects; deficiency; degradation; degree; dehydrogenase; delay; deletion; deliveries; delivery; demise; demographic; demonstrated; density; department; dependent; dept; design; detectable; detection; determination; detroit; development; device; dga; dha; diabetes; diabetic; diagnosis; diameter; diastolic; diet; dietary; differences; different; differential expression; differentiation; dilatation; diminished; direct; discussion; disease; disorders; distal; distention; distinct; distress; distribution; division; dna; domain; donor; doppler; dose; double; downregulation; downstream; drug; dscs; duration; dysfunction; dysregulation; earlier; early; early pregnancy; ebp; ecm; ecog; ecs; ectopic; education; effect; effective; efficacy; egfr; eif2; elastin; elective; elements; elevated; elevation; elisa; embryo; embryonic; emg; endocannabinoid; endocrine; endocrinology; endogenous; endometrial; endometrial cells; endometrial expression; endometriosis; endothelial cells; endothelium; enhanced; enos; environment; enzyme; eoc cells; epab; epcs; epigenetic; epithelial; erk; erk1/2; erk2/1; essential; established; estradiol; estrogen; estrus; et-1; etb; ethnicity; etiology; evaluation; events; evidence; evident; evt; ewes; exact; exam; examination; excess; excretion; exerts; exhibit; exon; experience; experiments; explants; exponent; exposed; exposure; expression; expression analysis; expression changes; expression data; expression levels; extent; extracellular; extraction; extracts; extravillous; ezh2; f4/80; faah; factor; failed; failure; fak; fallopian; false; family; fashion; fasting; fat; fatty; fbs; features; fed; feeding; female; femoral; fertilization; fertilized; fetal; fetal arterial; fetal blood; fetal body; fetal brain; fetal cells; fetal circulation; fetal death; fetal development; fetal dna; fetal effects; fetal growth; fetal heart; fetal inflammatory; fetal levels; fetal liver; fetal lung; fetal membranes; fetal placental; fetal plasma; fetal sheep; fetal weight; feto; fetuses; fgr; fhr; fibers; fibroblasts; fibroids; figure; findings; fixed; flow; fluid; fluorescence; folate; fold; fold increase; folic; follicles; follicular; following; food; force; formation; forskolin; foxp3; fraction; fragments; free; frequencies; frequency; frozen; fsh; fshr; function; future; gaba; gain; galveston; gapdh; gbs; gcm1; gdm; gdm women; gel; gender; gene; general; generated; generation; genetic; genome; genomic; genotype; genotyping; gestation; gestational age; gfr; ghrelin; glandular; global; glomerular; glucocorticoids; glucose; gnrh; goal; gonadotropin; good; gradient; grams; grant; granulosa cells; greater; groningen; group; group c; growth; growth factor; guinea; gynecology; half; hand; harbor; has2; haven; hbegf; hcg; hcg levels; hcy; hdl; health; heart; hela cells; help; hemorrhage; heparanase; hepatic; hfix; hgf; higher; higher expression; higher levels; highest; hispanic; histologic; histone; history; hla; homeostasis; homocysteine; hormonal; hormone; horn; hospital; hours; hoxa10; hoxa10 expression; hpa; hplc; hpx; hrs; hscrp; hsd1; hsd1 expression; hsd2; htert; hud; human; human cells; human endometrial; human fetal; human labor; human myometrium; human ovarian; human placental; human pregnancy; human trophoblast; human uterine; hur; huvec; hypertension; hypothalamic; hypothesis; hypothesized; hypoxia; hysterectomy; iai; icsi; identification; ifn; igf; igf-1; ihc; iii; ikk; ikk expression; il-1; il-6; il-6 levels; il-8; il-8 expression; il1; image; imaging; imd; immature; immediate; immortalized; immune; immune cells; immunity; immunoblotting; immunohistochemistry; immunoreactivity; immunostained; immunostaining; impact; impaired; imperial; implantation; important; improved; improvement; incidence; incontinence; increased; incubation; index; indices; individual; induced; induction; infants; infection; infertility; inflammation; inflammatory; inflammatory cells; inflammatory response; influence; informed; infusion; inhibin; inhibited; inhibitor; inhibits; initial; initiation; injury; innate; inos; institute; insufficiency; insulin; insulin levels; intact; integrin; intensities; intensity; interactions; intercourse; interest; interface; internal; intervals; intervention; intrauterine; intravenous; introduction; invading cells; invasion; invasive; investigation; involved; involvement; iqr; ishikawa; ishikawa cells; isoforms; isolated; isometric; israel; italy; iufd; iugr; ivf; japan; jar; jnk; john; jun; kda; key; kidney; kinase; kingdom; kit; knock; known; labeling; labor; laboratory; labouring; labyrinth cells; lack; lactate; lactation; laparoscopic; large; late pregnancy; latency; later; layers; leading; left; leiden; leiomyoma; length; leptin; lesions; leukocytes; levels; levosimendan; lgr7; libitum; ligand; likelihood; likely; limited; linear; lines; lipid; lipopolysaccharide; liquid; litter; little; lmp; load; local; localization; logistic; london; long; loss; louisville; low levels; lower; lowest; lox; lpa; lps; luciferase; lung; luteal; luteal cells; lyapunov; lymphocytes; macrophages; macrosomia; main; maintenance; major; majority; maldi; male; malignant; management; manner; mapk; marked; markers; mass; mast cells; materials; maternal; maternal age; maternal blood; maternal fetal; maternal growth; maternal plasma; maternal serum; maternal weight; matrigel; matrix; matter; maturation; maximal; maximum; mbs; mca; mcp; mean; mean±sem; measure; measurements; mechanical; mechanisms; meconium; media; mediate; mediators; medical; medicine; medium; medroxyprogesterone; members; membranes; menopause; menses; menstrual; menstruation; mesenchymal cells; mesenteric; metabolic; metabolites; metalloproteinases; methods; methylation; mfr; mg protein; mice; michael; microarray; microscopy; microvascular; mid; migraine; migration; mii; mild; milieu; min; minimal; minutes; mis levels; miscarriage; mitf; mitochondrial; miu; mmhg; mmp-9; mmp2; mmr; mnr; model; moderate; modification; modified; molecular; molecules; monitoring; monoclonal; monocyte; mononuclear cells; months; morbidity; morphology; mortality; mothers; motility; mouse; mrna expression; mrna levels; mrnas; mtor; mtt; multiple; murine; muscle cells; mutation; myd88; myocytes; myoferlin; myogenic; myometrial; myostatin; n=10; n=11; n=12; n=15; n=20; n=3; n=5; n=6; n=7; n=8; n=9; national; natural; near; necessary; necrosis; need; negative; neonatal; neonates; nephron; nerve; netherlands; neural; neuronal; neurons; neutrophils; new; newborn; newcastle; nfkappab; nicu; nih; nitric; nk cells; nkg2d; nmol; non; nonpregnant; normal; normal fetal; normal human; normal placental; normal pregnancy; normal term; normalized; normotensive; normoxic; novel; nrbcs; nuclear; nuclei; nucleotide; nulliparous; number; nutrient; nutrition; obese; obese women; obesity; objective; observations; observed; obstetrics; occlusion; odds; offspring; ohpc; ohss; ongoing; onset; oocytes; operative; optimal; oral; order; organ; origin; otr; outcome; output; ovarian; ovarian cells; ovariectomized; ovaries; ovary; overall; overexpression; overweight; ovine; ovine fetal; ovulatory; oxidase; oxidative; oxide; oxygen; oxytocin; p =; p levels; p38; p53; p65; p70; p<.001; p<0.001; p<0.05; paclitaxel; pain; palsy; paraffin; parallel; parameters; parity; partal; particular; parturition; passage; passive; pathogenesis; pathological; pathology; pathophysiology; pathway; patients; pattern; pbef; pcao; pcn; pcos; pcos women; pcr; peak; pelvic; peptide; percentage; perfusion; periconceptional; perinatal; period; peripheral; peritoneal; permeability; peroxide; peroxide levels; persistent; pet; pgdh; pge; pgf; pgf2; pghs-2; pgrmc-1; phase; phenotype; phosphorylation; physiological; pi3k; pituitary; pkc; placebo; placement; placental; placental cells; placental expression; placental growth; placental protein; placental samples; placental tissue; placentation; plasma; plasma levels; plasmid; platelet; plates; play; plgf; pof; point; poly(i; polyclonal; polycystic; polymorphisms; poor; population; positive; positive cells; possibility; possible; post; postmenopausal; postmenopausal women; postnatal; postpartum; potassium; potential; ppar; pprom; practice; precursor; predictive; predictors; predominant; preeclampsia; preeclamptic women; pregnancies; pregnancy; pregnancy outcome; pregnancy rate; pregnancy results; pregnancy study; pregnant levels; pregnant mice; pregnant rats; pregnant women; preliminary; preliminary results; premature; premenopausal; prenatal; prepared; presence; present; present study; pressure; preterm; preterm birth; preterm delivery; preterm labor; pretreated; pretreatment; prevalence; prevention; previous; primary; primary human; primers; prior; probes; procedure; process; processes; processing; production; products; profile; progenitor cells; progesterone; progestins; programmed; programming; prolapse; proliferation; prolonged; promoter; properties; proportion; prorenin; prospective; prostaglandin; protease; protein expression; protein levels; proteins; protocol; providers; psychological; ptb; ptgfr; pthrp; ptl; pulmonary; pups; purified; purpose; putative; qpcr; qrt; quality; quantification; quantitative; quiescence; r5020; rabbit; racial; randomized; range; rank; rapid; rare; ratios; rats; reaction; reactive; real; recent; receptivity; receptor; receptor expression; receptor mrna; recombinant; records; recruitment; recurrent; reduced; reference; region; regression; regular; regulated; regulation; regulatory; related; relationship; relative; relative expression; relaxation; relaxin; release; releasing; relevant; remodeling; removal; renin; repair; repeated; reported; reports; reproductive; research; reserve; resistance; resistin; respect; responders; response; responsible; responsiveness; restricted; restriction; results; retinol; retrieval; retrieved; retrospective; retroviral; reverse; review; rhoa; rhrlx; right; ringo; ripening; rise; risk; robust; role; rotterdam; routine; ru486; rupture; s1p; saa; saline; samples; sampling; san; scale; school; sciences; score; screening; second; secondary; secretion; secretory; sections; segment; selectin; sem; semi; seng; sensitive; sensitivity; separate; separation; sequence; serial; series; serum; serum levels; setting; severe; severity; sex; sflt-1; sflt1; sga; shear; sheep; short; shorter; shows; shreveport; sicam-1; signaling; signals; significant; significant differences; significant increase; similar; single; singleton; sirna; site; sk3; skin; slpi; small; smaller; smoke; smokers; smoking; smooth; smurf2; snap; sno; snp; snps; sodium; software; soluble; solution; somatic; sonographic; source; species; specific; specificity; specimens; spindle; spleen; splicing; spontaneous; sprague; sptb; spy; square; stage; staining; standard; standardized; star; stat3; statistical; statistical analysis; status; stem cells; step; stephen; steroid; stimulation; stimuli; stra6; strategy; stress; stretch; strips; stromal cells; strong; structure; student; studies; study; study design; study group; subjects; subsequent; substantial; substrate; subunit; successful; sum; supernatants; supplementation; supplemented; support; suppressed; suppression; surface; surgery; surgical; survival; sympathetic; symptoms; syncytial; syncytiotrophoblast; syndrome; synergistic; synthase; synthesis; synthetic; system; systemic; systolic; t cells; table; target; taylor; technique; technology; teenagers; temperature; temporal; term; term fetal; term placental; term pregnant; terminal; test; tested; testing; testosterone; texas; tgf; therapeutic; therapies; therapy; thickness; thrombin; thy-1; time; time pcr; timing; tissue; tlr-3; tlr2; tlr4; tnf; tnfa; tnl; toco; tocolytic; tof; tolerance; toll; torrance; total; total protein; traditional; trail; transcribed; transcription; transcripts; transfection; transfer; transient; translation; transport; treatment; treg cells; trend; trials; trimester; trophoblast cells; trophoblasts; true; tsa; tubal; tube; tumor; tunel; turn; twin; type; tyrosine; ucla; ucn2; udp; ultr cells; ultrasound; umbilical; unchanged; unclear; underlying; understanding; understood; underwent; unique; united; units; university; university medical; unknown; untreated; upa; upbf; upper; upstream; uptake; uric; urinary; urocortin; usa; useful; uterine; uterine blood; utero; uteroplacental; uterus; vaginal; values; variables; variance; variant; variation; variety; vascular; vasculature; vasodilation; vasodilatory; vector; vegf; vegf expression; vegfr-2; vehicle; vein; velocity; venous; vesicles; vessels; viability; viable; villi; villous; viral; virgin; vitamin; vitro; vivo; volume; vwf; wall; wang; weeks; weeks gestation; weight; western; white; whitney; wide; wild; withdrawal; wks; women; work; yale; years; york; young; younger cache: cord-015394-uj7fe5y6.txt plain text: cord-015394-uj7fe5y6.txt item: #139 of 647 id: cord-015619-msicix98 author: None title: Virus Structure & Assembly date: 2009-02-24 words: 3306 flesch: 41 summary: Meshes and nanoindentation simulations are presented for several viruses: Hepatitis B, CCMV, HK97, and Phi 29. We demonstrate these methods using coarse-grained models of the assembly of icosahedral virus capsids as well as several simpler models of generic assembly chemistry. keywords: able; approach; assembly; atomic; capsid; cell; complex; conditions; connector; cov; deformation; different; dimensional; dna; dynamics; electron; energy; experimental; force; fusion; genome; helical; high; host; infection; like; long; mechanical; mechanism; membrane; meshes; methods; microscopy; model; molecular; nanofibers; non; novel; number; packaging; packing; particles; phage; polyaniline; portal; potential; properties; protein; reaction; reconstruction; sars; second; self; simulations; single; structure; surface; system; tmv; understanding; usa; viral; virus; viruses cache: cord-015619-msicix98.txt plain text: cord-015619-msicix98.txt item: #140 of 647 id: cord-015677-67md3xox author: Lang, Hans Peter title: Nanomechanical Cantilever Array Sensors date: 2010 words: 10425 flesch: 31 summary: Because of the label-free detection principle of cantilever sensors, their small size and scalability, this kind of device is advantageous for diagnostic applications and disease monitoring, as well as for genomics or proteomics purposes. The use of microcantilever arrays enables detection of several analytes simultaneously and solves the inherent problem of thermal drift often present when using single microcantilever sensors, as some of the cantilevers can be used as sensor cantilevers for detection, and other cantilevers serve as passivated reference cantilevers that do not exhibit affinity to the molecules to be detected. keywords: adsorption; affinity; air; alkanethiol; amplitude; analysis; antibody; apex; applications; array; beam; bending; biochemical; cantilever; cantilever array; cantilever deflection; cantilever sensor; cantilever surface; capacitive; chamber; changes; chemical; chip; coated; coating; constant; damping; deflections; detection; device; difference; dna; drift; dynamic; effects; eigenfrequency; electrode; environment; ethanol; expansion; fabrication; fig; flow; force; formation; free; frequency; functionalized; gas; gold; heat; high; hybridization; hydrogen; individual; label; large; layer; level; light; liquid; lower; magnetic; mass; material; measured; measurement; membrane; metal; method; microcantilever; microcantilever sensors; microfabricated; micromechanical; microscopy; mode; molecular; molecules; monitoring; monolayers; nanomechanical; operation; optical; phase; piezoelectric; piezoresistive; place; polymer; ppm; present; pressure; probe; processes; properties; protein; psd; range; reactions; readout; recognition; reference; resonance; resonance frequency; resonant; response; sample; self; sensing; sensitive; sensitivity; sensor; shift; signal; silicon; single; small; specific; stress; structures; surface; surface stress; system; technique; temperature; thermal; thickness; thin; thundat; time; tnt; upper; use; vapor cache: cord-015677-67md3xox.txt plain text: cord-015677-67md3xox.txt item: #141 of 647 id: cord-015678-9b3eazd4 author: Merzendorfer, Hans title: Chitin/Chitosan: Versatile Ecological, Industrial, and Biomedical Applications date: 2019-03-07 words: 29093 flesch: 18 summary: Further studies characterized hydroxyapatite/chitosan hybrids with additional blend materials such as montmorillonite (Katti et al. 2008) , polylactic acid ), cellulose and carboxymethyl cellulose (Liuyun et al. 2009; Jiang et al. 2013b) , gelatin (Sellgren and Ma 2012; Maji et al. 2015; Lee et al. 2017) , nylon 66 ), polygalacturonic acid (Khanna et al. 2011 , marine sponge collagen (Pallela et al. 2012) , collagen ), alginate (Jin et al. 2012; Kim et al. 2015; Liao et al. 2018) , chondroitin sulfate (Venkatesan et al. 2012a; ), hyaluronic acid (Hu et al. 2017 , fibroin (Lima et al. 2013; Ran et al. 2016; Chitosan-algal biomass composite microbeads (Sargın et al. 2016b ), a binary chitosan/silk fibroin composite (Ramya and Sudha 2013) , and cotton fibers functionalized by triethylenetetramine (TETA) and carboxymethyl chitosan form composites and hybrids for adsorption of Cu (II) from water (Niu et al. 2017) . keywords: 2017a; able; acid; acidic; activation; activities; activity; addition; adipose; adjuvant; administration; adsorbent; adsorption; agent; alcohol; alginate; alternative; amperometric; angiogenesis; anionic; antibacterial; antibodies; antigen; antimicrobial; antioxidant; antitumor; applications; approach; aqueous; articular; artificial; authors; autologous; avidin; azo; beads; beta; binding; biocompatibility; biocompatible; biodegradability; biological; biomedical; biosensor; biotin; blend; blood; blue; bone; bone regeneration; bone tissue; breast; burn; cancer; cancer cells; capacity; carbon; carboxymethyl; carboxymethyl chitosan; carcinoma; care; carriers; cartilage; cells; cellular; cellulose; certain; characteristics; characterization; chitin; chitosan; chitosan composite; chitosan derivatives; chitosan films; chitosan hydrogels; chitosan nanoparticles; chitosan scaffolds; chloride; chondrocytes; chondroitin; clinical; coated; coating; collagen; combination; combined; comparison; complex; complexes; composite; compounds; concentrations; conditions; conduits; construct; contrast; control; copolymer; copper; core; corneal; cosmetic; cotton; cross; cu(ii; culture; curcumin; cyclodextrin; cytokines; cytotoxicity; defects; degradation; dehydrogenase; delivery; dendritic; dental; dependent; derivatives; detection; determination; development; diabetic; different; differentiation; dna; doxorubicin; dressing; drug; drug delivery; dyes; edible; effective; effects; efficacy; efficient; electrochemical; electrode; electrospun; endocrine; endothelial; engineering; enhanced; environmental; enzymes; essential; et al; evaluation; expression; extracellular; fabrication; fabrics; factor; fertilizer; fibroin; films; fluorouracil; folate; food; formation; forms; formulations; free; functional; functionalized; fungal; gelatin; glucose; glutamic; glycol; gold; good; graft; grafting; gram; graphene; green; groups; growth; hair; healing; heavy; hepatitis; high; higher; human; hyaluronic; hybrid; hydrochloride; hydrogel; hydroxyapatite; immobilization; immobilized; immune; immunity; immunosensor; implantation; important; imprinted; improved; increase; induces; industry; injury; instance; kim; kinetics; large; layer; like; loaded; loading; long; loss; low; magnetic; magnetic chitosan; marrow; materials; matrices; matrix; mechanical; mechanism; medical; medicine; membranes; mesenchymal; metal; mice; microparticles; microspheres; model; modification; modified; molecular; molecule; monitoring; montmorillonite; multi; nanocomposite; nanofibers; nanoparticles; nanotubes; nasal; natural; nerve; nerve regeneration; neurotrophic; new; ngf; non; novel; npk; nucleic; number; oil; oils; oral; osteoblasts; oxidase; oxide; oxygen; packaging; pdgf; peripheral; peroxide; pesticides; pharmaceuticals; physicochemical; plant; plasmid; pollutants; poly; poly(ethylene; poly(vinyl; polyelectrolyte; polyester; polyethylene; polyglycolic; polymer; polymeric; porous; porous chitosan; positive; possible; potential; preparation; prepared; presence; prevent; process; products; proliferation; promising; properties; protection; protein; pulp; pure; purpose; rabbit; rats; reactive; recent; receptor; recyclable; regeneration; related; release; removal; repair; research; responses; responsive; results; retention; review; scaffolds; schwann; sciatic; seeded; seeds; selective; severe; shelf; significant; silica; silk; silver; similar; sirna; skin; slow; sodium; solid; soluble; solutions; specific; sponge; stability; starch; stem; stem cells; storage; strategy; strength; stromal; studies; study; subcutaneous; suggested; suitable; sulfadiazine; sulfate; surface; surgery; surgical; sustained; synthesis; system; tablets; targeting; technique; textile; therapeutic; therapy; thermal; tissue; tissue engineering; topical; transfection; transfer; treatment; trimethyl; trimethyl chitosan; tumor; type; uptake; urea; use; useful; vaccine; variety; vegetables; vitro; vivo; walled; wang; wastewater; water; wound; wound healing; yang; zhang; zinc; zno cache: cord-015678-9b3eazd4.txt plain text: cord-015678-9b3eazd4.txt item: #142 of 647 id: cord-015683-a9a82of4 author: Gupta, Varsha title: Molecular Diagnostics date: 2016-10-23 words: 4776 flesch: 49 summary: This is an alternative strategy where samples containing several proteins are arrayed on slide and probed with labeled antibodies. Traditional PCR procedure includes amplification of specifi c genes ( Fig. 9.4 ) of the microorganisms and running the product on a gel. keywords: acid; addition; alzheimer; antibodies; antibody; antigen; arrays; assay; bacterial; binding; blot; cation; cells; city; clinical; detection; development; diagnosis; different; diseases; dna; dot; early; elisa; enzyme; fig; gel; genes; genetic; high; hiv; identifi; immune; infectious; interactions; limitations; low; mabs; mass; membrane; method; molecular; monoclonal; parasitic; patients; pcr; peptides; person; presence; profi; protein; rapid; results; samples; sensitive; sensitivity; settings; single; snps; species; specifi; specifi c; technique; technology; testing; tests; time; tools; use; virus; western cache: cord-015683-a9a82of4.txt plain text: cord-015683-a9a82of4.txt item: #143 of 647 id: cord-015850-ef6svn8f author: Saitou, Naruya title: Eukaryote Genomes date: 2013-08-22 words: 7442 flesch: 48 summary: The complete nucleotide sequence of the tobacco mitochondrial genome: Comparative analysis of mitochondrial genomes in higher plants and multipartite organization Widespread horizontal transfer of mitochondrial genes in fl owering plants Determination of the melon chloroplast and mitochondrial genome sequences reveals that the largest reported mitochondrial genome in plants contains a significant amount of DNA having a nuclear origin Small, repetitive DNAs contribute signifi cantly to the expanded mitochondrial genome of cucumber The complete nucleotide sequence of the tobacco chloroplast genome: Its gene organization and expression Changes in the structure of DNA molecules and the amount of DNA per plastid during chloroplast development in maize Pattern of organization of human mitochondrial pseudogenes in the nuclear genome Why genes in pieces? Introns. As for plants, Kaplinsky [ 62 ] ) compared genome sequences of Arabidopsis, grape rice, and Brachypodium and found >100 times more abundant CNSs from monocots than dicots. keywords: acid; alu; analysis; ancestor; animal; arabidopsis; average; case; change; chap; chloroplast; chromosome; classifi; coding; common; conserved; contrast; database; determined; distribution; dna; dnas; draft; duplication; editing; elegans; elements; eukaryotes; evolution; evolutionary; example; expected; figure; functional; fungi; genes; genome; genome sequence; genome size; group; homologous; homology; hox; human; hypothesis; introns; junk; larger; length; lineage; long; major; melon; mitochondrial; molecules; mrna; multicellular; mutation; noncoding; nuclear; nucleotide; number; order; organisms; origin; paradox; plants; prokaryotes; protein; pseudogenes; rates; regions; relationship; repeats; ribosomal; rice; rna; rnas; rrna; rst; sequence; shows; similar; single; size; small; species; splicing; strand; structure; table; tandem; thaliana; time; transcribed; trna; type; value; vertebrate; viruses; yeast cache: cord-015850-ef6svn8f.txt plain text: cord-015850-ef6svn8f.txt item: #144 of 647 id: cord-015933-x5cq4k4x author: Verbrugh, H.A. title: 1 Micro-organismen, de mens en het ontstaan van infectieziekten: algemene principes date: 2011 words: 19366 flesch: 44 summary: Afhankelijk van de mate van sensibilisatie van de gastheer kunnen de huidreacties achterwege blijven, pas na enkele weken optreden, of optreden direct na een hernieuwd contact met de parasiet. De productie van kopieën van het virale genoom ten behoeve van nieuwe infectieuze partikels vindt bij DNA- virussen nagenoeg altijd plaats in de celkern (uitzondering vormen Poxviridae, waaronder variola, de verwekker van menselijke pokken) maar bij RNA-virussen bijna altijd in het cytoplasma (uitzondering: Orthomyxoviridae, waaronder influenzavirus). keywords: aan; aan de; aan een; aan het; aandoeningen; aangeboren; aangrijpingspunten; aantal; aantallen; aanvullend; aanwezig; actief; activatie; adherentie; afhankelijk; afhankelijk van; afkomstig; afweer; algemene; alle; alleen; allerlei; als; als een; als het; altijd; anaerobe; andere; anderzijds; antibiotica; antigeen; antigene; antimicrobiële; antistoffen; antivirale; aparte; archaea; arts; aspecten; aureus; bacteria; bacteriesoorten; bacteriofagen; bacteriën; bacteriën zijn; basis; begrip; behandeld; behandeling; behoren; behulp; beide; bekend; belang; belangrijkste; beloop; benadering; bepaalde; bepalen; beperkingen; beperkt; bereiken; bereikt; berust; beschikbaar; beschreven; besmettelijk; besmetting; bestaan; betekenis; betreft; betrokken; bevatten; bevolking; bezitten; bij; bij de; bij een; bij het; bij tot; bijv; bijvoorbeeld; bijzondere; binnen; binnen een; biologische; blijken; blijkt; bloedbaan; bovendien; bovengenoemde; brengen; bron; buiten; c.q; cellen; cellen van; cellulaire; celwand; chemische; chlamydia; chromosoom; chronische; coli; commensale; componenten; concentratie; contact; cytoplasma; daarom; dagen; dan; dan ook; dankzij; darm; dat; dat de; de gastheer; de infectie; de mens; de patiënt; de ziekte; deel; definitieve; dergelijke; desinfectantia; deze; deze middelen; dezelfde; diagnose; diagnostiek; die; die de; die het; dient; dieren; direct; diseases; dit; diverse; dna; door; door een; door het; dosis; drie; dus; echter; ectoparasieten; een; een andere; een bepaalde; een infectieziekte; een micro; een rol; eenmaal; eerste; effect; eigenschappen; eiwitten; elkaar; elke; en het; energie; enige; enkele; envelop; enzymen; ervan; eucarya; eukaryote; evolutie; expressie; factoren; fagocyten; fagocytose; familie; fenomeen; fenotypische; figuur; flora; foutjes; functie; fungi; gaan; gaat; gang; gastheer; gastheercel; gastheercellen; gastheren; gebaseerd; gebleken; gebracht; gebruik; gebruik van; gebruiken; gebruikgemaakt; gedurende; geen; gegeven; geheel; geheugencellen; genetische; genoemd; genoom; gericht; gesloten; geval; gevallen; gevoelige; gevoeligheid; gevolg; gevolg van; gevormde; gezien; gisten; goed; gramnegatieve; grampositieve; granulocyten; groeien; groep; grond; groot; groter; handhaven; hangt; hebben; hechten; heeft; hepatitis; het; het aantal; het lichaam; het micro; het ontstaan; het virus; hiervan; hiv; hoewel; hoger; hoofdstuk; hoofdstukken; huid; humaan; hun; immers; immuunreactie; immuunrespons; immuunsysteem; indeling; individuen; infecties; infectieziekten; influenzavirus; informatie; ingebouwd; inmiddels; innate; insecten; integronen; interactie; intracellulair; invasie; jaar; jaren; juist; kader; kan; kan worden; kans; kenmerken; klachten; klassen; klassieke; kleine; klinisch; klonen; kolonisatie; komen; komt; koorts; kort; krijgen; kristalviolet; kunnen; kunnen de; kunnen worden; kunnen zijn; laag; laatste; laboratorium; langere; leiden; leidt; levende; lichaam; ligt; lokale; luchtwegen; lymfocyten; maar; maar ook; macrofagen; maken; materiaal; mechanismen; medische; meer; meerdere; meestal; meeste; membraan; mens; menselijk; mensen; mhc; micro; microbiologie; microflora; microorganismen; middelen; milieu; minder; minuten; moet; mogelijk; moleculaire; moleculen; molecuul; mutatiefrequentie; mutaties; mycobacterium; naar; naast; natuurlijke; nauwelijks; nemen; niet; nieuwe; niveau; nodig; noemt; nog; normale; o.a; omdat; omgeving; omstandigheden; onder; onderscheid; onderzoek; ongeveer; ontbreekt; ontsnappen; ontstaan; ontstaan van; ontstekingsreactie; ook; ook bij; ook de; ook een; ook het; ook wel; oorzaak; op de; op deze; op een; op het; op van; opgenomen; oplosbare; oppervlak; optreden; optreedt; orf; organen; organismen; organismen die; organismen zijn; overdracht; overigens; overleven; paar; parasiet; pas; pathogeen; pathogene; pathogene micro; patiënt; patiënten; peptidoglycaan; personen; plaats; plasmiden; populatie; preventie; primair; principes; prionen; proces; processen; produceren; productie; protozoën; prp; prr; receptoren; recombinatie; regel; relatie; relevante; replicatie; repliceren; resistentie; resultaat; risico; rna; rol; rondwormen; route; samenstelling; schade; schimmels; secundaire; selectie; slechts; slijmvliezen; slotte; snel; sommige; soms; soort; soorten; species; specifieke; speelt; spelen; sporen; sprake; spreekt; staat; stadia; stam; steeds; sterk; strikt; structuur; stukjes; tabel; te kunnen; tegen; temperatuur; terwijl; test; therapie; tijd; tijdens; tlr; toe; toegepast; tot; tot de; tot een; toxische; tractus; transformatie; transport; treedt; tuberculose; tussen; tussen de; tussengastheer; twee; uit; uit een; uit het; uitschakelen; uitslagen; vaak; van; van bacteriën; van de; van deze; van dit; van dna; van een; van groot; van het; van hun; van infectieziekten; van mens; van micro; van pathogene; van virussen; vanuit; variatie; vast; veel; veelal; vele; veranderingen; verantwoordelijk; verband; verbindingen; verder; verlopen; vermeerdering; vermenigvuldigen; veroorzaakt; veroorzaken; verschillende; verspreiding; vertonen; vervolgens; verwante; verwekker; verworven; vinden; vindt; virale; virusdeeltjes; virusgenoom; virusinfectie; viruspartikels; virussen; voldoende; volgende; voor; voor de; voor een; voor het; vooral; voorbeelden; voordeel; voorkomen; vormen; vormen van; vrij; waarbij; waarde; waardoor; waarin; waarmee; waaronder; waarop; waarvan; wanneer; wat; water; weefsels; weer; weerstand; weinig; weken; wel; werking; werkzaam; wijze; wil; worden; worden door; wordt; wordt het; zal; zeer; zeggen; zelf; zich; zichtbaar; ziekteverschijnselen; ziekteverwekker; zijn; zijn bij; zijn de; zijn het; zijn van; zijn voor; zoals; zodanig; zodat; zogenoemde; zowel; één cache: cord-015933-x5cq4k4x.txt plain text: cord-015933-x5cq4k4x.txt item: #145 of 647 id: cord-015935-r2wd1yfa author: Sokol, Deborah K. title: The Genetics of Autism date: 2011-02-10 words: 11284 flesch: 39 summary: Advances in autism genetics: On the threshold of a new neurobiology Linkage, association, and geneexpression analyses identify CNTNAP2 as an autism-susceptibility gene Memantine lowers amyloid-beta peptide levels in neuronal cultures and in APP/PS1 transgenic mice Investigation of potential gene-gene interactions between APOE and RELN contributing to autism risk Molecular genetic basis of tuberous sclerosis complex: From bench to bedside Peripheral biomarkers in autism: Secreted amyloid precursor protein-alpha as a probable key player in early diagnosis Autism as a strongly genetic disorder: Evidence from a British twin study Molecular cytogenetic analysis and resequencing of contactin associated protein-like 2 in autism spectrum disorders Examination of potential overlap in autism and language loci on chromosomes 2, 7, and 13 in two independent samples ascertained for specific language impairment A major susceptibility locus for specific language impairment is located on 13q21 Molecular Analysis of Fragile X Syndrome Therapeutic implications of the mGluR theory of fragile X mental retardation The mGluR theory of fragile X mental retardation Fragile X-associated tremor/ataxia syndrome in sisters related to X-inactivation Subset of individuals with autism spectrum disorders and extreme macrocephaly associated with germline PTEN tumour suppressor gene mutations Mutation screening of the PTEN gene in patients with autism spectrum disorders and macrocephaly Replication of autism linkage: Finemapping peak at 17q21 An autosomal genomic screen for autism An autosomal genomic screen for autism Autistic children and their first degree relatives: Relationships between serotonin and norepinephrine levels and intelligence Autism or atypical autism in maternally but not paternally derived proximal 15q duplication Autism, a brain developmental disorder: Some new pathophysiologic and genetics findings Evidence of brain overgrowth in the first year of life in autism Unusual brain growth patterns in early life in patients with autistic disorder: An MRI study Factor analysis of restricted and repetitive behaviors in autism using the autism diagnostic interview-R Neuron, know thy neighbor Correction of fragile X syndrome in mice Mutations in the gene encoding the synaptic scaffolding protein SHANK3 are associated with autism spectrum disorders Gene expression profiles in a transgenic animal model of fragile X syndrome Autism is not associated with the fragile X syndrome Mouse neurexin-1alpha deletion causes correlated electrophysiological and behavioral changes consistent with cognitive impairments High frequency of neurexin Rather than searching for autism genes, endophenotype investigations search for smaller grouping of genes that contribute to discreet phenotypes (Losh et al., 2008) . keywords: abnormalities; abnormality; abrahams; acid; adhesion; affected; alzheimer; amino; amyloid; analysis; app; associated; association; autism; autistic; behaviors; brain; candidate; cases; cause; cell; children; chromosome; clinical; cntnap2; cnv; coding; cognitive; common; complex; conditions; control; copy; cytogenetics; deletions; development; diagnosis; different; disease; disorder; dna; duplications; entire; epilepsy; et al; evaluation; evidence; example; expression; families; family; findings; fish; fragile; function; fxs; gene; genetic; genome; genomic; geschwind; glutamate; greater; growth; high; human; identification; impairment; individuals; interest; language; large; levels; life; linkage; lintas; loci; locus; lod; losh; macrocephaly; males; mental; mglur; microarray; model; molecular; mrna; multiple; mutation; neuroligins; neuronal; neurons; new; nlgn4; nucleotide; number; pairs; pathway; patients; pennington; persico; phenotype; point; postsynaptic; present; protein; pten; rare; recent; recessive; region; replication; research; retardation; risk; rna; sclerosis; score; sequence; shank3; significant; single; sli; snp; social; specific; spectrum; splicing; state; strand; studies; study; suppressor; susceptibility; synapse; syndrome; technology; transcription; tsc; tuberous; tumor; twin; variants; variation; wide cache: cord-015935-r2wd1yfa.txt plain text: cord-015935-r2wd1yfa.txt item: #146 of 647 id: cord-015941-4fz79wzf author: Hu, Yuan title: Molecular Techniques for Blood and Blood Product Screening date: 2018-11-10 words: 7210 flesch: 47 summary: Detection of early HBV infection of blood donors is still a major problem of blood transfusion. Section two: Specific virus families Evaluation of a prototype Trypanosoma cruzi antibody assay with recombinant antigens on a fully automated chemiluminescence analyzer for blood donor screening Transfusion-transmitted malaria in countries where malaria is endemic: a review of the literature from sub-Saharan Africa Detection and species identification of malaria parasites by isothermal tHDA amplification directly from human blood without sample preparation 18 years of research and surveillance Prions: beyond a single protein Crerutzfeldt-Jakob disease and blood transfusion: updated results of the UK transfusion medicine epidemiology review study Detection of prion infection in variant Creutzfeldt-Jakob disease: a blood-based assay Preclinical detection of variant CJD and BSE prions in blood Quantitative assessment of prion infectivity in tissues and body fluids by real-time quaking-induced conversion Analytical and clinical performance of the CDC real time RT-PCR assay for detection and typing of dengue virus Threat of dengue to blood safety in dengueendemic countries Comparison of a commercial IgM capture ELISA with dengue antigen focus reduction microneutralization test and the centers for disease control dengue IgM capture-ELISA PCR detection of nearly any dengue virus strain using a highly sensitive primer cocktail Do babesiosis and malaria share a common disease process? Babesia: a world emerging Babesia infection through blood transfusions: reports received by the US Food and Drug Administration Transfusion-transmitted Babesia spp.: keywords: acid; agents; amplification; amplifying; antibodies; antibody; antigens; assay; available; babesia; babesiosis; blood; cases; cause; cell; chagas; chronic; clinical; cmv; commercial; confirmatory; cruzi; current; dengue; detection; diagnosis; disease; dna; donors; early; elisa; field; genetic; hbsag; hbv; hcv; hepatitis; high; hiv; htlv; human; important; infected; infection; liver; malaria; methods; microarray; molecular; nat; need; negative; new; non; nucleic; patients; pcr; people; period; polymerase; positive; potential; products; quantitative; reaction; real; recent; risk; rna; safety; sars; screening; sensitive; sensitivity; sequence; serologic; serum; specific; states; supply; techniques; technologies; technology; testing; tests; time; transfusion; transmission; ttv; united; viral; virus; viruses; weeks; window; wnv; years cache: cord-015941-4fz79wzf.txt plain text: cord-015941-4fz79wzf.txt item: #147 of 647 id: cord-015946-biu5zxd1 author: Peng, Daizhi title: Research Advances in Biomarker for Sepsis date: 2016-11-16 words: 5102 flesch: 32 summary: [71] found that miR-150 levels were significantly reduced in both leukocytes and plasma of sepsis patients and had a negative correlation with the level of disease severity measured by the Sequential Organ Failure Assessment (SOFA) score, which made it a biomarker of early sepsis. [72, 73] investigated the levels of miR-150 and miR-143 in peripheral blood leukocytes in sepsis patients with RT-PCR, and found that the expression levels of miR-150 and miR-143 were significantly decreased in sepsis patients and could reflect the severity of sepsis in certain degree, which not only made it a marker to reflect the situation of inflammatory response, but also made it a prognostic marker in sepsis. keywords: acute; analysis; application; associated; association; bacterial; better; biomarkers; blood; cd14; cell; changes; clinical; combination; crp; detection; development; diagnosis; disease; dna; early; epigenetic; expression; factors; gene; group; high; host; ill; immune; infection; inflammation; inflammatory; injury; leukocytes; levels; mass; methylation; micrornas; mirna; model; molecular; mortality; multiple; ndna; new; non; novel; organ; outcome; patients; pcr; pct; plasma; polymorphisms; post; potential; prognosis; protein; proteomics; receptor; research; response; review; risk; role; sensitivity; sepsis; septic; serum; severe; severity; shock; single; snp; soluble; specificity; stage; studies; study; survival; susceptibility; test; time; tnf; trauma; wide cache: cord-015946-biu5zxd1.txt plain text: cord-015946-biu5zxd1.txt item: #148 of 647 id: cord-016041-427mbaqc author: Hengge, Ulrich R. title: Gentherapie date: 2008 words: 7333 flesch: 34 summary: gemeinsam von der Deutschen Gesellschaft für Die Transduktionsraten von DC und die Expressionsdauer wurden in Abhängigkeit vom verwendeten Vektor untersucht. keywords: 2004; aav; abb; abina; ada; adeno; adenoviral; administration; advanced; aktivierung; aktivität; alle; als; antigen; antworten; anwendung; applikation; auch; auf; auftreten; aus; behandlung; bei; bei der; beispiel; besitzen; besteht; bey; bis; boost; bzw; canarypox; cancer; cd4; cd8; cells; clinical; ctl; dann; dar; darüber; das; dass; delivery; dem; dendritic; der; des; die; diese; direkt; dna; drei; durch; durchgeführt; ebenfalls; eine; eingesetzt; elektroporation; emmlv; entsprechende; entwickelt; erfolgreich; erreichen; erste; et al; expression; exprimieren; faktor; fand; findet; form; frage; fähigkeit; führen; führte; für; ganciclovir; gegen; gegensatz; gegenüber; gene; gene therapy; genom; gentherapie; gentherapiestudien; gentransfer; gewünschten; ggf; große; haben; hairpin; hat; haut; hengge; hengge et; herpes; herstellung; hierbei; hierdurch; hierzu; hinaus; hiv; hiv-1; hohe; hsv; human; humanen; il-12; immunantwort; immundefizienz; immune; immunodeficiency; immunreaktionen; imstande; indem; induktion; inhibition; injektion; injiziert; innerhalb; intratumoral; ist; jahre; jedoch; kann; keratinozyten; klassischen; klinische; kodierte; komplette; konnten; konzept; können; kürzlich; langzeitexpression; lassen; lentiviral; liu; long; lymphozyten; lässt; mda-7; mehr; meisten; melanoma; melanomen; methode; mhc; mice; mit; mittels; mittlerweile; modell; munoz; murine; muul; nach; nackter; naked; neben; nicht; nichtvirale; nukleinsäuren; nur; oder; ohne; onkolytische; organismus; p53; packaging; patienten; patients; peptid; phase; plasmid; positive; prime; problem; promotoren; protein; recombinant; regression; remission; replication; responses; retroviralen; rezeptor; ribozyme; rna; scid; selektiv; serotypen; severe; sich; sie; sind; sirna; skin; sog; solche; sowie; sowohl; specific; stabile; stellt; strategie; studien; syndrome; system; tab; tage; targeting; therapeutische; therapy; transduktion; transduzieren; transfer; transferiert; transgen; treatment; trial; tumor; tumoren; tumorregression; tumorzellen; type; und; unter; untersucht; vaccination; vaccine; vakzinierung; vectors; vektoren; verfolgt; vermehrung; verschiedene; verwendet; viren; virus; vivo; von; vor; war; waren; weise; wenige; wenn; werden; wie; wird; wurde; während; z. b.; zeigte; zellen; zelluläre; zielgewebe; zielzellen; zum; zur; zwar cache: cord-016041-427mbaqc.txt plain text: cord-016041-427mbaqc.txt item: #149 of 647 id: cord-016095-jop2rx61 author: Vignais, Pierre V. title: Challenges for Experimentation on Living Beings at the Dawn of the 21(st) Century date: 2010-06-08 words: 42858 flesch: 42 summary: Nevertheless, research on such cells is mandatory if we wish to move on to a regenerative medicine that aims to be a new frontier in the art of healing. In Man, such cells could be directed by differentiation towards stable cell lines creating well-defined tissues and organs (liver, muscle…) that could be used in regenerative medicine. keywords: 1980s; able; absence; account; acids; active; activities; activity; addition; adenine; adult; aim; aims; american; amino; analysis; animal; antibiotic; applications; applied; approach; appropriate; article; artificial; assembly; atp; atpase; authorities; babies; bacterial; bacterium; base; basis; beginning; behavior; beings; bioethics; biological; biology; birth; blastocyst; blood; bone; brain; cancer; capable; case; catalytic; cells; century; certain; chain; challenge; change; chapter; chemical; chemistry; chip; choice; chromosomes; classical; cleavage; cloning; code; coding; cognitive; companies; complementary; complex; computer; concept; considerable; contact; contemporary; context; control; corresponding; countries; creation; culture; current; cytosine; data; debate; decades; developed; development; dialogue; different; differentiation; discoveries; discovery; diseases; dna; domain; double; dozen; drug; effect; efficacy; egg; electrical; embryo; embryonic; end; endocellular; ends; engineering; enucleated; enzyme; es cells; ethical; eukaryotic; evolution; example; existence; experimental; experimental method; experimentation; exploration; expression; eye; fact; factors; far; figure; find; fluorescent; fly; following; foreign; fragments; france; function; functioning; fundamental; future; gene; genetic; genome; gmos; good; graft; great; group; growth; guanine; half; hand; health; helix; hemoglobin; hereditary; high; history; hope; hormone; host; human; hybridization; idea; identical; illnesses; imagination; imaging; immune; impact; indispensable; individual; infectious; information; inheritance; inside; integrated; interaction; interest; isolated; isolation; knowledge; laboratories; large; later; level; life; like; line; living; location; long; longer; major; mammals; manipulation; manner; manufacture; marrow; mass; material; mathematical; meaning; means; mechanisms; media; medicine; medium; membrane; messenger; metabolic; method; mice; microbial; middle; mind; mitochondrial; model; modeling; modern; modifications; molecular; molecules; motor; mouse; movement; mutation; national; natural; nature; necessary; nerve; networks; neurons; new; non; normal; nuclei; nucleotide; nucleus; number; object; oocyte; operation; order; organisms; organs; origin; parameters; parkinson; particular; past; patent; patients; people; peptides; performance; period; phosphate; place; plant; plasmid; point; political; possible; potential; power; presence; present; principle; probes; problems; procedures; process; processes; production; products; progress; proliferation; proteins; public; publication; purpose; questions; reactions; reason; receptor; regulation; rejection; replication; reproductive; research; researchers; respect; response; responsible; restriction; results; reverse; right; rise; risk; rnas; robot; role; rotational; scale; science; scientific; screening; sector; self; sequence; sequencing; set; short; simple; single; site; small; society; solid; somatic; species; specific; specificity; spread; state; stem; stem cells; step; strands; structure; studies; study; subject; substances; subunits; success; suffering; synthase; synthesis; synthetic; system; target; teaching; team; technical; techniques; technology; term; th century; thanks; theory; therapeutic; therapy; thought; thousands; throughput; time; tissue; today; transcription; transfer; transgenesis; type; understanding; university; use; useful; utilitarian; view; viral; virus; way; work; world; writing; years; yeast; zones cache: cord-016095-jop2rx61.txt plain text: cord-016095-jop2rx61.txt item: #150 of 647 id: cord-016144-280kwlev author: Maan, Sushila title: Novel Molecular Diagnostics and Therapeutic Tools for Livestock Diseases date: 2018-04-26 words: 6527 flesch: 39 summary: In multiplex PCR the design of various primer pairs is crucial so that they complementarily anneal to specific DNA sequences at more or less similar temperatures, i.e. annealing temperature should be the same for different primer pairs used in combination. This is to avoid false positive results from contaminating DNA from previous PCR reactions (Raoult et al. 2000) . keywords: acid; amplification; amplified; analysis; animal; annealing; applications; aptamers; assay; asymmetric; bovine; cdna; chain; complementary; contamination; data; detection; development; diagnosis; different; disease; dna; end; enzyme; et al; exponential; expression; field; gene; genome; health; high; human; identification; important; infectious; initial; isothermal; lamp; linear; loop; method; molecular; molecule; multiplex; need; new; nucleic; number; pairs; pathogens; pcr; polymerase; present; primer; probe; process; product; proteins; proteomics; quantification; quantitative; rapid; reaction; real; recent; reverse; rna; samples; second; sensitive; sensitivity; sequence; sequencing; set; signal; single; specific; specificity; step; strand; synthesis; system; target; tas; technique; technologies; technology; temperature; template; throughput; time; tools; transcription; type; use; uses; veterinary; viral; virus; viruses cache: cord-016144-280kwlev.txt plain text: cord-016144-280kwlev.txt item: #151 of 647 id: cord-016187-58rqc0cg author: Opal, S. M. title: The Challenge of Emerging Infections and Progressive Antibiotic Resistance date: 2006 words: 6625 flesch: 35 summary: These extrachromosomal DNA elements provide ready access to disposable yet potentially highly advantageous genes including antibiotic resistance genes from plasmids or phage particles. Antibiotic resistance genes probably arose from detoxifying enzymes or synthetic enzymes with altered substrate specifi city by critical mutations or recombination events resulting in the formation of mosaic genes with entirely new functions [30] . keywords: active; activity; aeruginosa; affi; agents; altered; aminoglycosides; antibiotic; antibiotic resistance; antimicrobial; aureus; bacteria; beta; binding; capacity; cases; cell; change; chromosome; clinical; coli; common; development; different; dna; drugs; effi; effl; elements; environmental; enzymes; events; evolution; future; genes; genetic; gram; human; infections; infl; insertion; integrons; isolates; lactam; lactamase; large; level; loss; mechanism; membrane; microorganisms; molecular; molecules; multidrug; multiple; mutations; negative; new; nity; non; number; organisms; outbreak; outer; pathogens; patients; penicillin; peptidoglycan; plasmids; populations; positive; production; proteins; rate; recent; recombination; related; resistance; resistance genes; ribosomal; ribosome; risk; sequences; single; site; species; specifi; spectrum; spread; staphylococcus; strains; synthesis; system; target; tetracycline; transposons; trimethoprim; uenza; use; vancomycin; variety; virus; viruses; wall cache: cord-016187-58rqc0cg.txt plain text: cord-016187-58rqc0cg.txt item: #152 of 647 id: cord-016293-pyb00pt5 author: Newell-McGloughlin, Martina title: The flowering of the age of Biotechnology 1990–2000 date: 2006 words: 22413 flesch: 45 summary: These DNA chips have broad commercial applications and are now used in many areas of basic and clinical research including the detection of drug resistance mutations in infectious organisms, direct DNA sequence comparison of large segments of the human genome, the monitoring of multiple human genes for disease associated mutations, the quantitative and parallel measurement of mRNA expression for thousands of human genes, and the physical and genetic mapping of genomes. Of course for such a radical approach certain basal level criteria needed to be established for selecting disease candidates for human gene therapy. keywords: ability; access; activity; ada; addition; adult; affymetrix; algorithm; alignment; analysis; animal; applications; approach; approval; aquaculture; areas; array; available; basic; benefits; bioinformatics; biological; biology; biotechnology; blood; body; brain; broad; california; calves; cancer; capillary; cause; cells; century; cheese; chemistry; chip; chromosome; clinical; clinton; cloned; cloning; coding; collaboration; colleagues; collins; commercial; common; companies; company; complete; complex; computer; countries; course; crops; current; cystic; data; database; david; day; decade; design; development; different; differentiated; director; discovery; disease; disorders; dna; dna sequence; document; draft; drug; early; effective; efficient; effort; embryonic; embryos; end; entire; enzymes; established; ests; ethical; europe; example; experiment; expression; factor; fda; fetal; fibrosis; field; fish; focus; fodor; following; food; french; function; gene; gene expression; gene therapy; gene transfer; generation; genetic; genome; genome project; genome sequence; genomics; gilead; global; goal; group; growth; health; herman; hgp; hgs; high; history; hiv; human; human disease; human genome; immune; important; inc; incyte; individual; industrial; influenza; information; initial; institute; interest; international; issues; james; key; knowledge; laboratory; large; later; leukemia; level; life; like; limited; line; long; machine; major; making; mammalian; management; mapping; market; medical; medicine; method; mice; microbes; milk; model; molecular; multiple; nature; necessary; need; neuraminidase; new; nih; nineties; non; novel; november; nuclear; nuclei; nucleotide; nucleus; number; organisms; particular; patent; patenting; patients; people; perlegen; perspective; pharmaceuticals; physical; plant; play; population; possible; potential; president; primary; principal; process; production; products; program; project; promise; protein; public; rapid; recombinant; regulatory; related; replication; research; researchers; resistant; results; ribozymes; rna; role; run; safety; scale; science; scientific; scientists; second; sequence; sequencing; set; sheep; significant; similar; single; small; snps; sources; species; specific; stage; stem cells; strains; structure; studies; study; successful; surface; system; tamiflu; target; team; techniques; technologies; technology; term; therapeutics; therapy; thousands; throughput; tigr; time; tissue; tools; traditional; transfer; transgenic; treatment; trials; types; u.s; understanding; unique; university; use; vaccines; valuable; variants; variety; venter; viral; virus; viruses; vitamin; way; work; world; year; yeast cache: cord-016293-pyb00pt5.txt plain text: cord-016293-pyb00pt5.txt item: #153 of 647 id: cord-016304-uusmg786 author: Lemuth, Karin title: Microarrays as Research Tools and Diagnostic Devices date: 2015-03-11 words: 8587 flesch: 35 summary: In parallel to the completion of the first genomic sequences, DNA microarray technology has been developed as mentioned above. The biological interaction of molecules, e.g., the interaction of complementary bases of nucleic acids, antibody-antigen interactions, or the interaction of carbohydrates with lectins, represents the basic principle of microarray technology. keywords: acid; addition; agilent; amplification; analysis; applications; approaches; arrays; assay; available; bacteria; base; basic; beads; binding; biological; breast; cancer; capture; cerevisiae; chip; clinical; code; company; complementary; complete; complex; contamination; cy3; data; detection; development; devices; diagnostics; different; diseases; dna; dna microarray; draft; early; et al; example; exome; expression; fda; field; gene; generation; genetic; genome; genomic; genotyping; high; human; hybridization; identification; illumina; individual; infections; interaction; labeling; liat; loc; major; markers; mature; methods; microarray; microbial; microrna; mirna; molecular; molecules; multiplex; ngs; novel; nucleic; oligonucleotides; organisms; overview; parallel; pathogens; patients; pcr; platform; preparation; probes; process; processing; product; profiling; project; proteins; reaction; readout; research; resistance; respiratory; results; review; risk; rna; sample; sequence; sequencing; set; single; small; solid; species; specific; steps; strand; system; targets; technologies; technology; tests; throughput; time; today; tools; transcriptional; tube; types; use; variants; viral; virochip; viruses; way; wide; years; zip cache: cord-016304-uusmg786.txt plain text: cord-016304-uusmg786.txt item: #154 of 647 id: cord-016309-6mw8okmt author: Bule, Mohammed title: Antivirals: Past, Present and Future date: 2019-06-06 words: 8230 flesch: 27 summary: Therefore, the major concern in antiviral drug development is the identification of specific targets with increased selectivity and reduced side effects, which limit the therapeutic use of antiviral drugs in comparison to antibacterial agents (Dal Pozzo and Thiry 2014) . Antiviral drugs not just penetrate to disrupt the virus’ cellular divisions but also have a negative impact on normal physiological pathways in the host. keywords: acid; action; active; activities; activity; acyclovir; administration; agents; analogues; animals; antibacterial; antibodies; antibody; antiviral; antiviral activity; antiviral agents; antiviral drugs; approach; arildone; benzimidazole; biological; bovine; capsid; cats; cells; cellular; chemotherapy; clinical; combination; compounds; concentrations; control; current; damage; dependent; derivatives; design; development; discovery; diseases; dna; dose; drug; ebola; effective; effects; efficacy; enzyme; equine; et al; famciclovir; fda; feline; fever; fig; fiv; hepatitis; herbal; herpes; herpesvirus; high; hiv; host; human; identification; idoxuridine; ifn; immunodeficiency; infected; infection; inhibition; inhibitors; interest; interferon; livestock; medicine; monoclonal; natural; new; non; novel; nucleoside; number; ocular; omega; oral; paa; papich; penciclovir; phosphonoacetic; phosphorylation; poliovirus; polymerase; potential; production; products; properties; protein; recombinant; replication; repurposing; reverse; ribavirin; rna; screening; screens; simplex; species; specific; structure; studies; sykes; synthesis; target; therapeutic; therapies; therapy; treatment; trifluridine; triphosphate; type; veterinary; virion; virus; virus infection; viruses; vitro; zika cache: cord-016309-6mw8okmt.txt plain text: cord-016309-6mw8okmt.txt item: #155 of 647 id: cord-016313-n4ewq0pt author: Baranyi, Lajos title: Advances in Lentiviral Vector-based Cell Therapy with Mesenchymal Stem Cells date: 2012-09-27 words: 20593 flesch: 29 summary: However, much more needs to be known about the normal differentiation and functioning of the airway's basal cells and the differentiation and lineages of stem cells to have more ef fi cient treatment options both for gene therapy and for stem cell therapy [ 207 ] . Alas, the dif fi culties in research are faithfully re fl ected in the confusion in the nomenclature used for describing and classifying stem cells, including the classes of stem cells of mesodermal origin. keywords: ability; accumulation; activation; addition; adipose; adult; advances; aging; alpha; alzheimer; ammation; ammatory; amyloid; anti; applications; approach; arti; arti fi; associated; attempts; autologous; available; bene; beta; beta cells; binding; blood; bone; brain; brosis; cancer; cancer stem; capable; capacity; cardiac; ccr5; cell therapy; cell types; cerebral; changes; characteristics; chronic; cial; ciency; cient; ciently; clinical; colleagues; combined; complex; conditions; control; cord; culture; data; days; delivery; dental; dependent; development; diabetes; differentiation; direct; disease; disorders; dna; dystrophin; ef fi; effects; efforts; eld; element; encoding; endothelial; endothelial cells; engineering; envelope; enzyme; epithelial; expression; factor; fi c; fi cial; fi ciency; fi cient; fi nger; formation; functional; future; gal; gene; gene expression; gene therapy; gene transfer; gfp; green; growth; healing; hematopoietic; high; higher; hiv; human; hypoxia; identi; immunode; immunode fi; important; improved; increase; induced; inducible; injection; injury; insulin; integration; interventions; ischemia; knockdown; lack; large; lentivector; lentiviral; lentiviral vector; levels; limited; lineage; lines; long; low; ltr; lung; lysosomal; major; markers; marrow; mesenchymal; mesenchymal cells; mesenchymal stem; methods; mice; microenvironment; mirna; mitochondrial; model; modi; modi fi; mouse; mscs; multipotent; murine; muscle; neural; neuronal; neurons; new; nger; nhe1; normal; novel; nucleases; number; observed; osteogenic; packaging; pancreas; pancreatic; parkinson; pathway; patients; patterns; phase; phenotype; pluripotent; pluripotent stem; porcine; possible; potential; primary; process; progenitor; progenitor cells; progeria; progress; proliferation; promising; promoter; properties; protein; pseudotypes; range; rapid; rat; rats; recent; recombinant; reduction; regeneration; regulated; regulatory; repair; reperfusion; reprogramming; research; respiratory; results; retroviral; review; rna; role; safety; scaffolds; scid; self; severe; shrna; signaling; signi; signi fi; similar; site; skin; speci fi; spinal; stem cells; stroke; stromal; stromal cells; studies; study; successful; survival; syndrome; system; targeted; targeting; targets; technology; therapeutic; therapies; therapy; tissue; transcription; transduced; transduction; transfer; transgenic; transplantation; transplanted; treatment; trials; tropism; tumor; types; umbilical; uorescent; use; vascular; vectors; vegf; virus; vitro; vivo; wide; wound; zinc cache: cord-016313-n4ewq0pt.txt plain text: cord-016313-n4ewq0pt.txt item: #156 of 647 id: cord-016417-3cwwmyv9 author: Sluijter, J. P. G. title: Quantitative Real-Time PCR date: 2006 words: 3111 flesch: 49 summary: PCR amplification of your target DNA will increase the number of probes that hybridize with the complementary template. It is characterized by the point during amplification when the accumulation of PCR product is first detected rather than the amount of PCR product accumulated after a fixed number of cycles. keywords: amplification; analysis; assay; complementary; curve; cycle; different; dna; expression; extension; fluorescent; fluorescent signal; haptoglobin; hybridization; increase; levels; molecular; molecule; mrna; pcr; phase; point; polymerase; probe; product; quantification; quantitative; quencher; reaction; real; reporter; sequence; signal; single; specific; standard; target; technique; template; time; time pcr; use cache: cord-016417-3cwwmyv9.txt plain text: cord-016417-3cwwmyv9.txt item: #157 of 647 id: cord-016588-f8uvhstb author: Sintchenko, Vitali title: Informatics for Infectious Disease Research and Control date: 2009-10-03 words: 8187 flesch: 25 summary: These tools use either a statistical approach, in which the inferred model and prediction are 1 Informatics for Infectious Disease Research and Control treated as regression problems, or machine learning algorithms, in which the model is addressed as a classification problem (Sintchenko et al. 2008a) . ualberta.ca/basys/cgi/submit.pl) also support comparative analysis and the automated annotation of bacterial genomic (chromosomal and plasmid) sequences (Van Domselaar et al. 2005) . keywords: algorithms; analysis; annotation; antibiotic; antimicrobial; approach; assembly; bacterial; barcode; bioinformatics; biological; biomedical; clinical; coding; community; comparative; comparison; computational; control; data; databases; decision; detection; development; diagnostic; different; discovery; disease; diversity; dna; drug; dynamic; et al; example; experimental; factors; field; functional; gene; genetic; genome; genomic; global; health; high; host; human; identification; infectious; infectious disease; informatics; institute; integration; interactions; knowledge; large; learning; length; level; life; lisacek; machine; management; metabolic; methods; microbial; microorganisms; mining; models; molecular; multiple; networks; new; nucleotide; number; open; order; outcomes; particular; pathogen; pathways; patient; phenotypic; post; potential; prediction; prescribing; present; profiles; project; protein; public; quality; range; rapid; recent; reference; related; research; resistance; resources; scale; science; sequence; sequencing; set; sets; silico; single; software; solutions; species; specific; strains; studies; support; surveillance; systems; targets; task; technologies; technology; therapy; time; tools; traditional; treatment; tuberculosis; understanding; unique; use; variation; view; viral; virulence; virus; way; web; wide; world cache: cord-016588-f8uvhstb.txt plain text: cord-016588-f8uvhstb.txt item: #158 of 647 id: cord-016628-ljzsg9up author: Bajpai, Bhakti title: High Capacity Vectors date: 2013-10-22 words: 4075 flesch: 48 summary: key: cord-016628-ljzsg9up authors: Bajpai, Bhakti title: High Capacity Vectors date: 2013-10-22 journal: Advances in Biotechnology DOI: 10.1007/978-81-322-1554-7_1 sha: doc_id: 16628 cord_uid: ljzsg9up Since the construction of the first generation of general cloning vectors in the early 1970s, a large number of cloning vectors have been developed. A wide variety of natural replicons exhibit the properties that allow them to act as cloning vectors, however, vectors may also be designed to possess certain minimum qualification to function as an efficient agent for transfer, maintenance, and amplification of target DNA. keywords: approach; artificial; bacs; bacterial; capacity; cell; chromosome; circular; cloning; coli; copies; copy; cosmid; dna; foreign; fragments; gene; genome; genomic; hac; hacs; high; host; human; insert; large; linear; low; molecule; multiple; number; origin; pacs; phage; plasmid; recombination; red; replication; restriction; sequence; single; site; size; stable; system; tel; types; vector; virus; viruses; yac; yacs; yeast cache: cord-016628-ljzsg9up.txt plain text: cord-016628-ljzsg9up.txt item: #159 of 647 id: cord-016713-pw4f8asc author: Goyal, Amit K. title: Nanotechnological Approaches for Genetic Immunization date: 2013-05-24 words: 16058 flesch: 23 summary: Similarly, copolymers of a hydrophilic poly(ethylene glycol) block and a cationic poly(aminoethyl methacrylate) (PAEM) block have been used for DNA vaccine delivery. However, there are several associated concerns for the use of polymers as vaccines delivery systems such as toxicity, irritancy, allergenicity, and biodegradability. keywords: acid; active; activity; addition; adjuvant; adjuvanticity; administration; advantages; agents; aluminum; amphiphilic; anionic; antibodies; antibody; antigen; antigenic; apcs; application; approaches; aqueous; archaeosomes; bacterial; balb; better; biodegradable; biological; block; cancer; carrier; cationic; cells; cellular; challenge; chemical; chitosan; cholesterol; class; clinical; cmv; coated; complexes; components; compounds; conventional; copolymer; ctl; cui; cytokines; cytotoxic; degradation; delivery; delivery systems; dendrimers; dendritic; dendrosomes; dependent; design; developed; development; different; diseases; dna; dna delivery; dna vaccines; dope; drug; early; effective; effects; efficacy; efficiency; electroporation; emulsion; encoding; enhancement; epitopes; et al; expression; factor; fig; formulation; freund; gene; gene delivery; generation; genetic; genome; glycol; gun; hbsag; hepatitis; herpes; high; higher; hiv-1; host; human; humoral; hydrophobic; immune; immune responses; immunity; immunization; immunogenicity; immunoliposomes; immunological; immunostimulatory; important; improved; incorporation; increase; induction; infectious; influenza; injection; intramuscular; intranasal; iscom; large; levels; ligand; like; limited; lipid; lipoplexes; liposomal; liposomes; local; low; major; map; materials; mechanical; mechanisms; method; mhc; mice; microspheres; molecular; molecules; mouse; mucoadhesive; mucosal; multiple; muscle; naked; nanoparticles; nanotechnology; nasal; natural; new; non; nonviral; novel; nucleic; ocular; oil; oral; parenteral; particulate; peg; pegylated; peptide; phosphate; plasmid; plasmid dna; plga; polymeric; polymers; polymersomes; potential; presence; promoter; properties; protection; protein; receptor; recombinant; release; respiratory; responses; results; rna; role; route; safe; safety; sensitive; significant; similar; simplex; site; size; skin; small; soluble; specific; stability; stable; strong; structure; studies; surface; synthetic; systemic; systems; targeted; targeting; th1; therapeutic; therapy; tissue; topical; toxicity; toxoid; transfection; transfer; transport; trials; tumor; type; unique; uptake; use; vaccination; vaccine; vaccine delivery; vaginal; variety; vectors; vesicles; viral; virosomes; virus; viruses; vitro; vivo; water; weight cache: cord-016713-pw4f8asc.txt plain text: cord-016713-pw4f8asc.txt item: #160 of 647 id: cord-016751-g46gs087 author: None title: DNA, RNA und IHRE Amplifikation date: 2009-12-24 words: 3449 flesch: 54 summary: Aus ihnen wiederum entstanden zwei wichtige Haplogruppen, die schließlich den Rest der Welt besiedelten. Die Bindung von Proteinen an die DNA erfolgt daher meist an der großen Furche. keywords: abb; aber; abstammungslinie; adenin; afrika; ahnen; allen; als; auch; auf; aus; außerhalb; basen; bausteine; bei; beiden; bezeichnet; bis; charakterisiert; cytosin; dabei; dann; das; dass; daten; dazu; dem; den; der; der dna; deren; des; desoxyribose; die; diese; dna; doppelhelix; drei; durch; eine; eingebaut; ende; entstanden; entsteht; ersten; etwa; findet; fragmente; frau; furche; für; gekennzeichnet; gel; genetische; genome; geschichte; großen; gruppen; guanin; haben; haplogruppe; hat; heute; hier; human; ihre; individuen; innerhalb; ist; jahren; jeder; jedoch; kann; klima; können; lebenden; man; mann; marker; menschen; menschlichen; mit; mitochondrialen; mittelmeergebiet; mittleren; modernen; mtdna_claire_ma; mtdna_crs; muss; mutation; nach; nachkommen; nicht; noch; norden; nucleotide; nur; oben; oder; osten; phosphatrest; polymerase; project; rna; sahara; schließlich; sehr; sein; sequenz; sich; sie; siehe; sind; stammbaum; südlich; thymin; träger; und; unterschiedliche; vielleicht; vier; vom; von; vor; vorfahren; wahrscheinlich; wanderung; war; wasserstoffbrücken; watson; weiter; welt; werden; wie; wird; wurde; während; wüste; zucker; zum; zur; zwar; zwei; zwischen; über cache: cord-016751-g46gs087.txt plain text: cord-016751-g46gs087.txt item: #161 of 647 id: cord-016808-gy8d8285 author: Agol, Vadim I. title: The Origin and Evolution of Viruses date: 2008 words: 3257 flesch: 39 summary: The frequency of mutations in DNA viruses may be several orders of magnitude lower than in RNA viruses, whose replicative enzyme, the RNA-dependent RNA polymerase, lacks proof-reading activity. On the other hand, a very significant proportion of the cellular genetic material has evolutionary relatedness to the genetic composition of the ancient world of RNA viruses. keywords: adaptation; animal; avian; cells; cellular; common; decrease; dependent; different; dna; elements; evolution; evolutionary; fitness; fold; genes; genetic; genome; hand; host; human; infections; influenza; koonin; life; major; mechanisms; molecular; mutations; new; nucleotide; organisms; origin; pathogenic; point; poliovirus; population; protein; rabbits; recombination; replication; resistance; result; rna; severe; single; species; specific; transcription; transmission; type; variants; viral; viruses; world cache: cord-016808-gy8d8285.txt plain text: cord-016808-gy8d8285.txt item: #162 of 647 id: cord-017137-6pmts7ui author: Nema, Vijay title: Microbial Forensics: Beyond a Fascination date: 2018-07-12 words: 4464 flesch: 38 summary: Legal investigations are not only the field where microbial forensic could help. Agriculture, defense, public health, tourism, etc. are the fields wherein microbial forensics with different names based on the fields are helping out and have potential to further support other fields. keywords: agriculture; analysis; bacterial; biological; bioterrorism; body; cases; cells; communities; crime; culture; death; detection; different; dna; environment; evidence; field; fingerprinting; fingerprints; food; forensics; gene; health; human; identification; important; individuals; investigations; legal; material; methods; microbes; microbial; microbial forensics; microbiology; microbiome; microorganisms; molecular; needs; new; objects; ones; outbreak; pathogens; population; potential; recent; related; resistance; role; samples; scene; science; scientific; sequencing; skin; source; specific; study; surfaces; system; technique; technology; time; transmission; unique; use; workers cache: cord-017137-6pmts7ui.txt plain text: cord-017137-6pmts7ui.txt item: #163 of 647 id: cord-017156-ximzvqbm author: Forsdyke, Donald R. title: Chargaff’s GC rule date: 2010-05-18 words: 9183 flesch: 51 summary: This was a homostabilizing propensity allowing a gene to maintain a distinct (G+C)%, relatively uniform along its length , which would differentiate it from other genes in the same genome [38) . A species can be defined as a unit of recombination (or rather, of antirecombination with respect to other species). keywords: acid; amino; bacteria; barrier; base; case; cell; chapter; chromosomes; codon; common; composition; content; conversion; copies; copy; crick; dependent; differences; differentiation; distinct; divergence; dna; duplex; duplicate; early; environment; evolution; factors; fig; form; free; function; fundamental; g+c)%; gene; general; genic; genomes; genomic; group; high; homology; host; hybrid; importance; incipient; individual; information; interactions; isochores; isolated; isolation; kissing; likely; loop; main; main species; major; maternal; meiosis; meiotic; members; model; molecules; multicopy; mutations; natural; new; non; nucleic; offspring; organisms; pairing; particular; phenotypic; potential; process; proteins; quantities; recombination; region; reproductive; result; retroviruses; role; search; second; secondary; segment; selection; sequence; similar; single; small; speciation; species; stem; strains; strands; structures; sufficient; temperature; uniform; values; variations; virus; watson; window cache: cord-017156-ximzvqbm.txt plain text: cord-017156-ximzvqbm.txt item: #164 of 647 id: cord-017188-d3xg05ty author: Swartz, H.M. title: Free Radicals and Medicine date: 2005 words: 15612 flesch: 35 summary: It is interesting to note that G·C T·A transversions occur frequently as mutations of the p53 tumor suppressor gene in human lung‚ breast‚ and liver cancers (e.g. Hollstein et al.‚ 1991) . The same signal was observed after instillation of either a mixture of vanadium‚ nickel‚ and iron sulfates or alone‚ metals which are prevalent in oil fly ash. keywords: ability; acid; activity; acute; addition; adduct; agents; aging; amounts; anion; antioxidant; apoptosis; approaches; aspects; azulenyl; basis; bicarbonate; biological; breast; cancer; cause; cells; chapter; characterization; chemistry; cloning; coli; complex; compounds; concentration; conditions; damage; data; defense; dependent; depmpo; detection; development; different; direct; disease; dismutase; dmpo; dna; dopamine; drugs; effects; electron; enzyme; epr; escherichia; esr; et al; evidence; experimental; exposure; eye; factor; fals; figure; formation; free; free radicals; function; generation; genes; genetic; glycosylase; hemoglobin; high; higher; hogg1; human; hydrogen; hydroxyl; hypothesis; important; increased; induced; inflammatory; injury; instability; intermediates; iron; large; levels; light; likely; line; lipid; liver; long; lps; lung; macular; malins; mammalian; mason; measurements; mechanism; medicine; melanin; melanosomes; metal; mice; model; molecular; molecules; mouse; mri; mutants; mutations; muty; neuromelanin; neurons; new; nigra; nitric; nitrofurantoin; nitrone; nitroxides; nmr; normal; nuclear; number; observed; ocular; oxidation; oxidative; oxidizing; oxog; oxoguanine; oxygen; paramagnetic; paraquat; parkinson; pathogenesis; patients; peroxidase; peroxidation; physiological; pigment; plasma; possible; potential; ppm; presence; processes; production; products; properties; protein; pulmonary; radical; radical formation; rate; rats; reactions; reactive; redox; related; relaxation; repair; resonance; responsible; results; retinal; role; rpe; sarna; scheme; section; sensitivity; sickle; signal; site; smoke; sod1; species; specific; spectra; spectroscopy; spectrum; spin; spin traps; stable; stress; studies; study; subjects; substantia; sufficient; superoxide; swartz; systems; therapeutic; toxicity; transgenic; trapping; traps; tumor; type; understanding; use; vivo; water cache: cord-017188-d3xg05ty.txt plain text: cord-017188-d3xg05ty.txt item: #165 of 647 id: cord-017208-7oew461e author: Aurigemma, Rosemarie title: Regulatory Aspects in the Development of Gene Therapies date: 2005 words: 18332 flesch: 33 summary: S7A safety pharmacology studies for human pharmaceuticals Code of Federal Regulations, Title 21, Food and Drugs, Part 610.10, Subpart B, General biological products standards; general provisions; potency Code of Federal Regulations, Title 21, Food and Drugs, Part 610.12, Subpart B, General biological products standards Code of Federal Regulations, Title 21, Food and Drugs, Part 610.13, Subpart B, General biological products standards Code of Federal Regulations, Title 21, Food and Drugs, Part 610.14, Subpart B, General biological products standards Code of Federal Regulations, Title 21, Food and Drugs, Part 58, Good laboratory practice for nonclinical laboratory studies Current good manufacturing practice in manufacturing, processing, packing, or holding of drugs; general Code of Federal Regulations, Title 21, Food and Drugs, Part 211, Current good manufacturing practice for finished pharmaceuticals Code of Federal Regulations, Title 21, Food and Drugs, Part 312, Investigational new drug application INDs) for phase I studies of drugs, including well-characterized, therapeutic, biotechnology-derived products FDA guidance for industry: IND's for phases 2 and 3 studies of drugs, including specified therapeutic biotechnology-derived products, chemistry, manufacturing and controls content and format FDA guidance for industry: content and format of chemistry, manufacturing, and controls information and establishment description information for a vaccine or related product FDA guidance for industry for the submission of chemistry, manufacturing, and controls information for a therapeutic recombinant DNA-derived product or a monoclonal antibody product for in vivo use FDA guidance for industry: formal meetings with sponsors and applicants for PDUFA products FDA points to consider in the manufacturing and testing of monoclonal antibody products for human use FDA letter to manufacturers of biological products: recommendations regarding bovine spongiform encephalopathy (BSE) FDA Biological Response Modifiers Advisory Committee: current policy on sequence characterization of gene transfer products FDA Biological Response Modifiers Advisory Committee: adenovirus titer measurements and RCA levels FDA guidance for industry: supplemental guidance on testing for replication competent retrovirus in retroviral vector based gene therapy products and during follow-up of patients in clinical trials using retroviral vectors FDA points to consider in the characterization of cell lines used to produce biologicals FDA gene therapy patient tracking system final document FDA guidance concerning demonstration of comparability of human biological products, including therapeutic biotechnology-derived products Third national NIH gene transfer safety symposium: safety considerations in the use of AAV vectors in gene transfer clinical trials Basic principles of gene therapy: basic principles and safety considerations Preclinical animal models in gene therapy research A new animal model for human respiratory tract disease due to adenovirus Use of Aotus monkey to assess neurovirulence of replication-selective herpes vectors Herpes simplex type 1 infects and establishes latency in the brain and trigeminal ganglia during primary infection of the lip in cotton rats and mice Tropism of human adenovirus type 5-based vectors in swine and their ability to protect against transmissible gastroenteritis coronavirus Porcine toxicology studies of SCH 58500, an adenoviral vector for the p53 gene Pathogenesis of adenovirus type 5 pneumonia in cotton rats (Sigmodon hispidus) As a result, it was only natural that these animals be used to evaluate the safety of gene therapy vectors produced from HSV-1. keywords: activity; addition; adenovirus; adequate; administration; adverse; agent; animal; antibodies; antibody; aotus; approach; appropriate; assays; available; biodistribution; biological; biotechnology; cancer; case; cell; cgmp; changes; clinical; clinical studies; competent; concern; conditions; consideration; construct; cotton; critical; current; data; defective; development; different; disease; dna; documents; dose; drugs; duration; early; effects; efficacy; evaluation; evidence; example; experience; expression; factor; fda; food; formulation; g207; gene; gene therapy; gene transfer; general; generation; genetic; glp; goals; guidance; herpes; high; host; hsv; hsv-1; human; ich; identity; immune; immunodeficiency; important; industry; infectious; information; injection; intended; investigators; issues; laboratory; large; lentivirus; level; lines; liver; low; major; manufacture; manufacturing; material; method; mice; model; modified; molecule; monkeys; nature; necessary; neutralizing; new; nih; nonclinical; nonhuman; normal; number; organs; particles; patient; pfu; pharmaceuticals; pharmacology; phase; points; population; possible; potency; potential; preclinical; presence; primates; process; product; production; project; proteins; purification; qualified; quality; questions; rats; raw; reagents; recombinant; reference; regulations; regulatory; related; relevant; reliable; replication; requirements; research; response; results; retrovirus; rhesus; route; safety; safety studies; scale; selection; sequences; serum; set; shedding; similar; simplex; single; site; small; species; specific; stability; standard; storage; studies; study; support; systems; table; target; testing; therapeutic; therapy; therapy products; time; title; toxicity; toxicity studies; toxicology; transfer; transgene; trials; tropism; type; use; useful; vector; viral; virus; viruses; vitro; vivo; wild cache: cord-017208-7oew461e.txt plain text: cord-017208-7oew461e.txt item: #166 of 647 id: cord-017297-q3qtgrfc author: Rajagopal, Vaishnavi title: Viral Helicases date: 2008-11-01 words: 11566 flesch: 39 summary: Proteins carrying a conserved D-E-A-D sequence, also referred to as the DEAD-box proteins, are predominantly RNA helicases (Koonin 1991; Koonin 1992; Linder and Daugeron 2000; Cordin et al. 2006) , while proteins carrying variant of the DEAD sequence like DEAH/DEXH are usually DNA helicases (Subramanya et al. 1996; Linder 2000; Linder and Daugeron 2000) . Allosteric effects of single-stranded and duplex DNA The origin DNA-binding and single-stranded DNA-binding domains of simian virus 40 large T antigen are distinct Role of single-stranded DNA binding activity of T antigen in simian virus 40 DNA replication Structure of the Flavivirus helicase: implications for catalytic activity, protein interactions, and proteolytic processing Structure of DNA helicase RepA in complex with sulfate at 1.95 A resolution implicates structural changes to an open form Structure of the Dengue virus keywords: acid; acid binding; active; activities; activity; affinity; analysis; antigen; antiviral; atp; atpase; bacteriophage; base; binding; box; c virus; cellular; central; changes; characterization; classification; coli; complex; conformational; conserved; coupling; crystal; dda; dead; dependent; different; dna; dna binding; dna helicase; dna replication; domain; double; duplex; energy; enzyme; escherichia; et al; factors; family; fig; fold; function; gene; genome; hcv; helicase; helicase activity; helicase domain; hepatitis; herpes; hexameric; host; human; hydrolysis; important; inhibition; inhibitors; interactions; kim; levin; like; list; matson; mechanism; model; motif; motor; new; ns3; ns3 helicase; ntp; ntp hydrolysis; nucleic; nucleic acid; nucleotide; origin; papillomavirus; patel; polarity; polymerase; power; primase; protein; reaction; recombination; region; repair; replication; residues; results; ring; rna; rna helicase; role; separation; sequence; sf1; sf2; simplex; single; singleton; site; specific; ssdna; state; stepping; strand; structure; studies; study; substrate; subunit; superfamilies; superfamily; synthesis; t7 dna; t7 helicase; table; tight; translocation; type; unwinding; viral; virus; virus helicase; virus ns3; virus rna; viruses; walker cache: cord-017297-q3qtgrfc.txt plain text: cord-017297-q3qtgrfc.txt item: #167 of 647 id: cord-017493-zro9cna3 author: Mcnamee, James P. title: Cytogenetic and Carcinogenic Effects of Exposure to Radiofrequency Radiation date: 2007 words: 12222 flesch: 38 summary: In the absence of decisive epidemiological evidence to support or refute an association between RFR exposure and cancer risk, laboratory studies of possible mechanisms of carcinogenesis by RFR are important. The scientific literature on this subject is full of conflicting results and the question of whether RFR exposure can contribute to cancer risk remains unresolved. keywords: aberrations; ability; analysis; animals; assay; authors; biological; blood; body; bone; brain; breaks; c3h; cancer; cells; changes; chromosome; comet; conditions; confounding; controls; cultures; cytogenetic; damage; day; days; differences; dna; effects; electromagnetic; end; et al; evidence; experimental; exposure; female; fields; frequencies; genotoxic; ghz; groups; gsm; human; important; incidence; increase; induced; induction; latency; level; limited; literature; long; low; lymphocytes; male; mammary; marrow; mhz; mice; microwave; mobile; modulated; non; normal; number; observed; pce; peripheral; point; possible; presence; primary; promotion; prone; pulse; radiation; radiofrequency; range; rate; rats; relative; results; rfr; rfr exposure; risk; samples; sars; sham; significant; similar; strand; studies; study; temperature; term; thermal; time; tissue; transformation; tumor; variety; vijayalaxmi; vivo; week; years cache: cord-017493-zro9cna3.txt plain text: cord-017493-zro9cna3.txt item: #168 of 647 id: cord-017543-60q9iecq author: Tian, Wei-Chang title: Microfluidic Applications in Biodefense date: 2008-08-23 words: 16571 flesch: 33 summary: DNA samples were forced onto the surface of the glass capillary using chaotrophic agents, the DNA-coated capillary was then evacuated, and 500 nL of PCR reagents re-filled the tube by capillary action. [37] as a stand-alone, autonomous aerosol detection device. keywords: 16s; acid; addition; advanced; aerosol; aflp; agents; air; amplification; analysis; analytical; anthracis; anthrax; antibodies; antibody; applications; approach; array; assays; attacks; autonomous; bacillus; bacterial; band; bases; beads; binding; bioagents; biodefense; biological; bioterrorism; biothreat; biowatch; blood; botulinum; capillaries; capillary; capillary electrophoresis; capture; cell; cereus; chain; challenge; channels; civilian; clinical; coli; commercial; complete; complex; components; control; coworkers; cycle; detecting; detection; development; device; diagnostic; different; direct; diseases; dna; early; ecl; electrophoresis; elisa; end; enterotoxin; enzyme; equipment; escherichia; expression; extraction; field; flow; fluorescence; fold; food; format; future; gel; gene; generation; genetic; genome; genomic; glass; group; handheld; high; human; hybridization; identification; immunoassays; immunomagnetic; ims; increase; infectious; instrument; integrated; integration; interface; isothermal; laboratories; laboratory; large; laser; lateral; level; liquid; llnl; magnetic; mass; matrices; matrix; methods; microarray; microchip; microelectrophoresis; microfabricated; microfluidic; microorganisms; micropumps; microvalves; min; miniaturized; molecular; monitoring; monolithic; multiple; multiplexed; national; needs; new; nucleic; number; o157; organisms; paramagnetic; pathogens; pcr; pcr amplification; performance; pestis; phase; plastic; platform; polymerase; portable; potential; preparation; probes; processing; products; program; protein; purification; qpcr; range; rapid; rates; reaction; readlengths; reagent; real; related; research; restriction; review; rna; rrna; sample; sample preparation; scale; seb; section; sensitive; sensitivity; separations; sequences; sequencing; signal; silica; silicon; single; small; solid; specific; specificity; spores; standard; staphylococcal; state; steps; strains; strand; surface; system; target; technologies; technology; temperature; test; testing; throughput; time; toxins; type; upstream; use; viruses; vntr; volume; work; world cache: cord-017543-60q9iecq.txt plain text: cord-017543-60q9iecq.txt item: #169 of 647 id: cord-017563-jkhvcjcb author: Holland, Tod D. title: Modeling Brain Tumors Using Avian Retroviral Gene Transfer date: 2008-12-12 words: 4709 flesch: 44 summary: This gene was cloned from quail cells by Bates, Young, and Varmus using expression cloning from quail DNA into mouse cells and identified by its ability to confer susceptibility to RCAS infection (Bates et al., 1993) . RNA-dependent DNA polymerase in virions of RNA tumour viruses A receptor for subgroup A Rous sarcoma virus is related to the low density lipoprotein receptor Gli activity correlates with tumor grade in platelet-derived growth factor-induced gliomas Cellular oncogenes and retroviruses A perivascular niche for brain tumor stem cells. keywords: active; akt; avian; brain; cancer; capable; case; cell; cellular; cycle; dna; effect; et al; expression; formation; gene; gliomas; host; human; induced; infect; loss; medulloblastomas; membrane; mice; modeling; models; mouse; nestin; origin; p53; pathways; pdgf; progenitors; proliferation; promoter; pten; ras; rcas; receptor; retroviruses; reverse; rna; rous; sarcoma; shh; signaling; single; species; specific; suppressor; system; temin; transcription; transfer; transgenic; tumor; type; vectors; viral; virus; viruses; vivo cache: cord-017563-jkhvcjcb.txt plain text: cord-017563-jkhvcjcb.txt item: #170 of 647 id: cord-017752-ofzm3x3a author: None title: Theories of Carcinogenesis date: 2007 words: 12300 flesch: 42 summary: According to Virchow's dictum omnis cellula e cellule cells of diseased tissues are derived from normal tissues, implying that malfunction begets disease (significantly, Virchow had been a student of Müller's, who had demonstrated in 1838 that cancer is made up of cells, not lymph; but he was of the opinion that cancer cells arose from interstitial budding elements, blastema, not from normal cells). As one possible underlying reason, the biochemist Otto von Warburg [von Warburg 1930] had suggested that the oxidative metabolism in cancer cells is replaced by glycolysis and that the excessive proliferation of cancer cells reflects their ability to metabolize independently of oxygen. keywords: -the; 1970s; 20th; acid; activity; acute; advanced; affected; agents; aids; analysis; angiogenesis; animals; antibody; antigens; basis; binding; biochemical; blood; body; boveri; breast; breast cancer; burkitt; burnet; cancer; cancer cells; cancer research; cancerous; carcinogenesis; carcinogenic; carcinoma; cases; cause; cells; cellular; century; certain; cervical; chemical; chromatin; chromosome; chronic; clonal; coley; compounds; concept; control; culture; cycle; damage; death; der; development; discovery; disease; distinct; division; dna; double; drug; early; effects; enzymes; estrogen; et al; evidence; evolution; experimental; exposure; expression; factor; forms; function; fusion; gas; gene; gene expression; genetic; genome; group; growth; harvey; hepatitis; herpes; high; histones; hormone; hospital; host; hpv; human; identification; immune; immunity; important; incidence; individual; infection; inhibition; instability; institute; john; key; large; later; lead; leukemia; liver; lung; lymphoma; malignant; mechanisms; metabolism; metastasis; methylation; mice; model; molecular; molecules; murine; mustard; mutations; national; necessary; new; non; normal; number; observations; occupational; oncogene; oncogenic; oxygen; p53; particles; pathways; patients; patterns; population; possible; potential; present; process; progression; proliferation; properties; prostate; proteins; radiation; ras; rate; rays; reactions; regulation; related; research; results; retroviruses; risk; rna; robert; role; rous; sarcoma; selection; selective; sequence; single; skin; somatic; specific; states; studies; study; sufficient; suppressor; surface; surgeon; sv40; system; table; target; term; theories; theory; therapy; time; tissue; transformation; translocation; treatment; tumor; tumor cells; tumorigenesis; types; united; vascular; viral; virchow; virus; viruses; vivo; war; white; years cache: cord-017752-ofzm3x3a.txt plain text: cord-017752-ofzm3x3a.txt item: #171 of 647 id: cord-017817-ztp7w9yh author: Land, Walter Gottlieb title: Cell-Autonomous (Cell-Intrinsic) Stress Responses date: 2018-03-28 words: 17769 flesch: 34 summary: A typical example is represented by oxidative stress and ER stress responses, which appear to act mutually in any form of cellular damage. ATF activating transcription factor, CHOP cytidine-cytidine-adenosine-adenosine thymidine-enhancer-binding homologous protein, eIF2α eukaryotic translational initiation factor 2α, ER endoplasmic reticulum, IRE1α inositol-requiring transmembrane kinase/endoribonuclease 1α, PERK protein kinase-like eukaryotic initiation factor 2α kinase, UPR unfolded protein response, XBP1 X-box binding protein 1. XBP1s, X-box binding protein 1 whereby the s stands for the spliced form of XBP1. keywords: activation; activity; adaptive; addition; antioxidant; apoptosis; associated; atf6; atm; atp; atr; autonomous; autophagy; bacteria; binding; box; cancer; cell; cell death; cell stress; cellular; chaperone; characterized; chronic; cma; complex; components; conditions; conserved; control; core; cysteine; cytochrome; cytoplasmic; cytosolic; damage; damage response; damps; ddr; death; defense; degradation; dependent; different; diseases; dna; dna damage; dsbs; effects; emission; endoplasmic; enzymes; essential; eukaryotic; evidence; example; exposure; expression; factor; family; fig; folding; following; form; formation; functions; generation; genes; glutathione; hand; heat; hmgb1; homeostasis; host; hsps; hsr; human; hypoxia; iii; immune; immunity; important; induced; induction; infection; inflammasome; inflammation; inflammatory; inhibition; injury; innate; integrity; intracellular; intrinsic; iron; keap1; kinase; leads; levels; like; lysosomal; lysosome; machinery; macroautophagy; mammalian; mechanisms; membrane; mitochondrial; mitophagy; modification; molecular; molecules; multiple; nadph; new; non; note; nrf2; nucleus; number; oxidative; oxidative stress; oxidoreductase; oxygen; particular; pathologies; pathway; perk; plays; polyubiquitination; potential; prms; process; processes; production; products; proteasome; protein; protein response; pulmonary; quality; radicals; reactive; recent; receptors; recognition; redox; regulated; regulation; regulatory; release; repair; reperfusion; replication; response; responsible; result; reticulum; reticulum stress; rna; role; ros; sect; selective; sensor; shock; signalling; smaf; species; specific; splicing; ssdna; sterile; stress; stress response; studies; substrates; superoxide; support; surface; system; target; targeting; terms; therapeutic; transcription; trigger; type; ubiquitin; unfolded; upr; viral; virus; viruses; yeast cache: cord-017817-ztp7w9yh.txt plain text: cord-017817-ztp7w9yh.txt item: #172 of 647 id: cord-017838-fbotc479 author: Fagone, Paolo title: Electroporation-Mediated DNA Vaccination date: 2010-12-15 words: 5293 flesch: 18 summary: The failed HIV Merck vaccine study: a step back or a launching point for future vaccine development? DNA vaccination: antigen presentation and the induction of immunity Heterologous protection against influenza by injection of DNA encoding a viral protein Genetic immunization is a simple method for eliciting an immune response Vaccination with hemagglutinin or neuraminidase DNA protects BALB/c mice against influenza virus infection in presence of maternal antibody In vivo expression of rat insulin after intravenous administration of the liposome-entrapped gene for rat insulin I Increased expression of DNA cointroduced with nuclear protein in adult rat liver Liposome mediated gene transfer Direct introduction of genes into rats and expression of the genes Receptor-mediated gene delivery and expression in vivo Human immunodeficiency virus type 1 vaccine development: recent advances in the cytotoxic T-lymphocyte platform spotty business The mechanism of naked DNA uptake and expression Multiple effects of codon usage optimization on expression and immunogenicity of DNA candidate vaccines encoding the human immunodeficiency virus type 1 Gag protein Inactivation of the human immunodeficiency virus type 1 inhibitory elements allows Rev-independent expression of Gag and Gag/protease and particle formation Induction of potent Th1-type immune responses from a novel DNA vaccine for West Nile virus New York isolate (WNV-NY1999) Antigenicity and immunogenicity of a synthetic human immunodeficiency virus type 1 group m consensus envelope glycoprotein Gene therapy progress and prospects: electroporation and other physical methods Electric pulses applied prior to intramuscular DNA vaccination greatly improve the vaccine immunogenicity Increased gene expression and inflammatory cell infiltration caused by electroporation are both important for improving the efficacy of DNA vaccines Recruitment of antigen-presenting cells to the site of inoculation and augmentation of HIV-1 DNA vaccine immunogenicity by in vivo electroporation Electroporation for drug and gene delivery in the clinic: doctors go electric Direct gene transfer into mouse muscle in vivo In vivo gene electroinjection and expression in rat liver Gene transfer into mouse lyoma cells by electroporation in high electric fields High-level protein secretion into blood circulation after electric pulse-mediated gene transfer into skeletal muscle Increased DNA vaccine delivery and immunogenicity by electroporation in vivo Electroporation improves the efficacy of DNA vaccines in large animals Anti-HBV immune responses in rhesus macaques elicited by electroporation mediated DNA vaccination A single DNA immunization in combination with electroporation prolongs the primary immune response and maintains immune memory for six months Enhancement of the effectiveness of electroporation-augmented cutaneous DNA vaccination by a particulate adjuvant Modulation of the immune response induced by gene electrotransfer of a hepatitis C virus DNA vaccine in nonhuman primates High expression of naked plasmid DNA in muscles of young rodents Predominant role for directly transfected dendritic cells in antigen presentation to CD8+ T cells after gene gun immunization Intradermal gene immunization: the possible role of DNA uptake in the induction of cellular immunity to viruses Cutaneous transfection and immune responses to intradermal nucleic acid vaccination are significantly enhanced by in vivo electropermeabilization Combined effects of IL-12 and electroporation enhances the potency of DNA vaccination in macaques Early events of electroporation-mediated intramuscular DNA vaccination potentiate Th1-directed immune responses Inflammatory responses following direct injection of plasmid DNA into skeletal muscle DNA immunization with HIV-1 tat mutated in the trans activation domain induces humoral and cellular immune responses against wild-type Tat Specific immune induction following DNA-based immunization through in vivo transfection and activation of macrophages/antigen-presenting cells Facilitated DNA inoculation induces anti-HIV-1 immunity in vivo In vivo electroporation enhances the immunogenicity of hepatitis C virus nonstructural 3/4A DNA by increased local DNA uptake, protein expression, inflammation, and infiltration of CD3+ T cells Translating innate immunity into immunological memory: implications for vaccine development Signaling to NF-kappaB by Toll-like receptors The vaccine adjuvant monophosphoryl lipid A as a TRIF-biased agonist of TLR4 Adjuvant-enhanced antibody responses in the absence of toll-like receptor signaling TLR9â��/â�� and TLR9+/+ mice display similar immune responses to a DNA vaccine Vaccination with plasmid DNA activates dendritic cells via Toll-like receptor 9 (TLR9) but functions in TLR9-deficient mice A Toll-like receptor-independent antiviral response induced by double-stranded B-form DNA Recognition of cytosolic DNA activates an IRF3-dependent innate immune response TANK-binding kinase-1 delineates innate and adaptive immune responses to DNA vaccines Recombinant canarypoxvirus vaccine carrying the prM/E genes of West Nile virus protects horses against a West Nile virus-mosquito challenge Efficacy of an infectious hematopoietic necrosis (IHN) virus DNA vaccine in Chinook Oncorhynchus tshawytscha and sockeye O. nerka salmon Clinical Evaluation of Pain and Muscle Damage Induced by Electroporation of Skeletal Muscle in Humans Abstracts from the American Society of Gene Therapy 7th Furthermore, DNA vaccines could potentially induce immunity in newborns in situations that usually neutralize conventional vaccines via the presence of high levels of maternal antibodies [5] . keywords: adjuvant; administration; animals; antibody; antigen; approaches; cd4; cd8; cells; cellular; challenge; clinical; delivery; direct; dna; effects; efficacy; electric; electroporation; electrotransfer; expression; gene; group; hepatitis; higher; hiv; humans; humoral; immune; immune responses; immunity; immunization; immunogenicity; induction; infectious; inflammation; influenza; injection; innate; large; levels; like; local; macaques; memory; mice; muscle; naked; needle; pain; patients; pdna; plasmid; protein; pulses; responses; results; rhesus; safety; signaling; site; skeletal; skin; specific; studies; study; target; tissue; transfection; transgene; treatment; type; uptake; vaccination; vaccine; vectors; viral; virus; vivo cache: cord-017838-fbotc479.txt plain text: cord-017838-fbotc479.txt item: #173 of 647 id: cord-017867-8cn4c6cu author: Collántes-Fernández, Esther title: Trichomonas date: 2017-11-08 words: 24073 flesch: 40 summary: Correlation with time of exposure and with subsequent estrual cycles Construction and bootstrap analysis of DNA fingerprinting-based phylogenetic trees with the freeware program FreeTree: application to trichomonad parasites Trichomonas gallinae in columbiform birds from the Galapagos Islands Trichomoniasis of turkeys Identification of trichomonadid protozoa from the bovine preputial cavity by polymerase chain reaction and restriction fragment length polymorphism typing A reduction in the duration of infection with Tritrichomonas foetus following vaccination in heifers and the failure to demonstrate a curative effect in infected bulls The morphology and incidence of the trichomonads of swine Detection of bovine trichomoniasis with a specific DNA probe and PCR amplification system Characterization of Tritrichomonas foetus antigens by use of monoclonal antibodies Trichomoniasis in Bonelli's eagle nestlings in south-west Portugal Tritrichomonas foetus infection in cats with diarrhoea in a rescue colony in Italy Diagnostic PCR: validation and sample preparation are two sides of the same coin Isolation of Tritrichomonas foetus from cats sampled at a cat clinic, cat shows and a humane society in southern Ontario Detection and identification of Tetratrichomonas in a preputial wash from a bull by PCR and SSCP Development and testing of a bovine trichomoniasis vaccine Bovine vaginal antibody responses to immunoaffinitypurified surface antigen of Tritrichomonas foetus Risk factors associated with bovine trichomoniasis in beef cattle identified by a questionnaire Pentatrichomonas hominis in empyema thoracis The intradermal test in bovine trichomoniasis Bovine trichomoniasis-diagnosis and treatment Comparison of diagnostic methods for detection of active infection with Tritrichomonas foetus in beef heifers Molecular phylogeny of Trichomonadidae family inferred from ITS-1, 5.8S rRNA and ITS-2 sequences Production of ammonia by Tritrichomonas foetus and Trichomonas vaginalis Molecular phylogeny of diplomonads and enteromonads based on SSU rRNA, alpha-tubulin and HSP90 genes: implications for the evolutionary history of the double karyomastigont of diplomonads Prevalence of Trichomonas gallinae in northern goshawks from the Berlin area of northeastern Germany Tritrichomonas foetus infection in purebred cats in Germany: prevalence of clinical signs and the role of co-infection with other enteroparasites Investigations of the incidence of bovine trichomoniasis in Nevada and of the efficacy of immunizing cattle with vaccines containing Tritrichomonas foetus Clinical evaluation of the efficacy of inoculating cattle with a vaccine containing Tritrichomonas foetus Evidence of spread of the emerging infectious disease, finch trichomonosis, by migrating birds A pathogenic trichomonas from the upper digestive tract of chickens Tritrichomonas foetus and not Pentatrichomonas hominis is the etiologic agent of feline trichomonal diarrhea In-situ hybridization for the detection and identification of Histomonas meleagridis in tissues Use of uracil DNA glycosylase to control carry-over contamination in polymerase chain reactions A simple and rapid method for staining Tritrichomonas foetus and Trichomonas vaginalis Comparison of growth rates of Tritrichomonas foetus isolates from various geographic regions using three different culture media Are Tritrichomonas foetus and Tritrichomonas suis synonyms? Prevalence of Campylobacter foetus and Trichomonas foetus among cattle from Southern Africa Persistence of Tritrichomonas foetus in naturally infected cows and heifers in Argentina Update on the diagnosis and management of Tritrichomonas foetus infections in cats Risk factors associated with Tritrichomonas foetus infection in beef herds in the Province of Prevalence of bovine venereal disease in the Victoria River District of the Northern Territory: likely economic effects and practicable control measures Improved detection of Tritrichomonas foetus in bovine diagnostic specimens using a novel probe-based real time PCR assay Fine structure of the bird parasites Trichomonas gallinae and Tetratrichomonas gallinarum from cultures High prevalence of Tritrichomonas foetus infection in Asturiana de la Montana beef cattle kept in extensive conditions in northern Spain Differences in the prevalence of Tritrichomonas foetus infection in beef cattle farmed under extensive conditions in northern Spain A review of sexually transmitted bovine trichomoniasis and campylobacteriosis affecting cattle reproductive health Spatial and temporal epidemiology of bovine trichomoniasis and bovine genital campylobacteriosis in La Pampa province (Argentina) Comparative transcriptomics reveals striking similarities between the bovine and feline isolates of Tritrichomonas foetus: consequences for in silico drug-target identification Host origin determines pH tolerance of Tritrichomonas foetus isolates from the feline gastrointestinal and bovine urogenital tracts Comparative RNA-seq analysis of the Tritrichomonas foetus PIG30/1 isolate from pigs reveals close association with Tritrichomonas foetus BP-4 isolate 'bovine genotype Investigations on the prevalence and potential pathogenicity of intestinal trichomonads in pigs using in situ hybridization Detection of Tritrichomonas foetus and Pentatrichomonas hominis in intestinal tissue specimens of cats by chromogenic in situ hybridization High prevalence of Tritrichomonas foetus 'bovine genotype' in faecal samples from domestic pigs at a farm where bovine trichomonosis has not been reported for over 30 years Evaluation of a PCR test for the diagnosis of Tritrichomonas foetus infection in bulls: effects of sample collection method, storage and transport medium on the test In vivo and in vitro sensitivity of Trichomonas gallinae to some nitroimidazole drugs Field and laboratory observations on trichomoniasis of dairy cattle in Victoria Pathologic changes in pigeons infected with a virulent Trichomonas gallinae strain (Eiberg) First report of epizootic trichomoniasis in wild finches (family Fringillidae) in southern Fennoscandia Tritrichomonas foetus prevention and control in cattle Obtención de muestras prepuciales para el diagnóstico de Tritrichomonas foetus porraspado de mucosas The prevalence of intestinal protozoa in wild and domestic pigs Enteropathogen co-infection in UK cats with diarrhoea Comparison of two sampling tools for diagnosis of Tritrichomonas foetus in bulls and clinical interpretation of culture results Application of a PCR assay to enhance the detection and identification of Tritrichomonas foetus in cultured preputial samples Comparison of the diagnostic sensitivity of a commercially available culture kit and a diagnostic culture test using Diamond's media for diagnosing Tritrichomonas foetus in bulls Sample collection factors affect the sensitivity of the diagnostic test for Tritrichomonas foetus in bulls The pathogenesis of Tritrichomonas foetus infection in the bull Early pathogenesis and pathology of Tritrichomonas foetus infection in virgin heifers Tritrichomonas foetus: budding from multinucleated pseudocysts Prevalence and risk-factors for Trichomonas-fetus infection in cattle in northeastern Costa-Rica Bayesian estimation of Tritrichomonas foetus diagnostic test sensitivity and specificity in range beef bulls Clinical and microbiological aspects of Trichomonas vaginalis The demonstration of an agglutinin to Trichomonas foetus in the vaginal discharge of infected heifers The mucus agglutination test for the diagnosis of bovine trichomoniasis Prevalence of Tritrichomonas foetus infections in French catteries Prevalence of selected bacterial and parasitic agents in feces from diarrheic and healthy control cats from northern California Impact of trichomoniasis on the cow-calf producer's profitability Tritrichomonas foetus Prevalence of Tritrichomonas fetus in a bull population and effect on production in a large cow-calf enterprise Epidemiology of Tritrichomonas foetus in beef bull populations in Florida Some observations on cultural and transport conditions for Tritrichomonas foetus var. keywords: aborted; abortion; addition; agent; amin et; amplification; analysis; anderson et; animals; antibodies; antibody; antigen; area; argentina; artificial; assay; available; avian; beef; benchimol; birds; bondurant; bondurant et; bovine; breeding; bulls; campero; campero et; carrier; cats; cattle; cause; cavity; cell; cervix; chickens; chronic; clark et; clinical; cobo et; collection; commercial; comparison; conditions; contact; contaminated; contamination; control; cows; cultivation; culture; dairy; days; detection; diagnostic; diamond; diarrhea; differences; different; direct; disease; dna; domestic; drinking; early; effects; environment; epidemiological; epithelium; estrus; et al; examination; experimental; factors; fecal; feces; feline; feline t.; female; findings; flagella; foetus; foetus infection; following; food; foster; free; gallinae; gallinarum; gene; genital; giardia; gookin et; hale et; health; heifers; herds; higher; history; hominis; honigberg; ibarra et; identification; immune; important; increase; individual; infected; infection; inpouch; insemination; intestinal; isolates; kit; köster; laboratory; large; lesions; level; like; likelihood; likely; long; loss; low; lower; management; manual; material; mccool et; measures; media; medium; membrane; mendoza; method; microscopy; modified; molecular; months; mucosa; mucus; natural; negative; new; non; number; observations; observed; oie; ondrak; oral; organisms; parasite; parker et; parsonson et; pcr; perez et; period; pigeons; pigs; pipette; plastic; positive; possible; potential; practices; pregnancy; preputial; presence; present; prevalence; prior; protozoa; rae et; recent; region; reproductive; response; results; rhyan et; risk; ronidazole; route; rrna; sager et; samples; sampling; season; secretions; semen; sensitivity; serum; signs; similar; single; size; skirrow; skirrow et; smegma; species; specific; specificity; spp; stabler; studies; study; suis; surface; survival; system; t. foetus; table; taurus; techniques; temperature; terrestrial; test; testing; tfr4; time; tolbert; tract; transmission; transport; treatment; trichomonads; trichomonosis; tritrichomonas; tritrichomonas foetus; trophozoites; turkeys; usa; use; vaccine; vaginal; veterinary; virgin; vitro; water; weeks; wild; yao; years; young cache: cord-017867-8cn4c6cu.txt plain text: cord-017867-8cn4c6cu.txt item: #174 of 647 id: cord-017881-5jjlx7ot author: Fulekar, M. H. title: Nanotechnology — In Relation to Bioinformatics date: 2009 words: 2668 flesch: 47 summary: The nano-structures constructed in experimental demonstrations consists of DNA crossover molecules that self assemble into large lattices that can execute computations as well as DNA molecules that reconfigure for possible use of motors. Eric Drexler, in 1986, published book “Engines of Creation” in which he described his ideas of molecular nanotechnology used to build miniature machines and devices from the bottom up using self-assembly. keywords: ability; applications; atoms; bacteria; bioinformatics; biological; biology; cancer; complex; computing; conjugates; copy; data; development; devices; disinfectant; dna; enzymes; fact; genome; human; information; level; like; molecular; molecule; nanomedicine; nanometre; nanotechnology; new; novel; process; range; research; sars; scale; scientists; sequence; structures; systems; understanding; use; years cache: cord-017881-5jjlx7ot.txt plain text: cord-017881-5jjlx7ot.txt item: #175 of 647 id: cord-017948-fqhl1qb4 author: Hu, Yuan title: Molecular Techniques for Blood and Blood Product Screening date: 2012-04-05 words: 7305 flesch: 51 summary: Diagnosis depends upon fi nding parasites on blood fi lm examination which can be detected 2-4 weeks after a tick bite. Detection of early HBV infection of blood donors is still a major problem of blood transfusion. keywords: acid; agents; ampli; antibodies; antibody; antigens; assay; available; babesia; babesiosis; blood; cases; cation; cause; chagas; chronic; clinical; cmv; con; current; dengue; detection; diagnosis; disease; dna; donors; early; eld; fda; hbsag; hbv; hcv; hepatitis; high; hiv; htlv; human; hybridization; identi; important; infected; infection; liver; malaria; methods; molecular; nat; need; negative; new; nucleic; patients; pcr; people; period; positive; products; quantitative; reaction; real; recent; regulatory; requirements; risk; rmatory; rna; safety; sars; screening; sensitive; sensitivity; sequence; serologic; speci; states; supply; techniques; technology; testing; tests; time; transfusion; transmission; ttv; united; vcjd; viral; virus; viruses; window; wnv; world; years cache: cord-017948-fqhl1qb4.txt plain text: cord-017948-fqhl1qb4.txt item: #176 of 647 id: cord-017999-saxwqc2j author: Travers, Andrew A. title: Gene Regulation by HMGA and HMGB Chromosomal Proteins and Related Architectural DNA-Binding Proteins date: 2005 words: 6341 flesch: 36 summary: This organisation is normally effected by abundant DNA binding proteins, termed architectural DNA-binding proteins, that either induce DNA bending or facilitate the formation of multicomponent DNA-protein complexes. This combination of bound proteins can then recruit the remodelling complex hSWI/SNF. keywords: abundant; accessibility; acidic; activation; affinity; architectural; assembly; base; basic; bend; binding; box; case; changes; chromatin; chromosomal; chromosomal proteins; classes; complex; complexes; contacts; core; curvature; dependent; direct; dna; dna structure; domain; drosophila; effect; enhanceosome; enhancer; example; factors; fis; flexibility; formation; function; gene; general; groove; group; high; histone; histone octamer; hmg; hmga; hmgb; hmgb proteins; hook; hydrophobic; induced; interactions; major; mechanism; minor; mobility; nucleosomal dna; nucleosome; octamer; pairs; particular; polymerase; promoter; proteins; readout; recombination; region; remodelling; rich; rna; role; rss; sequence; single; sites; specific; structure; surface; tail; tata; terminal; transcription; transcription factors; untwisting; v(d)j; vitro; vivo; yeast cache: cord-017999-saxwqc2j.txt plain text: cord-017999-saxwqc2j.txt item: #177 of 647 id: cord-018039-dw2xblyr author: Norbäck, Dan title: Microbial Agents in the Indoor Environment: Associations with Health date: 2019-08-08 words: 7128 flesch: 40 summary: Microbial indoor exposure is a broader concept than microbial growth in buildings. Other sources of indoor microbial exposure include the outdoor environment, humans (crowdedness) and furry pet keeping. keywords: acid; adults; agents; air; airborne; aspergillus; associations; asthma; asthmatic; atopic; bacteria; beta-1; building; butanol; care; cell; chemical; children; classroom; compounds; concentration; damp; dampness; day; different; dna; dust; effects; endotoxin; environments; epidemiological; ergosterol; ermi; european; exposure; fungal; gram; group; growth; health; higher; homes; index; indoor; levels; malaysia; materials; metabolites; methods; methyl-1; microbial; mould; muramic; mvoc; mycotoxins; negative; non; octen-3; organic; outdoor; positive; protective; relative; respiratory; review; rhinitis; risk; samples; sbs; school; secondary; sequences; sources; species; specific; studies; study; symptoms; syndrome; total; types; values; viable; volatile; water cache: cord-018039-dw2xblyr.txt plain text: cord-018039-dw2xblyr.txt item: #178 of 647 id: cord-018046-jzoykn0y author: Kumar, Sanjay title: Fabrication of Nanostructures with Bottom-up Approach and Their Utility in Diagnostics, Therapeutics, and Others date: 2017-11-18 words: 7651 flesch: 34 summary: ZnO nanostructures provide large surface area, high aspect ratio, high catalytic activity, and higher number of adsorption sites on their surfaces (Chen and Tang 2007) . Several fabrication techniques have been described in the literature for fabrication of ZnO nanostructures, such as sputtering, laser ablation, molecular beam epitaxy, physical vapor deposition, thermal evaporation, electrochemical deposition, template-based synthesis, and solgel methods (Yao et al. 2002; Wu et al. 2005; Chiou et al. 2003; Sun et al. 2004; Huang et al. 2001; Heo et al. 2002; Zhang et al. 2009 ). keywords: acid; antibodies; antibody; antimicrobial; applications; approach; arrays; assembly; atoms; beam; binding; biological; cells; characterization; chemical; chemistry; complex; concentration; conductive; delivery; deposition; detection; development; devices; diagnostics; different; dimensional; dna; dots; electron; energy; epitaxy; et al; fabricated; fabrication; field; fig; fluorescence; formation; free; gas; gold; graphene; growth; gupta; hard; high; higher; human; kumar; layer; light; like; liquid; lithography; low; materials; mechanical; medical; metal; method; microcantilever; molecular; molecules; nanocomposites; nanofibers; nanomaterials; nanoparticles; nanoribbon; nanorods; nanoscale; nanostructures; nanotubes; nanowires; natural; non; novel; optical; order; organic; oxide; permission; phase; physical; place; polymer; polymer nanostructures; polymeric; ppy; process; processes; properties; quantum; range; self; sensing; sensitive; sensitivity; sensors; silver; single; size; soft; solar; solgel; solution; specific; substrate; surface; synthesis; techniques; temperature; template; therapeutics; vapor; virus; visible; wang; water; zinc; zno; zno nanostructures cache: cord-018046-jzoykn0y.txt plain text: cord-018046-jzoykn0y.txt item: #179 of 647 id: cord-018133-2otxft31 author: Altman, Russ B. title: Bioinformatics date: 2006 words: 9594 flesch: 44 summary: Computer systems within bioinformatics thus must be able to handle biological sequence information effectively and efficiently. Nonetheless, the effects of sequence information on clinical databases will be significant. keywords: acids; algorithms; alignment; altman; amino; analysis; associated; atoms; available; basic; bioinformatics; biological; biologists; biology; biomedical; cells; center; challenges; clinical; complete; computational; computer; critical; data; databases; detailed; determined; development; different; difficult; disease; dna; dna sequence; drug; elements; example; excellent; experimental; expression; figure; function; future; genbank; genes; genetic; genome; genomics; group; human; human genome; important; individual; information; introduction; key; knowledge; large; level; likely; links; literature; medicine; methods; model; molecular; molecules; multiple; mutations; new; number; organism; patient; pdb; problems; processes; profile; projects; protein; protein sequence; questions; record; red; research; resource; rna; sequence; sequence information; sequencing; set; significant; similarity; small; sources; specific; structure; systems; target; technologies; time; tools; types; understanding; use; useful; values; volume; ways; work cache: cord-018133-2otxft31.txt plain text: cord-018133-2otxft31.txt item: #180 of 647 id: cord-018145-kssjdn8y author: Niemann, Heiner title: Transgenic Farm Animals: Current Status and Perspectives for Agriculture and Biomedicine date: 2009 words: 9168 flesch: 28 summary: Although the efficiency of transgenic animal production by microinjection technology is low, many animals with agriculturally important transgenic traits were produced. Transgenic animal production for biomedical applications has found broad acceptance. keywords: adult; agricultural; animal production; animals; antithrombin; applications; approach; appropriate; biomedicine; blood; bovine; breeding; casein; cattle; cells; chromosomal; clinical; cloned; cloning; commercial; composition; construct; control; current; development; disease; dna; donor; drug; effective; effects; efficient; embryonic; embryos; endogenous; epigenetic; et al; expression; factor; farm; farm animals; fatty; fda; fibroblasts; fish; foreign; future; gene; generation; genetic; genome; germ; gland; goats; growth; health; high; human; iii; important; improved; infection; integration; interference; knockdown; knockout; kues; lactoferrin; lactose; large; lentiviral; level; like; lines; livestock; low; mammalian; mammary; mammary gland; methods; mice; microinjection; milk; models; modification; months; mouse; murine; muscle; new; niemann; non; nuclear; offspring; oocytes; organ; patients; perv; pigs; pluripotent; porcine; potential; prion; produce; production; products; progress; promoter; properties; protein; recent; recombinant; reprogramming; research; resistance; risk; rna; rnai; scnt; sheep; significant; silencing; sirna; small; somatic; species; specific; sperm; status; stem; survival; swine; system; targeted; technologies; technology; tetracycline; tissue; tools; traits; transfer; transgenesis; transgenic; transgenic animals; transgenic farm; transgenic pigs; transmission; transplantation; treatment; vectors; virus; wool; xenotransplantation; years cache: cord-018145-kssjdn8y.txt plain text: cord-018145-kssjdn8y.txt item: #181 of 647 id: cord-018159-ycg6waay author: Peng, Xiaolei title: Plasmofluidics for Biosensing and Medical Diagnostics date: 2018-01-23 words: 9136 flesch: 37 summary: Advances in plasmonic technologies for point of care applications Portable point-of-care diagnostic devices Cancer statistics Advances and challenges in biosensor-based diagnosis of infectious diseases Point-of-care testing for infectious diseases: diversity, complexity, and barriers in low-and middle-income countries Microfluidic chips for immunoassays Plasmofluidics: merging light and fluids at the micro-/nanoscale Surface plasmon subwavelength optics Molecular plasmonics for biology and nanomedicine Plasmon nano-optical tweezers Microfluidic surface plasmon resonance sensors: from principles to point-of-care applications Localized surface plasmon resonance sensors SPR biosensors: historical perspectives and current challenges Origin and future of plasmonic optical tweezers Systematic investigation of localized surface plasmon resonance of long-range ordered Au nanodisk arrays Extended-area optically induced organization of microparticles on a surface Scannable plasmonic trapping using a gold stripe Theoretical and experimental study of surface plasmon radiation force on micrometer-sized spheres Parallel and selective trapping in a patterned plasmonic landscape Nanometric optical tweezers based on nanostructured substrates Low-power nano-optical vortex trapping via plasmonic diabolo nanoantennas Application of plasmonic bowtie nanoantenna arrays for optical trapping, stacking, and sorting Nano-optical conveyor belt, part II: demonstration of handoff between near-field optical traps Bubble-pen lithography Self-induced back-action optical trapping of dielectric nanoparticles Nanoscale control of optical heating in complex plasmonic systems Photoinduced heating of nanoparticle arrays Plasmon-assisted optofluidics SPR and SPR imaging: recent trends in developing nanodevices for detection and real-time monitoring of biomolecular events On-chip synthesis of protein microarrays from DNA microarrays via coupled in vitro transcription and translation for surface plasmon resonance imaging biosensor applications Surface plasmon resonance sensor with dispersionless microfluidics for direct detection of nucleic acids at the low femtomole level Tunable directive radiation of surface-plasmon diffraction gratings Biosensing using straight long-range surface plasmon waveguides Sensing using localised surface plasmon resonance sensors Localized surface plasmon resonance biosensing: current challenges and approaches Flow-through vs flow-over: analysis of transport and binding in nanohole array plasmonic biosensors Optofluidic concentration: plasmonic nanostructure as concentrator and sensor High-fidelity optofluidic on-chip sensors using well-defined gold nanowell crystals Plasmon line shaping using nanocrosses for high sensitivity localized surface plasmon resonance sensing Substrate-induced Fano resonances of a plasmonic nanocube: a route to increased-sensitivity localized surface plasmon resonance sensors revealed Tuning the plasmon resonance of a nano-mouth array Plasmonic gold mushroom arrays with refractive index sensing figures of merit approaching the theoretical limit Engineering of parallel plasmonic-photonic interactions for on-chip refractive index sensors Optimizing plasmonic nanoantennas via coordinated multiple coupling Localized surface plasmon resonance: nanostructures, bioassays and biosensing-a review Moiré nanosphere lithography Tunable multiband metasurfaces by moire nanosphere lithography On-chip nanohole array based sensing: a review Label-free detection and molecular profiling of exosomes with a nanoplasmonic sensor Localized surface plasmon resonance spectroscopy and sensing Surface plasmon resonance imaging sensors: a review Optofluidic SERS: synergizing photonics and microfluidics for chemical and biological analysis Surface-enhanced Raman spectroscopy (SERS): progress and trends Surface-enhanced Raman spectroscopy: concepts and chemical applications SERS-enabled lab-on-a-chip systems Convenient formation of nanoparticle aggregates on microfluidic chips for highly sensitive SERS detection of biomolecules Light-directed reversible assembly of plasmonic nanoparticles using plasmon-enhanced thermophoresis Nano-optical trapping of rayleigh particles and Escherichia coli bacteria with resonant optical antennas Integration of plasmonic trapping in a microfluidic environment Permanent fixing or reversible trapping and release of DNA micropatterns on a gold nanostructure using continuous-wave or femtosecond-pulsed near-infrared laser light DNA translocations through solid-state plasmonic nanopores Optical trapping of a single protein Double nanohole optical trapping: dynamics and proteinantibody co-trapping And R. Gordon A label-free untethered approach to single-molecule protein binding kinetics Long-range and rapid transport of individual nano-objects by a hybrid electrothermoplasmonic nanotweezer Three-dimensional manipulation with scanning near-field optical nanotweezers Plasmonics-turning loss into gain Thermophoretic tweezers for low-power and versatile manipulation of biological cells Patterned multiplex pathogen DNA detection by Au particle-on-wire SERS sensor Gold nanoring as a sensitive plasmonic biosensor for on-chip DNA detection Label-free DNA biosensor based on SERS molecular sentinel on nanowave chip Plasmonics-based SERS nanobiosensor for homogeneous nucleic acid detection Surface plasmon resonance sensors for detection of chemical and biological species Molecular sentinel-on-chip for SERS-based biosensing Multiplex detection of disease biomarkers using SERS molecular sentinel-on-chip DNA bioassay-on-chip using SERS detection for dengue diagnosis MicroRNAs can generate thresholds in target gene expression MicroRNA expression profiles classify human cancers A microRNA expression signature of human solid tumors defines cancer gene targets Cancer biomarker profiling with microRNAs Rapid sub-attomole microRNA detection on a portable microfluidic chip Highly specific plasmonic biosensors for ultrasensitive microRNA detection in plasma from pancreatic cancer patients Label-free nanoplasmonic-based short noncoding RNA sensing at attomolar concentrations allows for quantitative and highly specific assay of microRNA-10b in biological fluids and circulating exosomes Monitoring protein distributions based on patterns generated by protein adsorption behavior in a microfluidic channel Plasmonic sensors for analysis of proteins and an oncologic drug in human serum Cancer biomarker detection in serum samples using surface plasmon resonance and quartz crystal microbalance sensors with nanoparticle signal amplification LSPR chip for parallel, rapid, and sensitive detection of cancer markers in serum Multiplex serum cytokine immunoassay using nanoplasmonic biosensor microarrays SERS-based immunoassay using a gold array-embedded gradient microfluidic chip Patterned plasmonic nanoparticle arrays for microfluidic and multiplexed biological assays Plasmonic nanosensors for simultaneous quantification of multiple protein-protein binding affinities Optofluidic platform for real-time monitoring of live cell secretory activities using Fano resonance in gold nanoslits Rapid identification by surface-enhanced Raman spectroscopy of cancer cells at low concentrations flowing in a microfluidic channel Surface plasmon resonance biosensor based on smart phone platforms Surface plasmon resonance biosensor for the detection of VEGFR-1-a protein marker of myelodysplastic syndromes Ultrasensitive detection of thrombin using surface plasmon resonance and quartz crystal microbalance sensors by aptamer-based rolling circle amplification and nanoparticle signal enhancement Rational aspect ratio and suitable antibody coverage of gold nanorod for ultra-sensitive detection of a cancer biomarker Optical detection of single non-absorbing molecules using the surface plasmon resonance of a gold nanorod Single unlabeled protein detection on individual plasmonic nanoparticles Observing single protein binding by optical transmission through a double nanohole aperture in a metal film Nanohole-based surface plasmon resonance instruments with improved spectral resolution quantify a broad range of antibody-ligand binding kinetics Handheld high-throughput plasmonic biosensor using computational on-chip imaging Label-free nanoplasmonic sensing of tumor-associate autoantibodies for early diagnosis of colorectal cancer Quantification of ovarian cancer markers with integrated microfluidic concentration gradient and imaging nanohole surface plasmon resonance A localized surface plasmon resonance imaging instrument for multiplexed biosensing 96-well plasmonic sensing with nanohole arrays Paper-based microfluidic approach for surface-enhanced Raman spectroscopy and highly reproducible detection of proteins beyond picomolar concentration On-chip immunoassay using surface-enhanced Raman scattering of hollow gold nanospheres Optoelectrofluidic sandwich immunoassays for detection of human tumor marker using surface-enhanced raman scattering Highly reproducible immunoassay of cancer markers on a gold-patterned microarray chip using surface-enhanced Raman scattering imaging Picomolar detection of carcinoembryonic antigen in whole blood using microfluidics and surface-enhanced Raman spectroscopy Detection of hepatitis B virus antigen from human blood: SERS immunoassay in a microfluidic system An optofluidic nanoplasmonic biosensor for direct detection of live viruses from biological media Towards a fast, high specific and reliable discrimination of bacteria on strain level by means of SERS in a microfluidic device Portable microfluidic integrated plasmonic platform for pathogen detection Rapid detection of drugs of abuse in saliva using surface enhanced Raman spectroscopy and microfluidics Nanoplasmonic quantitative detection of intact viruses from unprocessed whole blood Portable microfluidic chip for detection of Escherichia coli in produce and blood Fructose enhanced reduction of bacterial growth on nanorough surfaces Manipulating biological agents and cells in micro-scale volumes for applications in medicine Label-free imaging, detection, and mass measurement of single viruses by surface plasmon resonance Phytochip': on-chip detection of phytopathogenic RNA viruses by a new surface plasmon resonance platform Highly sensitive and specific detection of E. Coli by a SERS nanobiosensor chip utilizing metallic nanosculptured thin films Surface plasmon resonance (SPR) biosensors in pharmaceutical analysis Visualization of high-throughput and label-free antibody-polypeptide binding for drug screening based on microarrays and surface plasmon resonance imaging Chiral discrimination and enantioselective analysis of drugs: an overview Enantioselective analysis of melagatran via an LSPR biosensor integrated with a microfluidic chip Optical biosensors for food quality and safety assurance -a review A label-free and portable multichannel surface plasmon resonance immunosensor for on site analysis of antibiotics in milk samples Miniature multi-channel SPR instrument for methotrexate monitoring in clinical samples key: cord-018159-ycg6waay authors: Peng, Xiaolei; Rajeeva, Bharath Bangalore; Teal, Daniel; Zheng, Yuebing title: Plasmofluidics for Biosensing and Medical Diagnostics date: 2018-01-23 journal: keywords: active; analysis; antibody; applications; applied; approach; arrays; bacteria; beam; binding; biological; biomarker; biosensing; biosensor; blood; cancer; capture; care; cells; challenges; channel; chemical; chip; clinical; coli; concentration; control; convection; conventional; copyright; detection; devices; diagnosis; different; disease; dna; dnas; drug; early; electromagnetic; enhanced; environments; events; field; fig; flow; fluids; food; free; gold; gradient; group; healthcare; heating; high; hot; human; identification; imaging; immunoassay; index; infectious; integrated; label; laser; levels; light; lithography; lod; long; low; lspr; magnitude; manipulations; measurement; medical; metal; microarrays; microfluidic; mode; molecular; molecules; monitoring; multiple; multiplexed; nanohole; nanoparticles; nanoscale; near; new; objects; optical; parallel; plasmofluidic; plasmon resonance; plasmonic; platform; poc; point; portable; power; protein; raman; range; rapid; refractive; resolution; resonance; response; samples; sandwich; scattering; sensing; sensitive; sensitivity; sensor; sers; serum; settings; signal; single; small; solutions; specific; spectroscopy; spots; spp; spri; structures; substrate; surface; surface plasmon; system; target; techniques; temperature; thermal; throughput; time; trapping; tweezers; viruses; wavelength cache: cord-018159-ycg6waay.txt plain text: cord-018159-ycg6waay.txt item: #182 of 647 id: cord-018265-twp33bb6 author: Becker, Pablo D. title: Community-acquired pneumonia: paving the way towards new vaccination concepts date: 2007 words: 14131 flesch: 32 summary: Furthermore, DNA coding for vaccine antigens appears to induce excellent immunological memory, which can be reawakened by later immunization or exposure to the pathogen. An epidermal DNA-based influenza vaccine, which contained the HA gene from A/Panama/2007/99 delivered by particle-mediated epidermal delivery was also tested in humans by PowderJect keywords: acellular; activity; acute; addition; adjuvant; adults; aeruginosa; agents; alternative; analysis; animals; antibodies; antibody; antigenic; antigens; approach; attenuated; availability; available; bacterial; binding; candidate; catarrhalis; cause; cell; challenge; children; chlamydia; cholera; clearance; clinical; cold; community; comparison; components; conjugate; contrast; coronavirus; countries; cov; cystic; delivery; development; different; disease; dna; dose; early; effects; efficacy; efficient; elderly; elicitation; envelope; expression; fact; factors; fibrosis; formulation; fusion; generation; genes; genetic; genome; ghosts; global; haemophilus; healthy; hib; high; hpiv-3; human; identification; immune; immunity; immunization; immunogenicity; immunological; important; inactivated; individuals; induced; induction; infants; infection; influenza; influenza vaccine; influenza virus; intranasal; introduction; invasive; knowledge; legionella; life; like; limited; main; major; maternal; mechanisms; membrane; memory; mice; microbial; model; mucosal; neonatal; neutralizing; new; non; number; organisms; outer; pandemic; pathogen; patients; pertussis; plasma; pneumococcal; pneumoniae; pneumophila; polysaccharide; potential; preclinical; presence; prevention; process; production; promising; protective; protein; pseudomonas; recombinant; respiratory; responses; responsible; results; reverse; role; route; rsv; safety; sars; serotypes; severe; significant; specific; stimulation; strains; strategies; strategy; studies; subunit; surface; syncytial; system; systemic; tetanus; tlr; toxin; trial; type; vaccinated; vaccination; vaccine; vaccinology; viral; virosomes; virulence; virus; viruses; volunteers; years; young cache: cord-018265-twp33bb6.txt plain text: cord-018265-twp33bb6.txt item: #183 of 647 id: cord-018371-16zhx0ai author: Schomburg, Dietmar title: DNA helicase 3.6.4.12 date: 2013 words: 13101 flesch: 55 summary: The optimum concentration of ATP for DNA helicase activity is 1.0 mM. At 8 mM ATP the DNA unwinding activity of PDH120 is inhibited. [14] ; <1> substrate with optimal concentration range between 1 and 2 mM. At high concentrations inhibition of activity can be observed [46] ; <7> the optimum concentration of ATP for DNA helicase activity is 1.0 mM. At 8 mM ATP the DNA unwinding activity of PDH120 is inhibited [15] ) keywords: <33; absence; accession; active; activities; activity; amino; atp; atpase; atpase activity; binding; blunt; cerevisiae; characterization; coli; concentration; ctp; datp; dctp; dependent; dgtp; direction; dna; dna helicase; dna replication; domain; double; dttp; duplex; duplex dna; effective; efficiency; ends; energy; enzyme; escherichia; faster; flap; fork; gene; gtp; helicase; helicase activity; human; hydrolysis; inhibition; inhibits; length; limited; maintenance; nonstructural; ns3; ntps; nucleotides; number; optimal; presence; protein; purification; reaction; recombinant; recq; repair; replication; required; respect; rna; role; saccharomyces; single; ssdna; strand; structure; substrate; support; tail; terminal; translocates; uniprot; unwinding; unwinds; utp; uvrd; virus cache: cord-018371-16zhx0ai.txt plain text: cord-018371-16zhx0ai.txt item: #184 of 647 id: cord-018437-yjvwa1ot author: Mitchell, Michael title: Taxonomy date: 2013-08-26 words: 9285 flesch: 42 summary: Structure-function relations The DNA sequence of human herpesvirus-6: structure, coding content, and genome evolution Processing of genome 5′ termini as a strategy of negative-strand RNA viruses to avoid RIG-Idependent interferon induction Respiratory syncytial virus and parainfl uenza virus Infl uenza virus, Chap 42 Global and regional distribution of HIV-1 genetic subtypes and recombinants in Parainfl uenza viruses Gene mapping of the putative structural region of the hepatitis C virus genome by in vitro processing analysis Evolutionary history and phylogeography of human viruses What does virus evolution tell us about virus origins? Nucleotide sequence and genome organization of human parvovirus B19 isolated from the serum of a child during aplastic crisis CXCR4 as a functional coreceptor for human immunodeficiency virus type 1 infection of primary macrophages The genome length of human parainfl uenza virus type 2 follows the rule of six, and recombinant viruses recovered from non-poly-hexameric-length antigenomic cDNAs contain a biased distribution of correcting mutations Respiratory syncytial virus nonstructural proteins decrease levels of multiple members of the cellular interferon pathways Infl uenza virus evolution, host adaptation, and pandemic formation Mechanisms and enzymes involved in SARS coronavirus genome expression keywords: acid; addition; analysis; antigenic; attachment; biological; cation; cause; cell; cellular; characteristics; ciency; classifi; clinical; complete; core; coronavirus; cytoplasmic; diameter; different; disease; dna; double; dsdna; end; ends; enteroviruses; entities; envelope; et al; evolution; expression; family; fever; forms; frames; genera; genes; genetic; genome; genomic; glycoprotein; group; hemorrhagic; hepatitis; herpesvirus; hiv-1; host; human; icosahedral; immunodefi; infected; infection; infl; isolates; kaposi; large; length; like; major; membrane; molecular; morphology; mrna; negative; new; nonstructural; nucleic; nucleocapsid; nucleus; number; open; order; organization; parvovirus; pathogens; polymerase; positive; processing; proteins; range; reading; regions; related; repeat; replication; respiratory; reverse; rna; segment; sense; sequence; serotypes; single; size; species; specifi; spherical; ssrna; strand; structure; studded; subfamily; subtypes; surface; susceptible; synthesis; systems; taxonomic; taxonomy; transcribed; transcription; translation; type; type species; typical; uenza; unique; viral; viral proteins; virions; virus; virus genome; viruses; vzv cache: cord-018437-yjvwa1ot.txt plain text: cord-018437-yjvwa1ot.txt item: #185 of 647 id: cord-018526-rz7id5mt author: Braun, Serge title: Non-viral Vector for Muscle-Mediated Gene Therapy date: 2018-12-14 words: 5186 flesch: 27 summary: Nevertheless, muscle gene therapy using systemic administration of non-viral vectors retains major hurdles that need to be overcome before any human applications. The efficiency of plasmid gene transfer into skeletal muscle (and other tissues) by direct injection is low (~1% of cell nuclei) and remains confined at the injection site (along the needle track) across species keywords: active; administration; applications; arterial; blind; boost; cationic; cell; cellular; chronic; clinical; complexes; critical; delivery; development; direct; disease; disorders; dna; double; dystrophy; efficacy; efficient; elements; endosomal; endothelial; expression; factor; gag; gene; genetic; growth; healthy; human; hydrodynamic; immune; immunodeficiency; immunogenicity; induction; injection; intramuscular; ischemia; large; levels; limb; lipid; long; low; mouse; muscle; naked; neuromuscular; non; nonhuman; nuclear; patients; perfusion; peripheral; phase; placebo; plasmid; primates; promoter; protein; release; responses; results; review; safety; size; skeletal; specific; studies; study; subjects; synthetic; systemic; systems; therapeutic; therapy; tissue; transfer; transgene; treatment; trial; type; vaccination; vaccine; vascular; vectors; viral; viral vectors; virus; vivo cache: cord-018526-rz7id5mt.txt plain text: cord-018526-rz7id5mt.txt item: #186 of 647 id: cord-018737-1h84yi2i author: Kumar, Sudeep title: Live-Attenuated Bacterial Vectors for Delivery of Mucosal Vaccines, DNA Vaccines, and Cancer Immunotherapy date: 2019-01-10 words: 10738 flesch: 22 summary: typhimurium Shigella interaction with intestinal epithelial cells determines the innate immune response in shigellosis Oral immunization with attenuated Salmonella vaccine expressing Escherichia coli O157: H7 intimin gamma triggers both systemic and mucosal humoral immunity in mice Sparse initial entrapment of systemically injected Salmonella typhimurium leads to heterogeneous accumulation within tumors 1 Salmonella enterica serovar Tphi Ty21a expressing human papillomavirus type 16 L1 as a potential live vaccine against cervical cancer and typhoid fever Induction of cell-mediated immune responses to human immunodeficiency virus type 1 Gag protein by using Listeria monocytogenes as a live vaccine vector A Phase I, dose-escalation trial in adults of three recombinant attenuated Salmonella Typhi vaccine vectors producing Streptococcus pneumoniae surface protein antigen PspA Induction of human immunodeficiency virus (HIV)-specific CD8 T-cell responses by Listeria monocytogenes and a hyperattenuated Listeria strain engineered to express HIV antigens Cloning and characterization of the asd gene of Salmonella typhimurium: use in stable maintenance of recombinant plasmids in Salmonella vaccine strains Optimization of plasmid maintenance in the attenuated live vector vaccine strain Salmonella typhi CVD 908-htrA Adaptation of the endogenous Salmonella enterica serovar Clin Vaccine Immunol CVI Cell-mediated immunity induced by recombinant Mycobacterium bovis Bacille Calmette-Guérin strains against an intracellular bacterial pathogen: importance of antigen secretion or membrane-targeted antigen display as lipoprotein for vaccine efficacy Oral vaccination of mice against Helicobacter pylori with recombinant Lactococcus lactis expressing urease subunit B An influenza HA and M2e based vaccine delivered by a novel attenuated Salmonella mutant protects mice against homologous H1N1 infection Stable expression of lentiviral antigens by quality-controlled recombinant mycobacterium bovis BCG vectors Recombinant Mycobacterium bovis bacillus Calmette-Guérin expressing Ag85B-IL-7 fusion protein enhances IL-17A-producing innate γδ T cells Characterization of Salmonella enterica derivatives harboring defined aroC and Salmonella pathogenicity island 2 type III secretion system (ssaV) mutations by immunization of healthy volunteers Aromatic-dependent Salmonella typhimurium are non-virulent and effective as live vaccines Concomitant cytosolic delivery of two immunodominant Listerial antigens by Salmonella enterica serovar typhimurium confers superior protection against murine listeriosis An attenuated Listeria monocytogenes vector primes more potent simian immunodeficiency virusspecific mucosal immunity than DNA vaccines in mice Expression of a Porphyromonas gingivalis hemagglutinin on the surface of a Salmonella vaccine vector 1-giardin based live heterologous vaccine protects against Giardia lamblia infection in a murine model Shigella flexneri infection: pathogenesis and vaccine development Prophylactic and therapeutic efficacy of an attenuated Listeria monocytogenes-based vaccine delivering HPV16 E7 in a mouse model Live attenuated Listeria monocytogenes expressing HIV Gag: immunogenicity in rhesus monkeys Oral vaccine of Lactococcus lactis harbouring pandemic H1N1 2009 haemagglutinin1 and nisP anchor fusion protein elevates anti-HA1 sIgA levels in mice Attenuated Listeria monocytogenes vaccine vectors expressing influenza A nucleoprotein: preclinical evaluation and oral inoculation of volunteers Immune responses to recombinant pneumococcal PspA antigen delivered by live attenuated Salmonella enterica serovar typhimurium vaccine Comparative analysis using a mouse model of the immunogenicity of artificial VLP and attenuated Salmonella strain carrying a DNA-vaccine encoding HIV-1 polyepitope CTL-immunogen Salmonella typhimurium lacking ribose chemoreceptors localize in tumor quiescence and induce apoptosis Salmonella typhi and S. typhimurium derivatives harbouring deletions in aromatic biosynthesis and Salmonella Pathogenicity Island-2 (SPI-2) genes as vaccines and vectors Expression of Helicobacter pylori cag12 gene in Lactococcus lactis MG1363 and its oral administration to induce systemic anti-Cag12 immune response in mice Oral administration of Lactococcus lactis expressing Helicobacter pylori Cag7-ct383 protein induces systemic anti-Cag7 immune response in mice Comparison between immunization routes of live attenuated Salmonella typhimurium strains expressing BCSP31, Omp3b, and SOD of Brucella abortus in murine model Cell wall anchoring of the Campylobacter antigens to Lactococcus lactis Regulated delayed expression of rfaH in an attenuated Salmonella enterica serovar typhimurium a vaccine enhances immunogenicity of outer membrane proteins and a heterologous antigen Regulated delayed expression of rfc enhances the immunogenicity and protective efficacy of a heterologous antigen delivered by live attenuated Salmonella enterica vaccines Salmonella synthesizing 1-monophosphorylated Lipopolysaccharide exhibits low endotoxic activity while retaining its immunogenicity Turning self-destructing Salmonella into a universal DNA vaccine delivery platform Attenuated shigella flexneri 2a vaccine strain CVD 1204 expressing colonization factor antigen I and mutant heat-labile enterotoxin of enterotoxigenic escherichia coli Safety and immunogenicity of attenuated Salmonella enterica serovar Typhimurium delivering an HIV-1 Gag antigen via the Salmonella Type III secretion system Autodisplay: development of an efficacious system for surface display of antigenic determinants in Salmonella vaccine strains Prime-boost vaccination with heterologous live vectors encoding SIV gag and multimeric HIV-1 gp160 protein: efficacy against repeated mucosal R5 clade C SHIV challenges Brucella lipopolysaccharide reinforced Salmonella delivering Brucella immunogens protects mice against virulent challenge Engineering bacteria toward tumor targeting for cancer treatment: current state and perspectives Immunogenicity of self-adjuvanticity oral vaccine candidate based on use of Bacillus subtilis spore displaying Schistosoma japonicum 26 KDa GST protein Oral immunization with recombinant Lactococcus lactis delivering a multi-epitope antigen CTB-UE attenuates Helicobacter pylori infection in mice Live attenuated Salmonella displaying HIV-1 10E8 epitope on fimbriae: systemic and mucosal immune responses in BALB/c mice by mucosal administration Listeria monocytogenes: a promising vehicle for neonatal vaccination Live-attenuated bacterial vectors: tools for vaccine and therapeutic agent delivery Construction and characterization of recombinant attenuated Salmonella typhimurium expressing the babA2/ureI fusion gene of Helicobacter pylori Remote control of tumour-targeted Salmonella enterica serovar Typhimurium by the use of l-arabinose as inducer of bacterial gene expression in vivo Type IVB pilus operon promoter controlling expression of the severe acute respiratory syndrome-associated coronavirus nucleocapsid gene in Salmonella enterica serovar keywords: acid; activation; aeruginosa; antibiotic; antigen; approach; arabinose; asd; associated; attenuated; attenuated salmonella; attenuation; bacillus; bacterial; balanced; bcg; biosynthesis; bovis; calmette; cancer; cd4; cd8; cells; challenge; characterization; cholerae; coli; colonization; construction; cvd; cytosol; delayed; delivery; dendritic; development; dna; efficacy; enhanced; enterica; epithelial; escherichia; et al; exhibits; expression; factors; flexneri; free; gastrointestinal; genetic; helicobacter; heterologous; high; host; htra; human; humoral; ifnγ; iga; igg; immune; immune response; immunity; immunization; immunogenicity; immunotherapy; infection; interaction; intracellular; kong; labv; lactis; lactococcus; lamina; lethal; level; limited; listeria; live; llo; low; lps; lymph; macrophages; maintenance; mammalian; mice; microbes; model; monocytogenes; mouse; mtb; mucosal; murine; mutant; mutations; mycobacterium; oral; pathogens; pertussis; plasmid; propria; protection; protein; psa; pylori; receptors; recombinant; regulated; response; safety; salmonella; salmonella enterica; secretion; serovar; shigella; signal; specific; spp; stm; strain; subtilis; subunit; superior; surface; synthesis; system; systemic; t cells; th1; therapeutic; tissues; toxin; tumor; ty21a; type; typhimurium; use; vaccination; vaccine; vacuoles; vectors; virulence; virus; vivo; wang cache: cord-018737-1h84yi2i.txt plain text: cord-018737-1h84yi2i.txt item: #187 of 647 id: cord-018897-tceum2m1 author: Zhang, Anqi title: Nanowire Field-Effect Transistor Sensors date: 2016-07-27 words: 6319 flesch: 37 summary: Then, representative examples in which FET sensors are applied to detect chemical and biomolecule targets, including proteins, nucleic acids, viruses, and small molecules, are summarized. and In 2 O 3 ) have been explored extensively as FET sensors [8] [9] keywords: acids; addition; analyte; antibody; arrays; binding; biological; biomolecule; biosensors; branched; buffer; charge; chemical; complementary; complex; concentration; conductance; current; debye; detection; device; diagnosis; different; direct; disease; dna; effect; electrical; example; fet; fets; field; fig; free; frequency; functionalization; fundamental; gate; high; increase; ionic; label; layer; length; methods; molecules; multiplexed; nanoelectronic; nanopore; nanowire; new; noise; nucleic; nws; oxide; physiological; pna; potential; proteins; psa; real; receptors; regime; screening; selective; semiconductor; sensing; sensitive; sensitivity; sensors; serum; silicon; similar; single; sinw; small; solution; species; specific; strategy; strength; studies; subthreshold; surface; target; time; transistor; type; ultrasensitive; unbinding; viruses; voltage; work cache: cord-018897-tceum2m1.txt plain text: cord-018897-tceum2m1.txt item: #188 of 647 id: cord-018944-du42ho11 author: Shin, Jeong Hwan title: Nucleic Acid Extraction and Enrichment date: 2018-11-10 words: 6858 flesch: 38 summary: Philadelphia: F.A. Davis Molecular cloning: A laboratory manual Comparison of different methods of isolation of DNA of commonly encountered Candida species and its quantitation by using a real-time PCR-based assay Correlates of quantitative measurement of BK polyomavirus (BKV) DNA with clinical course of BKV infection in renal transplant patients A solid-phase extraction procedure for DNA purification Detection of microorganisms in vessel wall specimens of the abdominal aorta: development of a PCR assay in the absence of a gold standard Current nucleic acid extraction methods and their implications to point-of-care diagnostics RNA purification and analysis; Sample preparation, extraction, chromatography The effect of metal ions on the activity and thermostability of the extracellular proteinase from a thermophilic Bacillus, strain EA.1 Comparison of commercial DNA extraction kits for extraction of bacterial genomic DNA from whole-blood samples Evaluation of LightCycler PCR for implementation of laboratory diagnosis of herpes simplex virus infections Diagnosis of herpes simplex virus infections in the clinical laboratory by LightCycler PCR Comparison of the Roche LightCycler vanA/vanB detection assay and culture for detection of vancomycin-resistant enterococci from perianal swabs Automated extraction of viral-pathogen RNA and DNA for high-throughput quantitative real-time PCR Comparison of automated nucleic acid extraction methods with manual extraction Monitoring transplant patients for human cytomegalovirus: diagnostic update Comparison of methods for extraction of viral DNA from cellular specimens Comparison of the NucliSENS easyMAG and Qiagen BioRobot 9604 nucleic acid extraction systems for detection of RNA and DNA respiratory viruses in nasopharyngeal aspirate samples Evaluation of NucliSENS easyMAG for automated nucleic acid extraction from various clinical specimens Comparison of two highly automated DNA extraction systems for quantifying Epstein-Barr virus in whole blood Severe acute respiratory syndrome (SARS) Laboratory diagnosis of SARS Multicenter comparison of nucleic acid extraction methods for detection of severe acute respiratory syndrome coronavirus RNA in stool specimens Improved amplification of microbial DNA from blood cultures by removal of the PCR inhibitor sodium polyanetholesulfonate A simple and sensitive method to extract bacterial, yeast and fungal DNA from blood culture material Hydrogen peroxide improves the efficiency of a peripheral blood PCR assay for diagnosis of human brucellosis Serum is the preferred clinical specimen for diagnosis of human brucellosis by PCR Comparison of seven commercial DNA extraction kits for the recovery of Brucella DNA from spiked human serum samples using real-time PCR Real-time PCR of the 16S-rRNA gene in the diagnosis of neonatal bacteraemia Molecular detection and identification of Candida and Aspergillus spp. The method for the nucleic acid extraction can be divided into manual or automated, and this is an important point in the classification of nucleic acid extraction methods. keywords: acid; acid extraction; amplification; aspergillus; assay; automated; available; bacteria; blood; clinical; cmv; column; commercial; common; comparison; culture; cytomegalovirus; detection; diagnosis; differences; different; dna; dna extraction; efficiency; evaluation; extraction; extraction methods; final; fungal; fungi; good; high; human; important; infection; inhibitors; instruments; isolation; kits; laboratory; low; lysis; magna; manual; method; microbiology; molecular; new; nucleic; nucleic acid; pathogens; pcr; performance; phase; phenol; proteins; pure; quantitative; real; recent; recovery; respiratory; results; rna; samples; sensitivity; serum; similar; solid; specific; specimens; step; stool; system; techniques; testing; time; tissue; use; viral; virus; viruses; years cache: cord-018944-du42ho11.txt plain text: cord-018944-du42ho11.txt item: #189 of 647 id: cord-018969-0zrnfaad author: Giese, Matthias title: Types of Recombinant Vaccines date: 2015-09-24 words: 14241 flesch: 44 summary: Vaccine proteins made by the host are natural proteins and contain important posttranslational modifi cations such as the correct glycosylation. By covalent linkage of PRP with T cell dependent protein antigens, a conjugated vaccine was created to overcome the T cell independent characteristics of PRP. keywords: ability; able; acaricide; acid; activation; adjuvant; administration; adult; amino; animal; antibodies; antibody; antigen; antigenic; apis; associated; attenuated; available; bacteria; bees; binding; blood; bm86; cacy; candidate; capsid; carrier; cation; cattle; ccd; cells; cellular; challenge; chemical; class; clinical; coli; colony; common; complete; complex; conserved; contact; control; core; cross; days; dcs; delivery; destructor; development; different; disease; dna; dna vaccine; dogs; effective; effects; effi; egfp; epitopes; essential; exneri; expression; feeding; fi sh; fig; food; gas; gas vaccine; gene; genome; group; gut; heart; heterologous; high; honey; horses; host; human; humoral; identifi; iga; igg; immune; immune response; immunity; immunization; immunogenicity; impact; important; induced; induction; infected; infection; infl; insect; intranasal; invaplex; ipab; kda; lab; lack; lactobacillus; levels; like; likely; lipid; m protein; main; major; meal; melanoma; mellifera; membrane; mice; microplus; mites; model; molecules; mortality; mucosal; multiple; natural; need; new; non; norovirus; norwalk; nov; novs; number; nvcp; opsonic; oral; outer; particles; pathogen; peptide; period; pestis; plague; plasmid; plasmid dna; populations; positive; present; process; production; protective; protein; prp; purifi; reactive; recombinant; region; resistance; response; results; rhipicephalus; rna; role; rst; safety; salmon; secretion; sequence; serum; shigella; shigella fl; signal; single; site; sonnei; species; specifi; spread; strains; streptococcal; studies; subunit; surface; symptoms; system; systemic; target; tick; tick vaccine; tissue; toxin; transmission; type; united; vaccination; vaccine; varroa; vectors; viral; virus; viruses; vlps; vp1; wild; wnv cache: cord-018969-0zrnfaad.txt plain text: cord-018969-0zrnfaad.txt item: #190 of 647 id: cord-019050-a9datsoo author: Ambrogi, Federico title: Bioinformatics and Nanotechnologies: Nanomedicine date: 2014 words: 8853 flesch: 23 summary: Now, scientists can obtain a genome-wide perspective of cancer gene expression useful to discover novel cancer biomarkers for more accurate diagnosis and prognosis, and monitoring of treatment effectiveness. Current applications involve high-throughput analysis of gene expression data and for multiplexed molecular profiling of intact cells and tissue specimens. keywords: alterations; analysis; application; approaches; assessment; better; bioinformatics; biological; biology; biomarkers; biostatistics; breast; breast cancer; cancer; cells; cellular; changes; class; clinical; comparison; context; contrast; control; current; data; data analysis; delivery; detection; development; devices; diagnostic; different; discovery; disease; dna; dots; early; epithelial; evaluation; experiments; expression; fact; factors; false; fdr; framework; functional; gene; gene expression; generation; genetic; genome; genomic; great; groups; growth; guidelines; high; human; imaging; information; integration; interest; key; large; level; major; making; medicine; methods; microarray; molecular; multiple; multiplexed; multivariate; nanoparticles; nanotechnology; new; ngs; normal; number; omic; outcome; particular; patients; pcr; personalized; perspective; platforms; possible; potential; predictive; prevention; probability; problem; procedures; process; profiles; profiling; prognostic; progression; proteins; quantum; related; relevant; research; response; results; role; signatures; single; specific; statistical; stem; strategies; stroma; structure; studies; study; techniques; technologies; technology; tests; therapy; thousands; throughput; time; tissue; tools; translational; treatment; tumor; useful; wide cache: cord-019050-a9datsoo.txt plain text: cord-019050-a9datsoo.txt item: #191 of 647 id: cord-020010-q58x6xb0 author: None title: 19th ICAR Abstracts: date: 2006-03-13 words: 46881 flesch: 40 summary: Although anti-inflammatory agents are not very active in vitro, it is thought that they might be efficacious in reducing any deleterious inflammatory response associated with virus infections such as SARS infections in humans. Although only BTCRB and BDCRB were inhibitors of the ATPase activity, two other compounds, dBDCRB and Cl4RB, inhibited virus replication in a plaque-reduction assay, thus indicating that those have a different mode of action. keywords: ability; absence; academy; acid; acknowledgement; action; active; activities; activity; acyclic; acyclovir; addition; administration; adsorption; agents; ai-15435; aids; alpha; amantadine; amino; analogs; analogues; analysis; animals; antibody; antiviral activity; antiviral agents; antiviral compounds; antiviral drugs; antiviral effect; antiviral research; antiviral therapy; antivirals; approach; approved; assay; associated; attractive; available; avian; azt; baculovirus; bases; belgium; beta; better; binding; bioavailability; biological; block; blood; borano; brain; branch; broad; bulgaria; c virus; cada; canada; capravirine; carbocyclic; castanospermine; cause; cbv; cc50; cccdna; ccr5; cd4; cdv; celgosivir; cells; center; central; chain; challenge; changes; chemical; chemistry; chiba; chronic; cidofovir; class; cleavage; clinical; cns; college; combination; compounds; concentrations; conclusion; containing; contract; control; correlation; cowpox; coxsackievirus; cpe; culture; current; cycle; cyclosal; cytomegalovirus; cytopathic; cytotoxicity; daily; dap; data; days; decrease; delivery; department; dependent; derivatives; design; determined; development; different; direct; discovery; disease; disoxaril; dna; dose; double; dpi; drug; early; ebola; ec50; effect; effective; efficacy; efficient; efforts; entry; enzymatic; enzyme; essential; esters; etvr; evaluation; evidence; experiments; exposure; expression; f13l; factor; family; fever; fever virus; fluorescent; fold; formation; forms; formulations; fractal; fragments; function; fusion; gene; generation; genome; genotype; germany; good; gp41; grant; greater; groups; growth; gs9148; gsh; h1n1; h5n1; half; hamburg; hamsters; hbv; hcmv; hcv; hcv rna; hdp; hdp-(s)-hpmpa; health; hela; hepatitis; herpes; herpesviruses; high; higher; hiv; hiv activity; hiv infection; hiv replication; hiv-1; host; hpv31; hsv; human; i.p; ifn; iii; immune; important; improved; increase; index; infected; infected cells; infection; influence; influenza; influenza activity; influenza infection; influenza virus; inhibited; inhibition; inhibitors; inoculated; inoculation; institute; integrase; interaction; interest; interferon; intracellular; intranasal; investigation; isis; isolated; italy; japan; jev; key; kidney; kinase; known; korea; laboratory; large; lassa; later; lead; lesions; lethal; leuven; levels; life; like; limited; lines; liver; long; loss; low; lower; lung; macrophages; major; manner; mdck; mean; mechanism; medical; medicine; membrane; methods; mice; microbicide; microbiology; minigenome; model; modifications; moiety; molecular; molecule; mortality; mouse; mrna; mt-2; multiple; mutants; mutations; national; natural; need; new; new antiviral; niaid; nih; no1; non; normal; novel; ns5b; ntp; nucleoside; number; objective; observed; oligonucleotide; optimal; oral; order; orthopoxvirus; oseltamivir; parameters; parent; particular; patients; pbmcs; pcr; peptide; peramivir; permeability; pfu; phenyl; phosphonates; phosphorothioate; phosphorylation; pkr; placebo; plaque; plasmid; pmos; poliovirus; polymerase; poor; position; positive; possible; post; potency; potent; potential; potential antiviral; preliminary; prepared; presence; present; previous; primary; prk2; process; prodrugs; products; program; promising; properties; protease; protection; protein; purified; purine; qsar; quantitative; range; rapid; real; recent; receptor; recombinant; reduced; reduction; rega; region; related; relationship; relative; removal; replication; replicon; report; reproduction; rescue; research; residues; resistant; resistant virus; respiratory; response; results; reverse; ribavirin; ring; risk; rna; rna replication; robert; role; rsv; russia; samples; sars; school; sciences; screening; second; selection; selective; selectivity; sensitive; sensitivity; seoul; sequence; series; set; severe; shrna; significant; similar; simplex; single; sirnas; site; size; small; smallpox; sofia; species; specific; specific antiviral; spectrum; spread; st-246; stability; stable; state; step; strain; strategy; strong; structure; studies; study; subsequent; substitutions; suitable; survival; susceptibility; synergistic; synthesis; synthetic; system; t20; t215y; target; targeting; technology; tested; tfv; therapeutic; therapies; therapy; thymidine; time; tissue; titers; tools; transcriptase; transcription; transmission; treatment; type; ul97; unique; university; untreated; uptake; usa; useful; vaccine; vaccinia; vaccinia virus; values; variants; varicella; variety; vector; vero; vidarabine; viral dna; virions; virip; virology; virus; virus activity; virus infection; virus replication; virus titers; viruses; vitro; vivo; vzv; weeks; weight; wide; wild; wnv; work; yang; zoster cache: cord-020010-q58x6xb0.txt plain text: cord-020010-q58x6xb0.txt item: #192 of 647 id: cord-020235-stcrozdw author: None title: Abstracts of Papers Presented at the 38th Meeting of the Deutsche Gesellschaft für Hygiene und Mikrobiologie, Virology Section, Göttingen, 5.–8.10.1981 date: 2012-03-15 words: 13511 flesch: 54 summary: 2. the number of virus producing cells is not cor related with the appe arance of slgM or sIgG. 3. virus yields seem to be influenced by the cell cycle: the number of chick emb ryo fibro blasts producing plaques in infectious center assays is increased after synchro nisa tion of the cells before infection. Recent studies on protein kinases from a number of tumor viruses have raised the possibility that the phosphorylation of cell proteins is involved in the processes leading to cell transformation. keywords: -the; 32p; 6/94; able; acid; activation; activity; ad12; addition; adenovirus; amino; analysis; animals; antibodies; antibody; antigen; antiserum; atp; bam; blood; breast; capsid; cases; cells; cellular; chains; changes; characterization; characterized; chromatography; cleavage; clones; complex; conditions; contrast; control; core; cultures; d-8000; data; day; days; detection; determined; different; disease; dna; doerfler; early; eeg; effect; electron; elisa; end; enzyme; erythrocytes; experiments; expression; fibroblasts; fmdv; form; fragments; function; gel; gene; genome; glycoproteins; glycosylation; group; hav; hbsag; hbv; hemagglutinin; hepatitis; herpesvirus; high; host; hpv; hsv; human; hybridization; identical; igg; igm; immunofluorescence; infected; infected cells; infection; influenza; insr; inst; isolated; kinase; large; lesions; major; map; max; measles; med; membrane; meningitides; methods; methylation; mice; microscopy; molecular; mouse; mutants; negative; new; non; number; observed; ofo; origin; p.i; p30; page; particles; patients; patterns; peptides; phosphate; phosphorylation; polypeptides; positive; possible; precursor; preparations; presence; primary; production; protein; purified; range; reaction; receptor; recombinants; recombination; recovered; region; restriction; results; rna; saimiri; samples; sds; sensitivity; sequence; sera; serial; serum; similar; simplex; sites; small; species; specific; specificity; sspe; stool; strains; structure; studies; study; subtype; sv40; synthesis; system; technique; test; time; tissue; titers; tpv; treatment; trypsin; tumor; tupaia; type; units; univ; viral; virions; virologie; virus; viruses; vitro; vivo; von; vsv; weight; wild; women; years cache: cord-020235-stcrozdw.txt plain text: cord-020235-stcrozdw.txt item: #193 of 647 id: cord-020969-lh2ergpm author: STRAUSS, JAMES H. title: Gene Therapy date: 2012-07-27 words: 11796 flesch: 49 summary: Recombination has been used to insert foreign genes and to delete virus genes involved in lytic growth or toxicity. In principle, any virus can be used as a vector, and systems that use a very wide spectrum of virus vectors have been described. keywords: 17d; ada; adenovirus; amounts; antigen; approach; attenuated; budr; case; cdna; cells; chapter; clinical; clinical trials; clones; control; culture; date; defective; delivery; different; disease; dna; dystrophin; early; encephalitis; encoding; expression; fever; fig; foreign; foreign gene; gene; gene therapy; genetic; genome; glycoprotein; helper; high; hiv; homologous; humans; immune; infected; infectious; insert; interest; large; leukemia; line; long; mrnas; murine; neurons; new; nonstructural; number; order; packaging; particular; patients; phase; plasmid; poliovirus; polyprotein; possible; potential; prm; production; progeny; promoter; protein; recent; receptor; recombinant; recombination; region; replication; replicons; response; results; retroviral; retroviruses; rna; scid; second; sequences; size; specific; strand; structural; studies; subgenomic; surface; symptoms; system; table; therapy; tk gene; transcribed; treatment; trials; tumor; type; useful; vaccines; vaccinia; vaccinia virus; vectors; viral; virus; virus vectors; viruses; vsv; yellow cache: cord-020969-lh2ergpm.txt plain text: cord-020969-lh2ergpm.txt item: #194 of 647 id: cord-021063-4y8m33ea author: Hug, Peter title: Chapter 18 The advantages of liposome-based gene therapy: A comparison of viral versus liposome-based gene delivery date: 2007-09-02 words: 6271 flesch: 46 summary: Some general characteristics of the viruses currently being developed as gene therapy vectors are presented in Table 2 . Wild-type retroviruses are contained within a lipid membrane and have two identical copies of an RNA genome. Adenoviruses that are being considered for use as gene therapy vectors have had substantial parts of their genome removed, rendering them unable to replicate except in specially developed cell lines (i.e., packaging cell lines) that express the removed proteins (Kozarsky and Wilson, 1993) . keywords: addition; adenoviral; advantages; binding; cationic; cells; circulation; complexes; cytoplasm; delivery; different; disease; dna; efficiency; encapsulation; entrapment; et al; exogenous; expression; fraction; fusion; gene; gene therapy; general; genome; high; host; human; infection; insertional; integration; large; level; lipid; liposomal; liposomes; membrane; methods; patient; phospholipids; possible; preparation; present; problem; proteins; retroviral; retroviruses; size; small; specific; surface; system; target; targeting; therapeutic; therapy; time; transfection; transfer; treatment; type; use; vectors; vesicles; viral; virus; viruses; vivo; wild cache: cord-021063-4y8m33ea.txt plain text: cord-021063-4y8m33ea.txt item: #195 of 647 id: cord-021532-6hmn90ac author: Von Seggern, Dan J. title: ADENOVIRAL VECTORS FOR PROTEIN EXPRESSION date: 2007-09-02 words: 12558 flesch: 34 summary: In vitro and in vivo synthesis of the hepatitis B virus surface antigen and of the receptor for polymerized human serum albumin from recombinant human adenoviruses Efficient expression of protein coding genes from the murine U1 small nuclear RNA promoter Overexpression of hexokinase I in isolated islets of Langerhans via recombinant adenovirus Isolation of a common receptor for coxsackie B viruses and adenoviruses 2 and 5 Expression of heterologous sequences in adenoviral vectors Generation of adenovirus by transfection of plasmids Abundant expression of polyomavirus middle T antigen and dihydrofolate reductase in an adenovirus recombinant Template requirements for in vivo replication of adenovirus DNA Packaging capacity and stability of human adenovirus type 5 vectors An efficient and flexible system for construction of adenovirus vectors with insertions or deletions in early regions 1 and 3 Protective immunity to rotavirus-induced diarrhoea is passively transferred to newborn mice from naive dams vaccinated with a single dose of a recombinant adenovirus expressing rotavirus VP7sc Overexpression of RANTES using a recombinant adenovirus vector induces the tissue-directed recruitment of monocytes to the lung Construction of a double recombinant adenovirus vector expressing a heterodimeric cytokine: In vitro and in vivo production of biologically active interleukin-12 A gene transfer vector-cell line system for complete functional complementation of adenovirus early regions E1 and E4 Expression and immunogenicity of the spike glycoprotein of porcine respiratory coronavirus encoded in the E3 region of adenovirus Constitutive episomal expression of polypeptide IX (pIX) in a 293-based cell line complements the deficiency of pIX mutant adenovirus type 5 High level expression of the envelope glycoproteins of the human immunodeficiency virus type 1 in presence of rev gene using helper-independent adenovirus Type 7 recombinants Efficient generation of recombinant adenovirus vectors by homologous recombination in Escherichia coli Disappearance of body fat in normal rats induced by adenovirus-mediated leptin gene therapy Breast cancer selective gene expression and therapy mediated by recombinant adenoviruses containing the DF3/MUC1 promoter Coexpression of the simian immunodeficiency virus Env and Rev proteins by a recombinant human adenovirus host range mutant An amazing sequence arrangement at the 5' ends of adenovirus 2 messenger RNA. Proteins successfully produced from recombinant Ad (see below) have included heterologous viral proteins, intracellular enzymes, cell surface proteins, and secreted proteins such as cytokines and Table 1 . keywords: ability; active; ad vectors; ad5; adenovirus; adenovirus dna; adenovirus type; adenovirus vectors; administration; advantage; antigen; available; background; biology; capacity; cdna; cells; cellular; chromosome; cloning; cmv; complete; complex; construction; control; cre; culture; defective; deletion; delivery; development; different; dna; early; efficient; elements; encoding; end; enzyme; et al; expected; experiments; expression; factor; fiber; fig; foreign; fragments; function; gene; gene expression; gene transfer; generation; genome; graham; growth; hbsag; helper; hepatitis; high; host; human; infected; infection; insertion; integrins; interest; isolated; kinase; large; late; left; length; levels; line; liver; lung; m.u; major; medium; methods; mice; mlp; molecule; mouse; muscle; nondefective; normal; number; packaging; particles; penton; place; plaques; plasmid; presence; prevec; production; products; promoter; protein; protein expression; purified; rat; receptor; recombinant; recombinant adenovirus; recombinant protein; recombination; region; replication; response; restriction; rev; right; sequences; similar; sites; specific; standard; studies; study; surface; synthesis; system; terminal; therapy; tissue; tpl; transcription; transfection; transfer; transgene; type; unique; useful; vectors; viral; viral dna; viruses; vitro; vivo; work; workers cache: cord-021532-6hmn90ac.txt plain text: cord-021532-6hmn90ac.txt item: #196 of 647 id: cord-021966-5m21bsrw author: Shaw, Alan R. title: Vaccines date: 2009-05-15 words: 21179 flesch: 27 summary: 67 n NeW ANTIGeN dISCOVeRy MeThOdS n Historically, vaccine antigens were not discovered in the literal sense. The history of vaccine development is rich with immunologic insights that emerged from careful observations of how diseases spread in populations and how such spread differs in disease-naïve and experienced populations, as well as of how innovative experimental approaches revealed fundamental aspects of immune system function. keywords: ability; active; adaptive; addition; adenovirus; adjuvant; administration; adults; advances; adverse; age; agents; alum; animal; antibodies; antibody; antibody responses; antigens; apcs; approaches; associated; attenuated; available; bacterial; bcg; benefits; biology; bovine; canarypox; candidate; care; cases; cause; cd4; cd8; cell; cell responses; cellular; certain; challenges; chapter; childhood; children; clear; clinical; cmv; combination; common; concerns; correlate; countries; course; cpg; culture; current; delivery; development; different; diphtheria; discovery; disease; distinct; diverse; dna; dna vaccines; early; effective; effects; efficacy; efforts; end; evaluation; evidence; example; experimental; expressed; expression; fever; fig; form; function; future; gene; general; generation; genetic; genome; global; group; health; hepatitis; herpes; high; hiv; host; host immune; hpv; human; humoral; immune; immune protection; immune responses; immune system; immunity; immunization; immunized; immunogenicity; immunogens; immunologic; impact; important; inactivated; individuals; induction; infected; infection; influenza; initial; innate; instances; interest; large; level; licensed; likely; limited; live; major; malaria; measles; mechanisms; memory; methods; molecular; morbidity; multiple; mva; natural; necessary; need; neutralizing; new; new vaccine; novel; number; particles; passive; pathogen; pathways; pertussis; phase; placebo; polio; polysaccharide; population; potential; poxvirus; preclinical; pregnant; present; presentation; prevention; prior; process; products; programs; protection; protein; public; purified; range; recent; recombinant; recombinant vaccine; relative; replication; respiratory; responses; result; risk; rna; rotavirus; rsv; safety; second; severe; significant; size; smallpox; specific; specific immune; spread; strain; strategies; studies; study; subunit; successful; sufficient; surface; system; target; time; tlrs; transmission; trials; tuberculosis; type; use; vaccination; vaccine; vaccine development; vaccine safety; vaccine vectors; vaccinia; variants; varicella; vectors; viral; virus; virus vaccine; viruses; vivo; vlps; way; women; years cache: cord-021966-5m21bsrw.txt plain text: cord-021966-5m21bsrw.txt item: #197 of 647 id: cord-022037-4ik3jxjy author: Alvarez, Mar title: CANTILEVER BIOSENSORS date: 2008-07-05 words: 6812 flesch: 37 summary: This section reviews some of the biosensing applications of the microcantilever-optical read-out configurations, as well as the different approaches proposed to increase cantilever biosensor sensitivity. Direct detection of DDT was achieved with a competitive assay, measuring DTT concentrations as low as 10nM. In addition, the novel development for early osteosarcoma discovery, sensing the interactions between vimentin antibodies and antigens with a single cantilever-based biosensor, proved that cantilever biosensors can provide a suitable platform for life sciences research (Milburn et al., 2005) . keywords: addition; air; alternative; applications; array; beam; bending; biochemical; biomolecular; biosensing; biosensors; cantilever; change; chemical; detection; devices; different; displacement; dna; dynamic; energy; et al; fabrication; factor; field; figure; final; forces; free; frequency; gold; high; hybridization; immobilization; increase; induced; integrated; integration; interactions; laser; length; light; liquids; low; lower; mass; measured; measuring; mechanical; method; microcantilevers; mode; nanomechanical; new; non; number; optical; order; platform; possible; properties; protein; quality; range; read; real; receptor; recognition; related; resolution; resonance; response; sams; sensitive; sensitivity; silicon; single; specific; spring; static; stress; subsequent; surface; system; techniques; technology; thickness; thiol; time; total; waveguide; working; zinoviev cache: cord-022037-4ik3jxjy.txt plain text: cord-022037-4ik3jxjy.txt item: #198 of 647 id: cord-022128-r8el8nqm author: Domingo, Esteban title: Molecular basis of genetic variation of viruses: error-prone replication date: 2019-11-08 words: 17674 flesch: 30 summary: Mechanisms and Consequences Structure-function relationships underlying the replication fidelity of viral RNAdependent RNA polymerases Phage as agents of lateral gene transfer Incorporation fidelity of the viral RNA-dependent RNA polymerase: a kinetic, thermodynamic and structural perspective Mutations and A/I hypermutations in measles virus persistent infections Evolution of sex in RNA viruses Viral RNAdirected RNA polymerases use diverse mechanisms to promote recombination between RNA molecules Insertion/deletion frequencies match those of point mutations in the hypervariable regions of the simian immunodeficiency virus surface envelope gene Arbovirus high fidelity variant loses fitness in mosquitoes and mice Genetic variation in retroviruses Variation in RNA virus mutation rates across host cells Parallel evolution of drug resistance in HIV: failure of nonsynonymous/synonymous substitution rate ratio to detect selection The vaccinia virus DNA polymerase and its processivity factor Silent mutations in sight: co-variations in tRNA abundance as a key to unravel consequences of silent mutations Improvement of phi29 DNA polymerase amplification performance by fusion of DNA binding motifs Linking RNA sequence, structure, and function on massively parallel highthroughput sequences Defective interfering influenza virus RNAs: time to reevaluate their clinical potential as broad-spectrum antivirals? Virus entry into error catastrophe as a new antiviral strategy Viral Quasispecies Nucleotide sequence heterogeneity of an RNA phage population Genetic variability and antigenic diversity of foot-and-mouth disease virus Quasispecies: the concept and the word Quasispecies and RNA Virus Evolution: Principles and Consequences Evolution of footand-mouth disease virus Viral quasispecies: dynamics, interactions and pathogenesis A constant rate of spontaneous mutation in DNA-based microbes Mutation rates among RNA viruses Detenction of truncated virus particles in a persistent RNA virus infection in vivo Evolvability is a selectable trait High fidelity of murine hepatitis virus replication is decreased in nsp14 exoribonuclease mutants Infidelity of SARS-CoV Nsp14-exonuclease mutant virus replication is revealed by complete genome sequencing Error catastrophe and antiviral strategy Sequence space and quasispecies distribution Adaptive value of high mutation rates of RNA viruses: separating causes from consequences Multiple molecular pathways for fitness recovery of an RNA virus debilitated by operation of Muller's ratchet RT-PCR amplification and cloning of large viral sequences Adaptation of mRNA structure to control protein folding A comparison of viral RNA-dependent RNA polymerases Structural insights into replication initiation and elongation processes by the FMDV RNA-dependent RNA polymerase Random mutagenesis using error-prone DNA polymerases Specialized DNA polymerases, cellular survival, and the genesis of mutations DNA Repair and Mutagenesis Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection Extremely high mutation rate of a hammerhead viroid RNA recombination in vivo in the absence of viral replication Comparative analysis of the molecular mechanisms of recombination in hepatitis C virus DNA replication-a matter of fidelity Evolutionary transition toward defective RNAs that are infectious by complementation Information dynamics in carcinogenesis and tumor growth Evolution of circulating wild poliovirus and of vaccine-derived poliovirus in an immunodeficient patient: a unifying model In-depth, longitudinal analysis of viral quasispecies from an individual triply infected with late-stage human immunodeficiency virus type 1, using a multiple PCR primer approach Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution Molecular Basis of Virus Evolution Functional and genetic plasticities of the poliovirus genome: quasi-infectious RNAs modified in the 5'-untranslated region yield a variety of pseudorevertants Nonreplicative homologous RNA recombination: promiscuous joining of RNA pieces? Mutation frequencies measured by subjecting virus to a specific selective agent (e.g., mutants that escape the neutralizing activity of a monoclonal antibody or mutants that escape inhibition by a drug) span a broad range of values (10 À 3 to 10 À 8 ) for DNA and RNA viruses (Smith and Inglis, 1987; Sarisky et al., 2000; Domingo et al., 2001) (Table 2 .1). keywords: absence; acid; activities; activity; adaptive; agol; alternative; amino; analysis; antiviral; apobec; associated; average; base; basis; behavior; biochemical; biological; bonds; capacity; case; cells; cellular; chain; change; chapter; codons; colleagues; complex; consequences; context; copying; decrease; defective; deletions; dependent; devoid; different; disease; diversity; dna; dna replication; domingo; domingo et; double; drift; drug; effects; environment; error; et al; events; evidence; evolution; evolutionary; evolvability; evolved; example; exonuclease; experimental; fidelity; fig; fitness; fmdv; formation; forms; frequencies; frequency; friedberg; function; general; generation; genetic; genome; genome replication; genomic; gmyl; hepatitis; high; high mutation; higher; hiv-1; holland; homologous; host; human; hydrogen; hypermutation; important; incorporation; increase; infection; influenza; interactions; interfering; large; level; likely; limited; long; low; lower; machinery; means; mechanisms; modifications; molecular; molecules; mouth; mrna; multiple; mutagenesis; mutagenic; mutant; mutation; mutation rates; negative; neutral; new; nonsynonymous; nucleic; nucleotide; number; occurrence; origin; pairs; parental; particles; passages; phenotypic; plant; point; poliovirus; polymerase; polynucleotide; population; positive; potential; present; primer; processes; progeny; prone; proofreading; properties; proteins; quasispecies; random; range; rates; reassortment; recombinants; recombination; references; regions; relative; relevant; repair; replication; residues; resistance; result; retroviruses; reverse; rise; rna; rna genome; rna polymerase; rna recombination; rna viruses; rnas; role; section; segment; segmentation; segmented; selection; selective; sequence; ser; short; single; site; size; space; specific; spectrum; stability; standard; strand; structure; studies; study; substitutions; synonymous; synthesis; system; template; term; theory; transcriptase; transition; type; values; variant; variation; viral; viral genome; viral rna; virus; virus evolution; virus replication; viruses; vitro; vivo; wild; yield cache: cord-022128-r8el8nqm.txt plain text: cord-022128-r8el8nqm.txt item: #199 of 647 id: cord-022142-d4yxgv83 author: David, Ayelet title: Polymer-Based DNA Delivery Systems for Cancer Immunotherapy date: 2016-05-28 words: 7791 flesch: 32 summary: immunotherapy Targeting tumor antigens to dendritic cells using particulate carriers Engineering dendritic cells to enhance cancer immunotherapy Combining immunotherapy and targeted therapies in cancer treatment Dendritic cell based PSMA immunotherapy for prostate cancer using a CD40-targeted adenovirus vector Immunobiology of dendritic cells Taking dendritic cells into medicine Presentation of tumour antigens by dendritic cells and challenges faced Intracellular events regulating cross-presentation Spinning molecular immunology into successful immunotherapy Towards a systems understanding of MHC class I and MHC class II antigen presentation Dendritic cell-based cancer gene therapy Multivalent glycopeptide dendrimers for the targeted delivery of antigens to dendritic cells Into the intracellular logistics of cross-presentation Cross-priming in health and disease A modular and combinatorial view of the antigen crosspresentation pathway in dendritic cells Regulation of antigen transport into the cytosol for crosspresentation by ubiquitination of the mannose receptor Cellular vaccine approaches Whole tumor antigen vaccines Improvement of different vaccine delivery systems for cancer therapy Third generation dendritic cell vaccines for tumor immunotherapy Dendritic-cell immunotherapy: from ex vivo loading to in vivo targeting Design and development of polymers for gene delivery RNA-based vaccines Mesenchymal stem cells: a promising targeteddelivery vehicle in cancer gene therapy Cationic polymer based gene delivery systems Biodegradable nanoparticles of mPEG-PLGA-PLL triblock copolymers as novel non-viral vectors for improving siRNA delivery and gene silencing Polymers for intracellular delivery of nucleic acids Synthesis of biodegradable multi-block copolymers of poly( L -lysine) and poly(ethylene glycol) as a non-viral gene carrier Novel vectors for gene delivery formed by self-assembly of DNA with poly( L -lysine) grafted with hydrophilic polymers Stabilization of poly-L -lysine/ DNA polyplexes for in vivo gene delivery to the liver Steric stabilization of poly-L -lysine/DNA complexes by the covalent attachment of semitelechelic poly Polymer-based gene delivery with low cytotoxicity by a unique balance of side-chain termini Role of DNA topology in uptake of polyplex molecules by dendritic cells Poly-L -lysine-coated nanoparticles: a potent delivery system to enhance DNA vaccine effi cacy Mannose-based molecular patterns on stealth microspheres for receptor-specifi c targeting of human antigen-presenting cells Revisit complexation between DNA and polyethylenimine-effect of length of free polycationic chains on gene transfection The proton sponge: a trick to enter cells the viruses did not exploit Polycation gene delivery systems: escape from endosomes to cytosol Different behavior of branched and linear polyethylenimine for gene delivery in vitro and in vivo Polyethylenimine-mediated gene delivery to the lung and therapeutic applications Biodegradable poly(ethylenimine) for plasmid DNA delivery Design of magnetic polyplexes taken up effi ciently by dendritic cell for enhanced DNA vaccine delivery Polyethylenimine-graft-poly(ethylene glycol) copolymers: infl uence of copolymer block structure on DNA complexation and biological activities as gene delivery system The decrease of PAMAM dendrimerinduced cytotoxicity by PEGylation via attenuation of oxidative stress PEGylation signifi cantly affects cellular uptake and intracellular traffi cking of non-viral gene delivery particles Recent developments in cancer vaccines Rapid monoclonal antibody generation via dendritic cell targeting in vivo Delivery of antigen to CD40 induces protective immune responses against tumors Since tumor cells are poor antigen-presenting cells, cross-presentation of tumor antigens by dendritic cells (DCs) is essential for the generation of tumor-specific cytotoxic T-lymphocyte responses. keywords: -lysine; activation; activity; addition; antigen; apcs; applications; binding; biodegradable; branched; cancer; carriers; cationic; cd8; cells; chitosan; ciency; cient; class; clinical; complexes; cross; ctl; cytotoxicity; dcs; delivery; dendrimers; dendritic; dendritic cells; development; different; disease; dna; dna delivery; drug; effi; encoding; exogenous; expression; fig; gene; gene delivery; generation; high; human; immune; immunization; immunotherapy; infl; intracellular; large; ligands; long; low; lymph; macrophages; major; mannose; maturation; mhc; mhc class; microspheres; modifi; molecules; nanoparticles; non; ova; pamam; pathway; patient; pei; peptide; plasmid; plga; pll; polymeric; polymers; polyplexes; presentation; processing; properties; protein; receptors; release; response; signifi; specifi; surface; system; targeted; targeting; transfection; transfection effi; treatment; tumor; unique; uptake; use; vaccine; vectors; viral; vitro; vivo cache: cord-022142-d4yxgv83.txt plain text: cord-022142-d4yxgv83.txt item: #200 of 647 id: cord-022168-qautse9a author: Liu, Li title: Clinical Use of DNA Vaccines date: 2017-07-25 words: 7126 flesch: 34 summary: Additional insight gained from the success of DNA vaccines in veterinary practice is that the DNA scaling-up might not be a potential hindrance for DNA vaccine being effective in humans. intradermal (i.d.) administration (VRC 011) HIV DNA Vaccine: stepwise improvements make a difference DNA vaccines: developing new strategies against cancer The end or the beginning of the drive to an HIV-preventive vaccine: a view from over 20 years Adjuvanting a DNA vaccine with a TLR9 ligand plus Flt3 ligand results in enhanced cellular immunity against the simian immunodeficiency virus DNA priming and influenza vaccine immunogenicity: two phase 1 open label randomised clinical trials Targeting plasmid-encoded proteins to the antigen presentation pathways Therapeutic HPV DNA vaccines DNA vaccines: an historical perspective and view to the future Prospects for control of emerging infectious diseases with plasmid DNA vaccines HIV therapeutic vaccines: moving towards a functional cure Clinical development of a cytomegalovirus DNA vaccine: from product concept to pivotal phase 3 trial Xenogeneic human p53 DNA vaccination by electroporation breaks immune tolerance to control murine tumors expressing mouse p53 Genetic immunization is a simple method for eliciting an immune response Using plasmids as DNA vaccines for infectious diseases Induction of broadly neutralizing H1N1 influenza antibodies by vaccination Direct gene transfer into mouse muscle in vivo DNA vaccine for cancer immunotherapy ▶ Gene Delivery by Electroporation In Vitro: Mechanisms keywords: activation; additional; adjuvant; administration; antibodies; antigen; approach; associated; boost; cancer; capable; cells; cellular; clinical; consensus; cpg; cytotoxic; delivery; development; diseases; dna; dna vaccines; effective; efficacy; electroporation; encoding; et al; example; expression; gene; genetic; hiv; host; hpv; human; humoral; i.m; immune; immunity; immunization; immunogenicity; induced; infectious; influenza; injection; intramuscular; kinnear; large; licensed; liu; lymphocytes; melanoma; mice; molecules; neutralizing; normal; number; order; pandemic; phase; plasmid; potential; preclinical; prime; priming; protection; proteins; recombinant; responses; result; route; sequence; specific; strains; studies; system; technology; therapeutic; therapy; tissues; tlr9; tolerance; treatment; trials; tumor; type; uptake; use; vaccination; vaccine; vector; viral; virus; xenogeneic cache: cord-022168-qautse9a.txt plain text: cord-022168-qautse9a.txt item: #201 of 647 id: cord-022177-j0qcjbxg author: Markl, Jürgen title: Genome date: 2018-10-12 words: 3471 flesch: 42 summary: Die Genome anderer Katzenarten, beispielsweise von Löwe, Schneeleopard und Hauskatze, waren bereits sequenziert worden, das des Tigers allerdings noch nicht. Die Retrotransposons umfassen drei Gruppen, entsprechend der Art der repetitiven Sequenzen, die sie enthalten: lange endständige Wiederholun- Die Genome der Eukaryoten enthalten deutlich mehr Gene als die der Prokaryoten. keywords: abb; aber; aller; als; analyse; anderen; auch; auf; aufgrund; aus; begriff; bei; beiden; beim; beispielsweise; bereits; besitzt; besteht; bestimmen; bestimmte; bewegen; chromosomen; codieren; dadurch; dann; das; dass; dazu; dem; den; der; des; die; diese; dna; durch; ein; eine; einfach; einige; einziges; enthalten; enthält; entwickelt; erforderlich; erkenntnisse; ermitteln; etwa; eukaryoten; eukaryotischen; experiment; frage; fragmente; funktionellen; funktionen; für; gehören; gene; genetische; genitalium; genome; genomik; genomsequenz; genomsequenzierung; genutzt; gesamten; gibt; haben; hat; herauszufinden; hundegenomprojekt; hunderassen; identifizieren; ihrer; ist; jahren; kann; krankheiten; können; lassen; lässt; man; meisten; menschen; menschlichen; methoden; minimalgenom; mit; mithilfe; modellorganismen; muss; mäßig; neue; nicht; nichtcodierende; noch; nucleotide; nur; oder; organismen; pcr; phänotypische; prokaryoten; proteincodierenden; proteine; proteinsynthese; proteomik; regionen; repetitive; rrna; sequenzen; sequenziert; sequenzierung; sequenzinformationen; sich; sie; sind; sondern; sowie; spacer; spezies; tab; tiger; tigergenoms; transposons; und; untersuchen; untersuchungen; variabilität; varianten; verfahren; vergleichende; verschiedenen; viele; von; vor; waren; welche; wenn; werden; wie; wird; wissenschaftler; wurde; zelle; zur; zwischen; über; überleben cache: cord-022177-j0qcjbxg.txt plain text: cord-022177-j0qcjbxg.txt item: #202 of 647 id: cord-022196-1tionxun author: FENNER, FRANK title: The Nature and Classification of Animal Viruses date: 2013-11-17 words: 9589 flesch: 42 summary: In viruses whose genome consists of single-stranded nucleic acid, the viral nucleic acid is either the positive strand (in RNA viruses, equivalent to messenger RNA) or the negative (complementary) strand. The diameters of the nucleocapsids of several viruses have been measured, but in only a few cases is the length or the pitch of the helix known. keywords: accepted; acid; agents; animal; animal viruses; antigen; arboviruses; budding; capsids; capsomers; cause; cells; cellular; certain; chapter; chemical; classification; complex; core; cross; daltons; diameter; different; disease; dna; dna viruses; electron; envelope; families; family; fig; genera; generalized; genetic; genome; genus; groups; hand; helical; hepatitis; host; icnv; icosahedral; important; infections; international; isometric; large; lipid; lipoprotein; long; mammalian; man; members; membrane; molecular; molecules; morphological; morphology; multiply; names; nature; nomenclature; nucleic; nucleic acid; nucleocapsid; number; particles; peplomers; physicochemical; plants; polypeptides; poxviruses; properties; protein; reactivity; respiratory; review; rna; serological; similar; single; small; species; specific; structural; subgenus; symmetry; table; togaviridae; triangles; tubular; tumor; type; units; vertebrates; viral; virion; viruses; weight; wildy cache: cord-022196-1tionxun.txt plain text: cord-022196-1tionxun.txt item: #203 of 647 id: cord-022336-zqnczjpp author: Robertson, Hugh D. title: Virus Origins: Conjoined RNA Genomes as Precursors to DNA Genomes date: 2007-09-02 words: 6166 flesch: 38 summary: While other cases in which RNA viruses acquire altered RNAs from each other or even from host sources by RNA recombination have been cited above, the delta agent is the only known case where a coding sequence thought to be cellular in origin has entered a functional association with a replicating virus-like element at the level of RNA only, with no DNA involvement, so that the translation-level expression of the protein has survived and the replicating ele, ment remains functional. A replication cycle for viroids and other small infectious RNAs Longer-than-unit-length viroid minus strands are present in RNA from infected plants An ultraviolet-sensitive RNA structural element in a viroid-like domain of the hepatitis delta virus The brotherhood of circular RNA pathogens: viroids, circular satellites, and the delta agent A cellular homolog of hepatitis delta antigen: implications for viral replication and evolution Changes in locations of crossover sites over time in de novo generated RNA recombinants In vivo restoration of biologically active 3' ends of virus-associated RNAs by nonhomologous RNA recombination and replacement of a terminal motif Involvement of a stem-loop structure in the location of junction sites in viral RNA recombination RNA enzymes Structure and replication of the genome of the hepatitis delta virus Nonhomologous RNA recombination in a cell-free system: evidence for a transesterification mechanism guided by secondary structure Recent advances in pestivirus research Split genes and RNA splicing A model for the involvement of viroids in RNA splicing Viroids and Viroid Diseases Are viroids escaped introns? Circular RNAs: relics of precellular evolution? Genetic recombination of poliovirus in a cell-free system A mutation in the putative RNA polymerase gene inhibits nonhomologous, but not homologous, genetic recombination in an RNA virus Genetic exchange by recombination or reassortment is infrequent in natural populations of a tripartite RNA plant virus A recombinational event in the history of luteoviruses probably induced by base-pairing between the genomes of two distinct viruses The RNA world The exon theory of genes Evidence for intron capture: an unusual path for the evolution of proteins Recombination between viral RNA and transgenic plant transcripts Nucleotide sequence and secondary structure of potato spindle tuber viroid Heterogeneity and evolution rates of delta virus RNA sequences Domains in viroids: evidence of intermolecular RNA rearrangements and their contribution to viroid evolution Increased viral pathogenicity after insertion of a 28S ribosomal RNA sequence into the hemagglutinin gene of an influenza virus The mechanism of RNA recombination in poliovirus The hepatitis delta virus possesses a circular RNA Substitution rates in hepatitis delta virus RNA recombination in animal and plant viruses Genetic recombination in RNA viruses keywords: ability; agent; antigen; branch; brazas; cellular; circles; circular; cleavage; coding; conjunction; copy; delta; dip; dna; domains; early; et al; events; evidence; evolution; expression; figure; ganem; gene; genetic; hepatitis; homologous; host; information; introns; level; like; mechanism; molecules; mosaics; mrna; pathogens; pathway; place; plant; polymerase; potential; primitive; process; protein; recombination; region; replication; rna; rna recombination; rnas; robertson; rolling; self; sequences; splicing; strand; structure; switching; synthesis; system; template; today; trans; viral; viroid; virus; viruses; way; work cache: cord-022336-zqnczjpp.txt plain text: cord-022336-zqnczjpp.txt item: #204 of 647 id: cord-022476-g826uiqx author: None title: Eosinophils and Anti-Pathogen Host Defense date: 2012-10-12 words: 12522 flesch: 29 summary: Similarly, sialic acid-binding Ig-like lectin 8 (Siglec-8) can be detected on the surface of human eosinophils, while mouse eosinophils express the highly divergent functional orthologue, Siglec-F (Siglec-5). Mouse eosinophils also display a profoundly reduced propensity to degranulate and undergo differential chemotaxis to known exogenous stimuli (reviewed in 9 ). keywords: activation; activities; age; airway; allergic; allergy; alternaria; antifungal; antigens; antiviral; aspergillus; asthma; bacteria; basic; beta; blood; cationic; cd11b; cd18; cells; challenge; chapter; characterized; children; chitin; chronic; clearance; clinical; colleagues; crs; cytokines; cytotoxic; defense; deficient; degranulation; dependent; disease; dna; domain; ecp; enhanced; eosinophils; epithelial; evidence; example; exposure; expression; extracellular; extracts; factors; fig; findings; formalin; function; fungal; fungi; fungus; glucan; granule; high; host; human; human eosinophils; hypersensitivity; ige; il-33; il-4; il-5; immune; immunity; important; inactivated; infants; infection; inflammation; inflammatory; innate; integrin; interactions; large; lectin; likely; lung; major; mbp-1; mechanisms; mediators; mice; models; molecules; mouse; mucus; natural; negative; neutrophil; normal; number; organisms; par-2; pathology; pathophysiology; patients; pneumonia; positive; presence; primary; production; products; protease; protein; pulmonary; pvm; questions; recent; receptor; recognition; recruitment; reduced; release; replication; research; respiratory; response; results; role; rsv; secondary; secretory; sensitization; severe; sinusitis; species; specific; studies; study; surface; symptoms; syncytial; t h; tissue; traps; tslp; type; understanding; vaccine; virus; vitro; vivo; wall cache: cord-022476-g826uiqx.txt plain text: cord-022476-g826uiqx.txt item: #205 of 647 id: cord-022501-9wnmdvg5 author: None title: P1460 – P1884 date: 2015-12-28 words: 128422 flesch: 46 summary: In the first half-year of 2005 family doctors most often prescribed penicyllins -(44.8%), makrolids -(27.1%), cephalosporins -(12.5%), tetracyclins -(9.4%) and lincozamidsbased (3.1%) treatments Specialist doctors, on the other hand, prescribed penicllins (41.7%), makrolids (17.9%), cephalosporins (17.7%), tetracyclins (12.1%), lincozamids (5.2%) and chinolons (3%). State-wide antibiotic consumption in the AC setting during the same time was 12 DID (~85% of total consumption). keywords: 16s; 1st; 23s; abdominal; abscess; absence; abstracts; account; accuracy; acid; acinetobacter; acquisition; active; activities; activity; acute; additional; adequate; administered; administration; admission; adults; adverse; aeruginosa; aes; agalactiae; agar; age; aged; agents; agglutination; agr; aim; akacid; albicans; alkaline; alternative; ambd; ambulatory; amc; america; amikacin; aminoglycosides; amoxicillin; ampc; amplicons; amplification; amplified; anaerobic; analyse; analysis; animal; antibacterial; antibiotic; antibiotic resistance; antibiotic susceptibility; antibiotic therapy; antibiotic treatment; antibiotic use; antibodies; antigen; antimicrobial; antimicrobial activity; antimicrobial resistance; aortic; approach; appropriate; appropriateness; april; architect; area; assay; associated; association; atcc; atypical; auc; audit; aureus; aureus isolates; aureus strains; available; average; azithromycin; aztreonam; b19; bacilli; background; bacteremia; bacterial; bacterial strains; bactericidal; bacteriuria; bacteroides; baseline; basis; baumannii; beds; belgium; beta; better; bid; binding; biochemical; bla; blind; blood; blood culture; blood samples; body; bone; bottles; brain; breakpoint; broad; broth; brucella; brucellosis; bus; calculated; campylobacter; cap; carbapenems; care; carriage; cases; causative; cause; caz; cdad; cefepime; cefoperazone; cefotaxime; ceftazidime; ceftobiprole; ceftriaxone; cefuroxime; cell; cellulitis; center; central; centres; cephalosporins; cerebrospinal; certain; cervical; cfu; cfx; chain; changes; characteristics; characterized; children; chloramphenicol; choice; chronic; ciai; ciprofloxacin; cis; clarithromycin; class; classes; clavulanic; clearance; clindamycin; clinical; clinical data; clinical isolates; clinical samples; clinical strains; clinical study; clonal; clone; clostridium; clsi; cmax; cmv; cns; coagulase; cocci; coli; coli isolates; coli strains; colistin; collection; colonies; colony; combination; combined; common; community; comparable; comparative; comparators; comparison; compartment; complete; complex; compliance; complicated; complications; compounds; concentrations; concern; conclusion; conditions; confirmed; consecutive; consistent; constant; consultations; consumption; contact; contaminated; contamination; continuous; contrast; control; conventional; correlation; corresponding; cost; cotrimoxazole; countries; country; counts; course; cov; cpe; cpm; crcl; creatinine; criteria; cross; crp; cryptosporidiosis; csf; csssi; ctx; cuffs; culture; culture results; cure; current; curves; daily; dalfopristin; dap; daptomycin; data; database; days; ddd; december; decrease; delivery; dengue; department; dependent; design; detection; determinants; determination; determined; developed; development; diabetic; diabetic patients; diagnosis; diarrhoea; differences; different; difficile; difficile strains; difficult; diffusion; dilution; direct; discussion; disease; disk; distinct; distribution; dna; doctors; dosage; dose; dosing; double; drug; duration; e. coli; e.g.; early; economic; effect; effective; effectiveness; efficacy; efflux; eia; elderly; electrophoresis; elevated; elisa; emergence; empiric; encoding; endemic; endocarditis; enterobacteriaceae; enterococcus; enterotoxin; enterovirus; enveloped; environmental; enzyme; eor; epidemic; epidemiological; epidemiology; episodes; eradication; erm(b; ermb; errors; ertapenem; erythromycin; esbl; escherichia; established; estimate; etest; european; evaluable; evaluation; events; evidence; examination; excellent; expected; experience; experiments; exposure; expressed; expression; extended; extent; extraction; factors; faecalis; faecium; faecium isolates; failure; family; farcinica; faropenem; fdg; features; febrile; female; fever; field; findings; flora; fluid; fluoroquinolones; fold; following; food; forms; fqs; fragilis; fragment; france; free; french; frequencies; frequency; frequent; function; fusb; garenoxacin; gastroenteritis; gbs; gel; gene; general; genetic; genome; genotype; gentamicin; geographic; germany; glycopeptides; good; gram; greater; greece; grn; group; growth; guidelines; haemophilus; half; hand; harbouring; hcw; health; healthcare; heart; hepatitis; high; higher; highest; hippurate; history; hiv; hmpv; hominis; hospital; hospitalized; hours; hplc; human; hybridization; icu; icu patients; icus; identical; identification; igg; igm; iii; illness; imipenem; immunoassay; impact; implementation; important; improved; improvement; incidence; increase; incubation; index; india; individual; infants; infected; infections; infective; influence; influenza; information; infusion; inhibition; inhibitory; initial; injuries; inoculum; intensive; internal; international; intestinal; intraabdominal; intravenous; introduction; invasive; investigation; isolated strains; isolates; isolation; italy; january; jejuni; june; kill; killing; kinetics; kit; klebsiella; knowledge; known; laboratories; laboratory; lack; lactamase; lactams; large; lead; legionella; length; level; levofloxacin; life; light; like; likely; limited; limits; linezolid; listeria; liver; local; log10; london; long; longer; low; lower; lzd; macrolide; macrolide resistance; main; major; majority; male; management; marrow; mastitis; material; mcg; mdrsp; mean; measures; mechanisms; median; medical; medications; medium; mef; mefa; mem; members; meningitis; meropenem; methicillin; methodology; methods; metronidazole; mfx; mic; mic90; microbiological; microbiology; microdilution; microorganisms; microscopy; mics; middle; mild; milk; minimal; minor; minutes; mitis; mitt; mixed; mlsb; model; moderate; modified; molecular; monitoring; monocytogenes; months; morbidity; mortality; moxifloxacin; mrsa; mrsa isolates; mrsa strains; mssa; multidrug; multiple; multiresistant; mumps; mupirocin; mutants; mutated; mutations; mxf; n =; nasal; nasopharyngeal; national; nausea; nccls; necessary; need; negative; negative strains; netherlands; neurological; new; nml; nocardia; non; normal; north; nosocomial; novel; nucleotide; number; o157; objectives; observed; occupational; occurrence; october; old; online; onset; oral; order; organisms; origin; outbreak; outcome; outpatient; overall; pae; paediatric; pain; pancreas; pancreatic; pancreatitis; parameters; partial; particular; parvovirus; pathogens; patients; patterns; pcr; pcr assay; pcr method; pcr results; penetration; penicillin; percentage; performance; perfringens; period; periodontal; peritonitis; persons; pet; pfge; pharmacodynamic; pharmacokinetic; phase; phenotype; phylogenetic; physician; piperacillin; plasma; plasmid; plates; plus; pneumococcal; pneumoniae; pneumoniae isolates; point; polymerase; pooled; poor; population; position; positive; positive blood; positive isolates; positive results; positive samples; positive strains; positivity; possible; post; postantibiotic; potency; potential; practice; predictive; predominant; pregnancy; pregnant; prescribed; prescribing; prescription; presence; present; present study; pressure; prevalence; prevention; previous; primary; primers; prior; probe; problem; procedure; process; producing; products; profile; program; prolonged; properties; prophylaxis; proportion; prospective; prosthetic; protein; protocol; prp; pseudomonas; pta; pts; public; pulmonary; pulsed; purpose; pvl; pyelonephritis; pylori; pyogenes; pyrosequencing; quality; quantitative; questionnaire; randomized; range; rapid; rare; rates; rdna; reaction; reactive; real; recent; recipients; recombinant; recommendations; records; reduced; reduction; reference; regimens; region; regression; related; relationship; relative; relevant; reliable; rep8839; reported; reports; required; research; resistance; resistance genes; resistant e.; resistant isolates; resistant s.; resistant staphylococcus; resistant strains; respiratory; response; responsible; restriction; resulted; results; retrospective; ribotype; rifampicin; risk; role; room; rotavirus; route; routine; rrna; rsv; s. aureus; safety; saline; saliva; salmonella; samples; sars; score; screening; second; secondary; selected; selection; selective; sensitive; sensitivity; sepsis; sequence; sequencing; sera; series; serogroup; serotypes; serum; setting; severe; severity; sex; sheep; shiga; short; shv; significant; signs; similar; similarity; simulations; single; sites; situation; size; skin; slightly; small; soft; solution; source; southern; specialists; species; specific; specificity; specimens; spectrum; spontaneous; spp; spread; sputum; staff; standard; staphylococcus; staphylococcus aureus; state; statistical; status; stay; stec; step; sterile; stool; strains; streptococcus; streptogramin; strong; structure; studies; study; study group; study period; stx2; subclinical; subgroup; subjects; success; suggested; suggests; sulbactam; sulfamethoxazole; superior; support; surface; surgery; surgical; surveillance; survey; survival; susceptibility; susceptible; susceptible strains; swabs; sweden; sxt; symptoms; syndrome; system; systemic; table; taqman; target; tazobactam; teaching; technique; tehran; teicoplanin; telavancin; telithromycin; temperature; terms; tertiary; tested; testing; tests; tet(w; teta; tetracycline; tetracycline resistance; tgc; therapeutic; therapy; throat; tid; tigecycline; time; time pcr; tinea; tissue; titre; tlv; total; toxigenic; toxin; tract; training; transfer; transmission; transplant; treating; treatment; trends; trials; tube; tularemia; turkey; type; typing; unbound; underlying; unique; united; units; university; unknown; urinary; urine; usage; use; useful; users; utilization; vaccination; values; valve; vana; vanb; vancomycin; variability; variable; variants; variation; varied; variety; versus; viable; viral; viridans; virulence; virus; viruses; vitro; vivo; volume; vomiting; vor; vre; wards; water; weeks; western; women; work; workers; worldwide; xf-73; years; yersinia; young cache: cord-022501-9wnmdvg5.txt plain text: cord-022501-9wnmdvg5.txt item: #206 of 647 id: cord-022888-dnsdg04n author: None title: Poster Sessions date: 2009-08-19 words: 189173 flesch: 41 summary: Our aim is to describe how B cell lymphoma cells respond to TGF-b compared to normal peripheral B cells, to create an overview of the different signaling pathways involved, and to characterize the mechanisms behind the loss of sensitivity to TGF-b. Methods: Proliferation assays were performed on 11 different B-cell lymphoma cell lines and normal peripheral B cells to screen for TGF-b-induced effects. Using a CD3 and CD28 activation model system -TLR4 presence on CD4+ cells is found in mouse T cells, human T cells and Jurkat cell lines. keywords: + +; + /+; + cells; 1,2; a*0201; a549 cells; ab t; ability; able; absence; absent; accessibility; accumulation; acid; actin; activated; active; activities; activity; acute; ad5; adaptive; adaptive immune; adaptor; addition; adenoviral; adhesion; adipocytes; adjuvant; administration; adp; adult; affect; affected; affinity; afp; agents; aggrecan; agonist; aim; aims; airway; akt; allele; allergens; allergic; alpha; alterations; altered; alternative; amino; amounts; analyse; analysis; anergy; animals; antagonist; antibodies; antibody; antibody response; antigen; antigen expression; antigen presentation; antigen receptor; antigen specific; antigenic; antiviral; apc; apcs; apoptosis; apoptotic cells; approach; appropriate; area; arthritis; asc; aspects; assay; associated; association; asthma; atherosclerosis; atp; attenuated; aureus; autoantibodies; autoantibody; autoimmune; autoimmunity; autologous; autophagy; autoreactive; available; avidity; b cells; b lymphocytes; b t; b-1 cells; b27; background; bacterial; baff; balb; basal; baseline; basis; basophils; bcg; bcl-2; bcr; berlin; beta; better; binding; biochemical; biological; biology; biopsies; blocking; blood; blood cells; blot; blotting; bone; boost; bowel; brain; breast; broad; burst; c mice; c57bl/6; caga; calcineurin; calcium; cancer cells; candidate; capable; capacity; carabin; carkl; cascade; cases; caspase; caspase-1; catalytic; cause; cbl; cd11b; cd14; cd152; cd16; cd19; cd1a; cd1d; cd25; cd28; cd3; cd36; cd4; cd40; cd45; cd5; cd56; cd69; cd8 +; cd8 cells; cd8 t; cd80; cd86; cd8a; cell activation; cell activity; cell antigen; cell biology; cell compartment; cell contact; cell culture; cell cycle; cell cytokine; cell cytotoxicity; cell death; cell degranulation; cell depletion; cell development; cell differentiation; cell epitopes; cell expansion; cell function; cell growth; cell help; cell homeostasis; cell hybridomas; cell immunity; cell influx; cell interaction; cell level; cell lines; cell lymphoma; cell lysates; cell maturation; cell membrane; cell number; cell phenotype; cell population; cell priming; cell production; cell proliferation; cell receptor; cell recognition; cell recruitment; cell repertoire; cell responses; cell signaling; cell sorting; cell stimulation; cell subsets; cell supernatant; cell surface; cell survival; cell tolerance; cell transfer; cell transplantation; cell types; cells cells; cells co; cells incubation; cells present; cells specific; cellular immune; center; central; certain; cfse; cgd; chain; challenge; changes; channels; characteristics; characterization; characterized; chemokines; chemotaxis; children; chimeric; chip; chitosan; cholesterol; chop10; chromatin; chromosome; chronic; cht; class; classical; clearance; cleavage; clinical; clones; close; cmv; cns; coated; cohort; colitis; collagen; colon; combination; combined; common; comparable; comparison; complement; complete; complex; complexes; components; composition; compounds; concentrations; conclusion; conditions; confocal; conjugate; consequences; conserved; consistent; constitutively; contact; context; contrary; contrast; contribute; contribution; control; control cells; control mice; controlling; conventional t; cord; coro1a; coronin-1; correlated; correlation; corresponding; course; cpg; criteria; critical; crohn; cross; crosstalk; crp; crt; crtam; crucial; csf; csk; ct26; ctl; ctla-4; ctls; cultured; current; cutaneous; cytokine; cytokine expression; cytokine levels; cytokine production; cytokine response; cytometry; cytoplasmic; cytoskeleton; cytosolic; cytotoxic t; damage; dasatinib; data; day; days; dcs; decreased; defective; defects; defense; deficiency; deficient cells; deficient mice; degradation; degree; delivery; delta t; dendritic cells; density; department; dependent; dependent cell; depleted; depletion; design; detail; detailed; detectable; detection; determination; determined; developmental; diabetes; diagnosis; differences; different; different cell; differential; differentiated; diminished; direct; disease; disorders; display; distinct; distribution; diverse; division; dna; domain; dominant; donors; dose; double; downregulation; downstream; draining; drb1; drugs; dsrna; dss; dynamics; early; early t; ebpb; ebv; effective; effector cells; effector t; effects; efficacy; efficient; efhd2; elements; elevated; elimination; elisa; elispot; embryonic; encoding; endosomal; endothelial; engagement; enhanced; enhancement; enhancing; enrichment; enzyme; eosinophils; epidermal; epidermis; epithelial cells; epithelium; eraap; erap1; erk1/2; erp57; erythematosus; escape; essential; ev71; evaluated; evaluation; events; evidence; example; exhibit; exogenous; exon; exosomes; expansion; experiments; exposed; exposure; expressed; expression; expression levels; expression system; extended; extent; extract; facs; factor; factor t; failure; family; far; fasl; fcgriib; features; feeding; female; ferritin; fetal; fibroblasts; fibrosis; findings; flow; fluorescence; foam cells; fold; following; formation; foxp3; fraction; fragment; free; frequencies; frequency; frequent; function; fusion; future; fviii; g t; galcer; gamma; gammadelta t; gastrointestinal; gcs; gd cells; gd t; gdcd8; gel; gene; gene expression; general; generation; genetic; genome; genomic; genotype; germany; gfp; glioma cells; glycoprotein; glycosylation; goal; good; gp120; grade; gram; grant; granules; granulocytes; granzyme; grb; greater; group; growth; gut; h5n1; ha-1; haart; hadv; half; hand; hcv; hdl; hdm; healing; healthy; heat; heavy; hek cells; helper cells; hematopoietic cells; heme; hepatitis; hi cells; high; high expression; high levels; high t; higher; highest; histamine; histological; history; hiv; hiv-1; hla; hla class; hmb; hmgb1; hospital; host; host immune; hours; hrs cells; hscs; hsp70; human b; human cd4; human cells; human peripheral; human t; humans; humoral; hybridomas; hypothesis; ibd; icam-1; icos; identification; iel; ifn; ifnar; ifnb; ifng; igg; igg1; igm; igsf4; ii t; il-10; il-12p40; il-1b expression; il-1ra; il-2; il-33; il-4; il-5; il-6; il-7; il-8; imaging; immature; immune activation; immune cells; immune regulation; immune response; immune system; immunity; immunization; immunized; immunocompetent cells; immunodeficiency; immunodominant; immunofluorescence; immunogenicity; immunoglobulin; immunological; immunology; immunomodulatory; immunoprecipitation; immunoproteasomes; immunosuppression; immunotherapy; impact; impaired; implications; important; important role; improved; inactivation; inactive; incidence; incorporation; increased; increasing; incubation; individuals; induced; induced cell; inducible; induction; infants; infected cells; infected mice; infection; infiltrates; infiltration; inflamed; inflammation; inflammatory; inflammatory cells; inflammatory cytokines; inflammatory immune; inflammatory response; influence; influenza; influx; inhibited; inhibition; inhibitory; inhibits; initial; initiation; injury; inkt; inkt cell; inkt17 cells; innate; innate immune; innate t; insights; institute; intact; intensity; interaction; interest; interesting; interference; interferon; interleukin; intermediate; internalization; intestinal; intracellular; intraepithelial; intranasal; introduction; invariant; investigation; involved; involvement; isoforms; isolated; isolation; isotype; italy; jab1; jam; jnk; jurkat cells; jurkat t; kda; keratinocytes; key; killer cells; killer t; killing; kinase; kinetics; kit; knock; knockdown; knockout; knowledge; ko mice; kupffer cells; laboratory; lack; lamina; langerhans cells; large; latent; later; lck; lcmv; leishmania; length; leprae; lesions; lethal; leukemia; leukemic cells; leukemic t; leukocytes; levels; ligand; ligation; light; like; likely; limited; lineage cells; lineages; link; lipid; listeria; little; liver; lmp2; lmp7; lnk; loaded; loading; local; localization; 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vaccine; vaccinia; vacv; values; variable; variants; variety; vascular; vector; vegf; venous cells; versus; vesicles; vg9vd2 t; vgamma9vdelta2 t; viral; virulent; virus; viruses; vitro; vivo; vivo t; vlps; volunteers; weeks; wehi231 cells; weight; western; whitney; wide; wild; wildtype; wnt; work; years; zfp36l1 cache: cord-022888-dnsdg04n.txt plain text: cord-022888-dnsdg04n.txt item: #207 of 647 id: cord-022940-atbjwpo5 author: None title: Poster Sessions date: 2016-09-07 words: 241687 flesch: 44 summary: Among used cancer cell lines, ERICD was highly expressed and ARID3A had lower expression in U-2OS (osteosarcoma), A-172 (glioblastoma) and A549 (lung cancer). Clear cell renal cell cancer (ccRCC) with metastases has pour prognosis: 5-year survival is about 9%. keywords: 1,2; 1st; 3rd; 800; a549 cells; able; abnormal; abnormalities; absence; absorbance; absorption; abundant; academic; academy; account; accumulation; accurate; acetate; acetyl; acetylation; acetylcholinesterase; ache; acid; acid levels; acidic; aclp; acne; actin; activation; active; activities; activity; activity levels; activity results; acute; adamts; adaptation; addition; adenocarcinoma; adenocarcinoma cells; adenosine; adhesion; adiponectin; adiponectin levels; adipose; administration; adrenal; adrs; adult; advanced; advantages; adverse; aebp1; affected; affinity; afprbd; agar; agarose; aged; agents; aggregation; aging; agnps; agonist; agricultural; aim; aims; akt; alanine; albino; albumin; alcohol; allele; almaty; alpha; alterations; altered; alternative; alzheimer; amh; amino; amino acid; aml; ammonia; amniotic; amounts; amplification; amylase; amylin; amyloid; anakkale; 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transmembrane; transmission; transplantation; transport; transporters; treatment; treatment group; tree; trh; trials; triggers; triglyceride; triple; triticum; tsh; ttg; tubes; tubitak; tubulin; tudca; tumor; tumor cells; turkey; turkey cancer; turkish; turn; txnip; type; tyrosine; u87; ubiquitin; ukraine; ultraviolet; unclear; underlying; understand; understanding; unique; units; university; unknown; untreated; uptake; urea; urine; usage; use; useful; uterine; utr; vaccine; validated; valuable; values; variants; variation; variety; vdr; vector; vegf; venous; versus; vhb; vim; viral; virulence; virus; viruses; visible; vitamin; vitro; vivo; voltage; volume; volunteers; vulgaris; waist; wastes; water; ways; weeks; weight; western; wheat; white; wide; widespread; wild; wistar; women; work; world; worldwide; wound; wst-1; xtt; years; yeast; yeast cells; yilmaz; ykl-40; young; zad; zebrafish; zinc cache: cord-022940-atbjwpo5.txt plain text: cord-022940-atbjwpo5.txt item: #208 of 647 id: cord-023055-ntbvmssh author: None title: Immunogenicity date: 2004-02-19 words: 64788 flesch: 56 summary: o present fragments of that antigen very efficiently t o T cells. 10. carrier (KLH) primed T cells were transferred in the presence or absence of antigen into irradiated, K-allotype distinct adoptive host. keywords: 104; a2.1; aba; ability; able; absence; absent; accessory cells; account; acid; activity; ad t; addition; adherent cells; adhesion; adoptive; adult; affinity; alleles; allogeneic; alloreactive; allospecific; alpha; amino; amounts; analysis; animals; antibodies; antibody; antigen; antigen expression; antigen presentation; antigen receptor; antigen specific; antigenic; apc; approach; arthritis; assay; associated; association; autoantibodies; autoimmune; autologous; autoreactive t; available; b cells; b l; balb; basis; beta; beta-2; binding; blocking; blood; blood t; blot; bone; box; c d; c e; c mice; c n; c r; c t; cancer; capable; capacity; cd2; cd28; cd3; cd4; cd4 t; cd45r; cd8; cdna; cell activation; cell antigen; cell clones; cell dependent; cell development; cell differentiation; cell epitopes; cell function; cell hybridomas; cell line; cell maturation; cell membrane; cell population; cell proliferation; cell receptor; cell recognition; cell repertoire; cell response; cell surface; cell types; cells; cells present; cells specific; center; certain; cfa; chain; changes; characterized; chimeras; cii; class; class i1; cloned; clones specific; cloning; combination; complete; complex; conditions; conjugates; consistent; contrast; control; corresponding; critical; cross; ctl; ctl clones; culture; cytochrome; cytolytic t; cytoplasmic; cytotoxic t; data; days; defect; deletion; delta; delta t; dendritic cells; density; department; dependent; detectable; determinants; determined; development; differences; different; different cell; differential; differentiation; digestion; dilution; dimers; direct; disease; distinct; dna; domain; donor; dose; double; dth; e d; e e; e human; e j; e l; e mhc; e n; e s; e y; early; effective; effector cells; effector t; effects; elements; encoding; endogenous; enriched; enzyme; epithelial; epitopes; events; evidence; exon; experiments; exposure; expressed; expression; f e; f t; facs; factors; family; fetal; findings; fine; flow; fold; foreign; form; formation; fragments; free; frequencies; frequency; fresh; function; fusion; g e; g l; g t; gamma; gene; generation; genetic; gpi; graft; greater; group; growth; h e; h l; h-2; h-2b; haplotype; helix; helper cells; high; higher; histocompatibility; hiv; hla; hla class; host; hours; hsv-1; human cells; human t; humoral; hybrids; hypothesis; iak cells; iddm; identical; ifn; igg; il-1; il-2; il-4; il2; il4; imm+; immune; immune response; immunity; immunization; immunized; immunodominant; immunogenic; immunoglobulin; immunology; important; increase; incubation; individual; induced; induction; infected; infection; influenza; inhibited; inhibition; inhibitory; institute; insulin; interaction; interferon; internal; intracellular; irradiated; islet; isolated; jurkat cells; kda; kidney; klh; known; l cells; l l; l s; l t; l y; l3t4; l3t4 cells; laboratory; lack; large; lck; levels; lfa-1; library; like; likely; limited; lines; little; liver; lmmunogenicity; locus; long; low; ly-6; lymphoid; lymphoid cells; lymphokine; m e; m t; mab; mabs; macrophages; major; majority; malaria; manner; marked; marrow; maturation; mature t; mechanism; medical; medicine; membrane; memory t; method; mhc; mhc class; mhc molecules; mice; mice t; microbiology; minimal t; minor; mlr; model; molecular; molecules; monoclonal; monocytes; mouse; mouse t; mrna; murine; murine cells; murine t; mutants; n d; n g; n h; n s; n t; national; native; nature; necessary; negative; negative cells; neonatal; new; nih; node cells; nodes; non; normal; normal t; northern; novel; nuclear; nucleoprotein; number; o f; o l; o n; observed; oligonucleotide; order; ova; overlapping; p e; p l; p r; p t; panel; parasite; parental; particular; pathway; patients; pattern; pbm; pcr; peptide; peripheral t; phenotype; pigeon; pkc; pma; polyclonal; polymorphic; population; position; positive; positive cells; possibility; possible; post; potential; precursors; prepared; presence; present; presentation; previous; primary; priming; prior; probes; process; processing; production; products; progress; proliferation; properties; protein; purified; qa-1; r e; r l; r n; r o; r r; rats; reaction; reactive; rearrangement; receptors; recipient; recognition; recombinant; region; regulated; regulation; regulatory; rejection; related; release; requirements; residues; responder; response; responsible; responsive t; responsiveness; restricted; restriction; results; rise; role; s c; s f; s o; s p; s r; s s; s u; school; scid; secondary; secrete; secretion; segments; selection; selective; self; sensitive; separate; sequence; series; serum; signal; signalling; significant; similar; single; site; size; skin; small; soluble; spa; species; specific ctl; specific t; spleen cells; splenic; splenic t; stanford; state; stimulated; stimulation; stimuli; strain; structure; studies; study; subsequent; subsets; substitutions; supernatants; suppressor; suppressor cells; surface expression; survival; susceptibility; sv40 t; syngeneic; synthesis; synthetic; system; t antigen; t cell; t e; t h; t helper; t lymphocytes; t o; t r; t s; t t; t u; t v; t w; t y; target; target cells; tcr; tcr expression; terminal; test; th1; th2; th2 cells; th2 t; thl; thought; thymic; thymocytes; thymus; time; tissue; tnf; tnp; tolerance; tolerant; transcription; transduction; transfectants; transfer; transfusion; transgenic; treatment; triggering; tumor; tumor cells; type; tyr; u c; u e; u l; u n; u r; unable; unique; university; usage; vaccine; variant; variety; viral; virus; viruses; vivo; vv+ t; w e; weeks; y s cache: cord-023055-ntbvmssh.txt plain text: cord-023055-ntbvmssh.txt item: #209 of 647 id: cord-023095-4dannjjm author: None title: Research Abstract Program of the 2011 ACVIM Forum Denver, Colorado, June 15–18, 2011 date: 2011-05-03 words: 134382 flesch: 49 summary: Mminimum HR, mean HR and the HRV variables (7 and 10) differing between dog groups, also consistently decreased with increasing MR, LA/Ao and the proximal isovelocity surface area in CKCS. The apparently normal levels of hexosaminidase A activity in affected dog samples may be a result of b subunit overexpression. keywords: 5ht; 95%ci; abdominal; abnormalities; absence; absorption; abstract; abundance; access; accumulation; accuracy; accurate; acetate; acid; acth; activation; active; activity; acute; additional; adequate; adhesion; administration; admission; adrenal; adult; adult cats; adult dogs; adverse; affected dogs; age; aged; agents; aggregation; aim; aims; airway; aki; albumin; aldosterone; alpaca; alpha; alterations; alveolar; ambulatory; amino; analysis; analyzer; anaplasma; anemia; anesthesia; anesthetized; animals; anova; antibodies; antibody; antigen; antimicrobial; aortic; apparent; approach; appropriate; area; arterial; articular; arvc; aspiration; aspirin; assay; assessment; associated; association; asymptomatic; atenolol; atrial; attempts; auc; automated; available; average; avp; axis; azotemia; bacterial; balf; bartonella; basal; baseline; basis; bcs; beagle dogs; beagles; beginning; benazepril; beta; better; binding; biochemical; biomarkers; biopsies; biopsy; bleeding; blinded; blood; blood glucose; blood samples; blot; body; bone; bovine; bowel; boxers; bpm; brain; breed dogs; breeds; calcitriol; calcium; calculated; calprotectin; calves; canal; cancer; canine; canis; carboplatin; cardiac; cardiomyopathy; care; cartilage; cases; catheter; cats; cattle; caudal; cause; cbc; cca; ccp; cdv; cell; cellular; center; central; cerebellar; cervical; chain; challenge; changes; characteristics; characterized; chemistry; chf; chf cats; chromatography; chronic; ciprofloxacin; ckcs; ckd; classes; classified; clearance; client; clinical; clinical disease; clinical signs; clinicians; clinicopathologic; clinics; clm; clopidogrel; clostridium; cns; coagulation; cobalamin; coefficient; coli; collagen; collapse; collection; college; colon; colostrum; combination; commercial; common; compare; comparison; complete; completion; composition; compression; computed; concentrations; conclusion; concurrent; condition; confidence; confirmed; congenital; congestive; consecutive; consistent; content; contrast; control cats; control dogs; control group; control horses; control study; controls; copper; correlated; correlation; cortisol; count; course; cpe; cpr; cpv; cranial; creatinine; cria; criteria; cross; crossover; crp; cryptosporidium; csf; ctni; culture; curve; cutoff; cyclophosphamide; cyclosporine; cystine; cytokine; cytometry; daily; damage; data; date; days; dca; death; decreased; defect; deficiency; definitive; degenerative; degree; deletion; density; dependent; described; design; detection; determination; determined; development; deviation; device; dexamethasone; diabetes; diabetic; diagnosis; diarrhea; diastolic; diet; dietary; differences; different; difficile; difficult; digital; diminazene; direct; discharge; disease; disease cats; disorders; dissolution; distribution; dmvd; dna; documented; dogs; dogs o; domperidone; donkeys; doppler; dorsal; dose; dosing; double; doxycycline; drug; dry; duodenal; duodenum; duration; dysfunction; early; ecg; echocardiographic; edema; edta; effective; effects; efficacy; effusion; ehrlichia; elevated; elisa; end; endothelial; energy; enlargement; enrofloxacin; enteric; enzyme; epithelial; equal; equine; equivalent; erythrocytosis; established; estradiol; eus; euthanasia; evaluated; evaluation; events; evidence; exact; examination; exercise; experimental; exposure; expression; factors; faecalibacterium; failure; farms; fasting; fatty; features; fecal; fecal samples; feces; fed; feeding; feline; female dogs; females; fever; fgf-23; fibrinogen; fibrosis; field; final; findings; firocoxib; fiv; flagellin; flow; fluid; fna; foals; fold; following; food; formalin; formulation; fossa; fraction; frd; free; frequency; frozen; function; furosemide; future; gastric; gastrointestinal; gastrointestinal disease; gemcitabine; gender; gene; general; generation; genetic; genome; genomic; gentamicin; german; gfr; giardia; gingivitis; glucocorticoids; glucose; glut12; goal; golden; good; grade; greater; group; growth; gsd; gsh; hac; half; hand; hbgm; hcm; head; healthy cats; healthy dogs; healthy horses; heart; heart disease; help; hepatic; herda; hereditary; herniation; het dogs; higher; highest; histopathological; histopathology; history; homozygous; hormone; horses; hospital; hospitalization; hours; hplc; hrs; hrv; hsa; hsp; human; humerus; hyperthyroid; hyperthyroid cats; hypothesis; hypothyroidism; iad; ibd; identical; identification; idiopathic; ifn; igg; iii; il-10; il-2; il-4; il-6; il-8; iliac; ill; ill dogs; illness; images; imaging; immune; impact; impaired; impedance; important; improved; improvement; incidence; increase; index; indirect; individual; induced; induction; infected; infected dogs; infection; inflammation; inflammatory; influence; information; ingestion; inhibitor; initial; injury; insertion; insulin; intact; interaction; interest; internal; interstitial; intervals; intervertebral; intracellularis; intravenous; invasive; investigation; iodine; ipf; irc; iris; iron; isolates; ivabradine; kidney; kinase; kit; knowledge; kruskal; laboratories; laboratory; lack; lactate; lameness; laminar; laminitis; large; lateral; left; length; lesions; leukocytes; levels; life; likely; limb; limited; linear; lines; lipid; liquid; little; liver; location; logistic; long; longer; loss; lower; lps; lung; lymphocyte; lymphoma; maintenance; major; majority; males; mammary; management; mann; manual; mapk; marcks; marker; marrow; mass; matter; maximum; mdr; meal; mean; mean ae; measured; measurements; mechanisms; median; medical; medicine; membrane; meningiomas; meq; metabolic; methimazole; method; microbiota; mii; mild; minimal; minimum; minutes; mitral; mixed; mmhg; mmol; mmvd; model; moderate; molecular; molecules; monitoring; months; mortality; mri; mrna; mucosal; multiple; muscle; mutant; mutation; mycoplasma; myocardial; necessary; needle; negative; neoplasia; neurological; neutrophils; new; nmol; non; normal cats; normal dogs; normal horses; novel; number; obese dogs; obesity; objective; observed; obstruction; occurrence; occurring; og1; old; omeprazole; onset; oral; organisms; osa; outcome; ovariectomy; overall; overweight; owners; oxygen; p o; p38; pain; pancreas; pancreatic; parameters; partial; participants; partum; pathogenesis; pathogens; pathway; patients; pattern; pcr; pda; peak; peis; people; peptide; percentage; performance; perfringens; period; peripheral; persistent; pet; phagocytophilum; pharmacokinetic; phase; phosphate; phosphorylation; physical; pigs; piiinp; pilot study; placebo; placement; plasma; plasma concentrations; plasma samples; platelet; ple dogs; pln; plus; pmol; point; polymerase; polymorphisms; ponies; pooled; poor; population; positive; possible; post; potential; ppf; ppid; ppm; practices; predictive; preliminary; preparation; presence; present; present study; presentation; pressure; prevalence; previous; primary; prior; problem; probnp; procedure; processes; production; profile; prognosis; proliferation; proportion; prospective; protein; protocol; proximal; psva; pulmonary; puppies; purpose; qpcr; quality; quantitative; quarter; racing; radiographic; randomized; range; ranitidine; rank; rao; rapid; rare; rate; ratios; rbc; reaction; recent; receptor; recorded; records; recovery; rectal; reduced; reference; region; regional; regression; regurgitation; related; relationship; relative; release; relevant; remaining; remission; renal; reported; reports; research; resistance; resolution; respiratory; respondents; response; results; retriever; retrospective; retrospective study; reverse; right; risk; role; rottweilers; routine; safety; saline; salmonella; samples; sampling; sas; sba; scale; scan; score; screening; sd dogs; sdr; secondary; secretion; sedation; segment; sensitive; sensitivity; sepsis; septic; sequence; sequencing; serum; serum concentrations; serum samples; set; severe; severity; sex; shar; shedding; short; shorter; sid; signaling; signalment; significant; significant difference; signs; similar; simple; single; site; size; skin; small; small dogs; smooth; snps; sodium; software; spayed; spearman; species; specific; specificity; specimens; spinal; spontaneous; spp; square; stability; stable; stage; staining; stalls; standard; standardized; starting; statistical; status; sternal; stimulated; stimulation; stomach; strain; stress; striatin; strong; structural; struvite; student; studies; study; study period; study population; subsequent; successful; suggested; sum; supplementation; support; surface; surgery; surgical; survival; susceptibility; susceptible; syndrome; synovial; syrinx; system; systemic; systolic; tablets; target; tcc; teaching; technique; teg; temperature; terminal; terriers; test; testing; tetracycline; therapeutic; therapies; therapy; thickness; thoracic; thrombocytopenia; tick; time; tissue; titers; tlr5; tolerance; tool; total; toxicity; toxin; tract; traditional; transfusion; transport; trauma; treatment; treatment group; trilostane; tt4; tubes; tumor; type; ultrasound; underlying; underwent; university; unknown; untreated; upc; upper; uptake; urea; urinalysis; urinary; urine; uroliths; use; useful; utility; vaccinated; vaccination; vaccine; values; valve; variability; variables; variation; variety; vascular; ventricular; veress; veterinary; vhs; viral; virus; visceral; vitamin; vitro; vivo; volume; vomiting; wall; wallis; water; weekly; weeks; weight; western; white; whitney; wide; widely; wilcoxon; wild; wnt; work; wound; years; zinc; zooepidemicus cache: cord-023095-4dannjjm.txt plain text: cord-023095-4dannjjm.txt item: #210 of 647 id: cord-023120-jcgf2401 author: None title: Animal virus genetics date: 2004-06-18 words: 17827 flesch: 65 summary: i f f e r e n t endogenous r e t r o e t e c t the virus during purification. keywords: ability; activity; addition; adomet; aev; akr; amounts; amv; analysis; antibodies; antibody; antigenic; antigens; balb; biological; c e; c l; c r; c t; c3h; c3hf; c58; cells; cellular; changes; characterized; class; cloned; control; cpv; crosses; culture; daltons; data; defective; deletion; dependent; determinants; differences; different; disease; dna; e d; e g; e l; e major; e n; e s; e u; early; electrophoresis; end; endogenous; endonuclease; evidence; expression; f e; f l; f r; f t; fesv; fragments; fusion; g l; g t; galv-5; gel; gene; genetic; genome; group; growth; h e; helper; high; homologous; host; human; hybridization; immune; infected; infection; infectivity; isolated; l l; l rna; l s; l v; l y; lack; large; late; ldv; length; leukemia; levels; lines; low; lymphoma; major; mammary; mapping; mc29; measles; mice; mmtv; molecular; monoclonal; mouse; mrna; msv; mulv; murine; mutant; n c; n d; n g; n h; n l; n s; n t; n u; nature; neutralizing; non; normal; nrk; number; o l; o n; o r; oncogenic; p e; p l; p r; p t; p30; particles; permissive; phase; phenotype; plaque; polypeptides; possible; post; presence; present; promoter; proteins; pulse; purified; r e; r l; r n; r r; r s; r u; rate; region; related; replication; restriction; results; rna; rnas; s c; s f; s o; s p; s s; s t; sarcoma; sensitive; sequences; serum; site; size; small; specific; strain; structural; studies; surface; sv40; synthesis; t d; t e; t h; t l; t o; t r; t t; t u; t y; target; temperature; terminal; transcription; transformation; transformed; transforming; treatment; tumor; type; u l; u s; variant; viral; virion; virus; viruses; vitro; w e; weight; wild; y e cache: cord-023120-jcgf2401.txt plain text: cord-023120-jcgf2401.txt item: #211 of 647 id: cord-023208-w99gc5nx author: None title: Poster Presentation Abstracts date: 2006-09-01 words: 71178 flesch: 41 summary: Peptide structures can be approached by spectroscopy and NMR techniques but data from these approaches too frequently diverge. To increase the stability and the therapeutic efficacy of peptide sequences from myelin oligodendrocyte protein (MOG) that act as multiple sclerosis (MS) antigens, we grafted them onto a framework of a particularly stable class of peptides, the cyclotides. keywords: able; absence; acid; acid peptide; acid residues; activated; activation; active; active peptides; activities; activity; acute; acyl; addition; adhesion; administration; affinities; affinity; agents; aggregates; aggregation; aib; aim; ala; alanine; aldehydes; alpha; alzheimer; amadori; amide; amino; amino acids; amino group; amyloid; analogs; analogues; analysis; angiogenesis; animals; antagonists; anthrax; antibacterial; antibiotics; antibodies; antibody; antigen; antigenic; antimicrobial activity; antimicrobial peptides; application; approach; appropriate; aqueous; arg; arginine; aromatic; arrays; asp; assay; assemblies; assembly; associated; atoms; attractive; autoimmune; available; azobenzene; aß42; bace1; backbone; background; bacteria; basis; behaviours; best; beta; better; bilayer; binding; biological; biological activity; biotin; bip; block; blood; boc; bond; bovine; brain; branched; bridge; broad; bsa; buffer; building; calculated; calculations; cancer; candidates; capture; carbohydrate; carbon; carbonyl; carboxylic; cardiac; cardiovascular; carrier; cart; cart peptide; case; catalytic; cathepsin; cck; cck8; cell; cellular; central; chain; changes; channels; characteristic; characterization; characterized; chemical; chemistry; chiral; chitosan; chromatography; chymotrypsin; circular; cis; citrullination; class; classical; cleavage; cleaved; clinical; cns; coil; coli; collagen; column; combination; combinatorial; combined; common; comparison; competitive; complex; complexes; components; compounds; concentration; conclusion; conditions; conformational; conjugates; conjugation; conserved; constants; construct; content; control; conventional; conversion; coordination; core; correct; correlation; corresponding; coupling; cov; cripto; critical; cross; crucial; crystal; ctfs; current; curves; cxcr4; cyclic; cyclic peptides; cyclotides; cyp2c9; cysteine; cytotoxic; data; degradation; degree; delivery; department; dependent; derivatives; design; detection; determination; determined; development; diabetes; diagnostic; dichroism; differences; different; difficult; diffusion; digestion; dimensional; dimer; dimeric; dimerization; dipeptides; direct; discovery; diseases; display; dissociation; distance; distinct; distribution; disulfide; dmso; dmt; dna; domain; dose; drug; dynamics; e.g.; early; effect; effective; efficacy; efficient; eif4e; electron; electrophoresis; elements; elisa; endogenous; endothelial; energy; enhanced; environmental; enzymatic; enzyme; epitope; equilibrium; essential; ester; eukaryotic; example; excellent; exhibit; experiments; expression; extracts; factor; family; fast; features; fibrils; field; findings; fluorescence; fmoc; folding; following; food; force; forming; forms; fragment; framework; free; ftir; function; furthermore; gamma; gas; gel; general; generation; glands; gln; glu; gly; glycopeptides; gnrh; goal; good; grant; great; group; growth; ha2; hairpin; hand; haptoglobin; hcc; head; helical; helices; helix; high; high affinity; higher; histone; hiv; hiv-1; hk2; homology; hormone; hplc; human; hybrid; hydrogen; hydrolysis; hydrophobic; i.t; iapp; ic50; identification; ige; igg; iii; ile; imaging; immobilized; immune; immunoglobulin; important; improved; incorporation; increase; induced; industrial; infection; influence; information; inhibition; inhibitors; inhibitory activity; insulin; intake; integrin; interaction; interest; interesting; internalization; intracellular; intramolecular; intrinsic; introduction; investigation; irradiation; isoforms; isolated; isolation; isomers; kda; key; kinase; kinetics; knowledge; large; lct; lead; length; leu; level; libraries; library; ligands; ligation; light; like; likely; limited; linear; linear peptide; lines; linker; lipid; living; long; loop; low; lower; lysine; mab; major; maldi; manner; map; mass; matrix; mean; measurements; mechanical; mechanism; melanocortin; member; membrane; metabolic; metal; metastasis; method; methodology; methyl; mice; micromolar; microscopy; microwave; mif-1; mimetics; mimic; minimal; mixture; model; model peptide; modifications; modified; moieties; moiety; molecular; molecules; motif; mouse; multiple; mutants; mutations; nanoparticles; native; natural; nature; necessary; nervous; neuroprotective; new; new peptides; nh2; nmr; nociceptive; non; normal; novel; number; observed; occurring; oligomers; oligopeptide; opioid; opioid peptides; optimal; order; organic; orientation; oxidation; oxidative; oxytocin; p53; paclitaxel; page; pain; parallel; parameters; particular; pathogenic; pathway; patients; pattern; penetratin; pentapeptides; peptide; peptide analogues; peptide backbone; peptide binding; peptide chain; peptide conjugates; peptide derivatives; peptide fragments; peptide inhibitors; peptide ligands; peptide molecules; peptide polymers; peptide sequences; peptide synthesis; peptidomimetics; peptidyl; pharmacological; phase; phase peptide; phe; phenotype; physiological; plant; plasma; plasmon; platelet; pna; polymer; polymerization; polypeptide; polyproline; poor; pore; position; positive; possess; possibility; possible; potency; potent; potential; powerful; preparation; prepared; presence; present; present study; presentation; pressure; previous; primary; prion; pro peptide; problem; procedures; processes; prodrug; production; products; profile; proliferation; proline; prolyl; promising; properties; prostate; protease; protein; proteolytic; protocol; pth; purification; purified; purity; putative; range; rational; rats; reaction; reactive; reagents; recent; receptor; recognition; recombinant; reduced; region; regulation; regulatory; related; relationship; relative; release; replacement; report; research; residues; resin; resistant; resonance; respectively; response; responsible; resulted; results; rgd; rich; rich peptides; ring; rna; rnwdvyk; role; rrf; samples; sars; scaffold; screening; sds; secondary; segment; selected; selective; selectivity; self; sensitive; sensitivity; sequence; sera; series; serine; serum; set; sfti-1; sh2; shape; sheet; shift; short; short peptides; shp-1; signal; signaling; significant; similar; simulated; simulations; single; site; small; solid; solid phase; solubility; soluble; solution; solvent; spatial; species; specific; specificity; spectra; spectrometry; spectroscopy; spectrum; sperm; spot; spps; spr; stability; stable; standard; state; step; strains; strands; strategies; strategy; strong; structure; structure activity; studies; study; substances; substitution; substrate; subunit; suggested; suitable; support; surface; syntheses; synthesized; synthetic; system; tail; target; targeting; tbu; tcp; techniques; technology; temperature; terminal; terminal amino; terminal peptides; terminus; tested; tests; tetrapeptide; tetrazole; theoretical; therapeutic; therapy; thermal; thioester; thioether; thr; throughput; time; tissue; titration; tof; tools; total; toxicity; transcription; transduction; transfer; transition; transport; treatment; trh; tripeptide; tritium; troponin; trp; trypsin; tryptophan; tumor; turn; type; tyr; ubiquitin; understanding; unique; unit; uptake; use; useful; vaccine; val; values; variants; variety; vesicles; viral; virus; vitro; vivo; vwf; warfarin; water; wild; work; xaa; years; yields; zinc; αvβ3 cache: cord-023208-w99gc5nx.txt plain text: cord-023208-w99gc5nx.txt item: #212 of 647 id: cord-023209-un2ysc2v author: None title: Poster Presentations date: 2008-10-07 words: 112272 flesch: 42 summary: A specifi c bioassay was developed for screening peptides activity in high salinity conditions in order to evaluate the inhibition of biofi lm growth, based on growing biofi lmforming bacteria in a 96-wells microtiter plate. The insight into the molecular mechanism of peptides activity is obtained in vitro using SAXS method and artifi cial systems mimicking a bacterial cytoplasmic membrane. keywords: -and; -disubstituted; -pro; -sheet; 26rfa; able; absence; acceptor; accessible; account; accumulation; acetyl; acid peptide; acid residues; acid sequence; acidic; acids; acknowledgements; acrebol; activation; active; active peptides; activities; activity; activity relationship; activity studies; acyl; acylation; addition; adhesion; adjuvant; administration; adsorption; advantage; affected; affi; affi nity; agents; aggregates; aggregation; agonists; aib; aim; ala; alanine; alpha; alternative; alzheimer; amide; amines; amino; amino acid; amino group; ammatory; amounts; amphipathic; amphiphilic; amps; amyloid; amyloid peptide; anabaena; analgesic; analogs; analogues; analysis; angiogenesis; angiotensin; angle; animals; antagonist; antibacterial; antibacterial activity; antibiotics; antibodies; antibody; anticancer; antifungal; antigenic; antigens; antimicrobial activity; antimicrobial peptides; antiproliferative; antitumor; antiviral; apoptosis; apoptotic; application; approach; aqueous; arginine; aromatic; arthritis; artifi; asn; asp; aspects; aspp2; assay; assembly; associated; association; atoms; attached; attachment; attention; attractive; aureus; autoantibodies; autoimmune; automated; available; avb3; avp; aza; aza-3; azobenzene; backbone; bacteria; base; basis; bbs; behavior; benefi; bers; best; best peptides; beta; better; bilayer; binding; bioactive; bioactive peptide; biochemical; bioconjugates; biofi; biological; biological activity; biology; biomarkers; biomolecules; biophysical; blocks; blood; boc; bombesin; bond; bpa; bradykinin; brain; breast; bridge; brils; broad; buffer; building; c modifi; c34; cacy; calcium; calculated; calculations; cam; cancer; cancer cells; candidates; capable; capacity; carbodiimide; carbohydrate; carbon; carboxylic; cargo; carrier; case; caspase; catalyst; catalytic; cathepsin; cation; cationic; cationic peptides; ccdb; cell; cell membrane; cellular; cellulose; center; central; cereulide; certain; cgrp; chains; challenge; changes; characteristics; characterization; characterized; charge; chelator; chemical; chemical synthesis; chemistry; chemoselective; chiral; cholesterol; chromatography; cial; ciency; cient; ciently; circular; cis; city; class; classical; clear; cleavage; click; clinical; clones; coil; coil peptide; coiled; coli; collagen; column; combination; combinatorial; common; communication; comparable; comparison; competitive; complete; complex; complex peptide; complexes; components; composition; compounds; computational; concentration; concept; conclusion; condensation; conditions; confi; conformational; conjugates; conjugation; consecutive; conserved; consists; constant; constraints; construct; content; contrast; contribute; control; conventional; conversion; core; correlation; corresponding; cortexin; cost; coupling; covalent; cpp; cpps; cres; crf; critical; cross; crucial; crude; crude peptide; crystal; cult; culture; current; cyanophycin; cycle; cyclic; cyclic peptides; cyclization; cystatin; cysteine; cytoplasmic; cytotoxic; cytotoxicity; data; death; decades; decrease; defi; degradation; degree; dehydroamino; delivery; deltaphe; dendrimers; dengue; dependent; deprotection; derivatives; design; detailed; detection; determination; determined; development; dhhp-6; diabetes; diagnostic; dichroism; differences; different; different peptides; differentiation; diffi; dimensional; dimeric; dimerization; direct; discovery; diseases; disorders; display; distance; distinct; distribution; disulfi; diverse; dmso; dna; domain; dose; dota; double; dpc; drug; dsip; dynamics; early; ed peptides; ed protein; effect; effective; effi; effi cient; electron; electrostatic; elements; elisa; endogenous; endothelial; energy; enhanced; enhancement; entire; entry; environment; enzymatic; enzymatic activity; enzymatic peptide; enzyme; epitope; equilibrium; essential; esters; eukaryotic; evaluation; events; evidence; example; excellent; exchange; exerts; exhibit; exibility; exible; expected; experiments; expressed; expression; extended; extent; extracts; factor; family; fast; fatty; favorable; features; fi brils; fi rst; fitc; fl uorescence; flt-1; fmoc; focus; folding; folds; following; food; force; formation; forms; found; fragmentation; fragments; framework; free; free peptides; fret; function; functionalized; fundamental; fusion; fusion peptide; gala peptide; gel; general; generated; generation; genetic; germany; gln; glp-1; glu; glucose; gly; glycine; glycopeptides; glycoproteins; glycosylated; glycosylation; gnrh; goal; gold; good; gp41; gpr103; gram; grant; great; greater; group; growing; growth; guration; hand; handed; hcc; healthy; heating; helical; helices; helix; heptapeptide; high; high affi; high specifi; higher; highest; hiv-1; hldf-6 peptide; hobt; homologous peptide; homology; hormone; host; hours; hplc; human; hydrogen; hydrolysis; hydrophobic; hydroxyl; hyp; ic50; identical; identifi; identifi cation; identifi ed; igf2r; igg; iii; il-6; imaging; immobilized; immune; immunogenic; impact; important; improved; inactive; incorporated; incorporation; increase; incubation; individual; induced; infection; infl; inhibited; inhibition; inhibitors; inhibitory activity; initial; innate; inside; insl3; institute; instrument; insulin; integrin; intein; intensity; interaction; interest; interesting; interface; internalization; intracellular; intramolecular; introduction; invasion; inverse; investigation; irradiation; isoforms; isolated; isolation; kda; key; kidney; kinase; known; labeling; lack; lactam; large; lead; leading; left; length; length peptide; leu; leucine; level; libraries; ligation; light; like; like peptides; limited; linear; lines; linker; lipid; liposomes; liquid; literature; little; living; local; localization; location; long; longer; loop; loss; low; lower; lysine; major; maldi; mammalian; manner; marine; mass; materials; matrix; me)pro; means; measurements; mechanical; mechanism; media; medical; medicines; medium; melittin; member; membered; membrane; memory; metabolic; metal; methanol; method; methodology; methyl; methylation; mice; micelles; microscopy; microwave; mif-1; mild; mimic; mimicking; minimal; minimum; minutes; mixed; mixture; model; model peptides; modeling; modifi; modifi cation; modifi ed; moieties; moiety; molecular; molecules; monitoring; monomers; motif; mouse; mri; mrna; multiple; mutants; mutations; nanofi; nanoparticles; native; natural; natural amino; natural peptides; nature; ndings; necessary; need; negative; neuronal; neurons; neuropeptide; neutrophil; new; new analogues; nh2; nities; nity; nity peptide; nmr; non; normal; novel; novel peptide; nucleic; number; numerous; observed; occurring; offer; oligomers; oligopeptides; ones; opioid; opposite; optimal; order; organic; orientation; original; overall; oxidation; oxidative; oxm; oxygen; pain; parallel; parameters; parent; parent peptide; particular; past; pathological; pathway; patients; patterns; pc4; peg; penetrating; peptide; peptide activity; peptide analogues; peptide analysis; peptide antigens; peptide arrays; peptide backbone; peptide bond; peptide chain; peptide chemistry; peptide components; peptide concentration; peptide conformation; peptide conjugates; peptide derivatives; peptide design; peptide dimers; peptide drugs; peptide epitops; peptide family; peptide fi; peptide folding; peptide fragments; peptide hybrids; peptide identifi; peptide inhibitors; peptide interaction; peptide library; peptide ligands; peptide ligation; peptide modifi; peptide molecules; peptide nk-2; peptide production; peptide purifi; peptide receptors; peptide secondary; peptide sequence; peptide structure; peptide substrates; peptide synthesis; peptide thioester; peptidic; peptidomimetics; performance; performed; peripheral; permeability; phage; pharmaceutical; pharmacological; phase peptide; phase synthesis; phe; phenylalanine; phospholipids; phosphorylation; photo; physicochemical; physiological; plasma; platelet; platform; play; pna; point; polar; polymer; polymerization; polypeptide; polyproline; poor; pore; position; positive; possibility; possible; poster; potency; potential; ppii; practical; precise; precursor; preferred; preliminary; preparation; prepared; presence; present; presentation; pressure; previous; primary; prion; probe; problem; procedure; process; processes; production; products; profi; program; progress; proliferation; proline; prolyl; promising; propensity; properties; prostate; protease; protective; protein; protein amino; protein fragments; protein interactions; protein ligation; protein synthesis; proteolytic; protocol; pure; purifi; purifi cation; purifi ed; purity; purpose; putative; quantitative; racemization; random; range; rapid; rational; ratios; rats; reaction; reactive; reagents; recent; receptor; recognition; recombinant; recovery; reduced; references; refl; region; regulation; regulatory; regulatory peptides; related; relationship; relative; relaxin; release; releasing; relevant; remains; remarkable; removal; replacement; report; required; research; residue peptide; residues; resin; resistance; resonance; respect; response; responsible; restricted; resulted; results; reverse; reversible; rgd; rgds; rheumatoid; rich; rich peptides; ring; role; rst; s4(13)-pv peptide; samples; scaffold; scale; scan; scattering; science; screening; sds; secondary; secondary structure; segment; selection; selective; selectivity; self; sensitive; sensitivity; sequence; sequential; sera; series; serine; serum; set; severe; sh3; shifts; short; short peptides; showing; signaling; signals; signifi; silica; similar; simple; simulations; single; site; small; small peptide; solid; solid phase; solubility; soluble; solution; solvent; somatostatin; spacer; special; species; specifi c; specifi city; spectra; spectrometry; spectroscopy; spectrum; spps; stability; stabilization; stable; standard; starting; state; step; stimulating; strains; strategies; strategy; stress; strong; structure; structure activity; studies; study; subsequent; substitution; substrates; subunits; successful; suffi; suitable; superior; support; supramolecular; surface; syntheses; synthesis method; synthesized; synthetic; system; t20; tailpiece; target; target peptide; targeted; targeting; techniques; technology; temperature; template; temporin; terminal; terminal amino; terminal peptide; termini; terminus; terms; tertiary; test; tetrafl; tfa; tfe; therapeutic; therapy; thermal; thiol; thr; thymus; time; tissue; tof; tools; total; toxicity; toxin; trans; transcription; transfer; transition; transmembrane; transport; treatment; triazine; trifl; tripeptide; triple; trp; trypsin; tryptophan; tuftsin; tumor; tumor cells; turn; type; typical; tyr; tyrosine; understanding; unique; unit; university; unknown; unnatural; uorescein; uorescence; uorinated; uoroborates; uptake; use; useful; vaccine; val; valuable; values; variable; variants; variations; variety; vascular; vcd; vegf; versatile; vesicles; vessels; viral; virus; vitro; vivo; water; weight; wide; work; years; yield; zno cache: cord-023209-un2ysc2v.txt plain text: cord-023209-un2ysc2v.txt item: #213 of 647 id: cord-023211-kt5gt26t author: None title: Poster Session Abstracts date: 2007-08-29 words: 221712 flesch: 48 summary: Understanding how its modulation modifies transepithelial transport and inflammation in CF versus non CF cells should give new therapeutic clues to reduce exaggerated inflammation and improve fluid secretion in CF patients. This finding indicates that CFTR potentiators have a wide efficacy on many class III mutants and therefore may represent a promising therapeutic strategy for a significant number of CF patients. keywords: 1,2; 16hbe; 2004; a2b; a549; aat; abc; ability; abnormal; abnormalities; abpa; absence; absorption; access; account; accumulation; accurate; acid; acidification; acinar; acinar cells; acquisition; acting; activators; active; activities; acts; acute; addition; address; adenosine; adequate; adherence; adherent; adjusted; administration; admission; ado; adolescents; adult cf; adult cystic; adult patients; adults; advance; adverse; aerosol; aeruginosa; aeruginosa lung; affected; affinity; agar; age; aged; agents; aggressive; agonists; agreement; aim; aims; airflow; airway cells; airway disease; airway epithelial; airway infection; airway inflammation; airway surface; airways; algorithm; allele; alpha; alterations; altered; alternative; alveolar; amikacin; amiloride; amino; aminoglycoside; amounts; anaerobes; anaerobic; analysis; anemia; anemic patients; anion; annual; antibiotic; antibiotic treatment; antibodies; antibody; antimicrobial; antisense; anxiety; apical; application; appointments; approach; appropriate; areas; arikace; array; asl; aspects; aspergillus; assay; assessment; associated; association; asthma; atp; atpase; attention; aureus; australia; available; average; azithromycin; azm; background; bacterial; bal; balance; balf; band; barriers; baseline; basis; basolateral; bath; bcc; beginning; behavior; beneficial; benefit; best; beta; better; bhk cells; bile; binding; biochemical; biofilm; biological; biomarkers; birth; bles; block; blood; blot; bmi; body; bone; breathing; bronchial epithelial; bronchiectasis patients; bronchoalveolar; burden; burkholderia; ca2; cacc; calcium; calls; calu-3; camp; canada; canadian cf; cancer; capable; capacity; carbachol; caregivers; carolina; cascade; cases; categories; caucasian cf; cause; cbavd; cbf; cell lines; cell surface; centers; central; centres; cepacia; cepacia cf; cepacia patients; ceramide; certain; cf ages; cf airway; cf animals; cf association; cf balf; cf boys; cf bronchial; cf bronchiectasis; cf care; cf carrier; cf cases; cf cells; cf center; cf centre; cf children; cf clinic; cf cultures; cf data; cf database; cf diagnosis; cf disease; cf ebv; cf epithelial; cf families; cf family; cf females; cf foundation; cf gene; cf group; cf hbe; cf infants; cf isolates; cf liver; cf lung; cf macrophages; cf mice; cf model; cf mouse; cf mutation; cf nasal; cf nbs; cf neutrophils; cf offspring; cf outcomes; cf pathophysiology; cf patients; cf phenotype; cf phone; cf physician; cf population; cf practitioners; cf program; cf pulmonary; cf quality; cf registry; cf research; cf respiratory; cf samples; cf secretion; cf sputum; cf subjects; cf survival; cf team; cf therapeutics; cf therapies; cf therapy; cf transmembrane; cf treatment; cf trust; cf unit; cf vitamins; cfbe41o; cff; cfft; cfld; cfq; cfrd; cftr; cftr activation; cftr activity; cftr biogenesis; cftr cdna; cftr cell; cftr channel; cftr chloride; cftr correctors; cftr deficient; cftr degradation; cftr dependent; cftr endocytosis; cftr expression; cftr folding; cftr function; cftr gene; cftr genotype; cftr inhibitor; cftr interaction; cftr intracellular; cftr knockout; cftr levels; cftr locus; cftr maturation; cftr mice; cftr mrna; cftr mutations; cftr null; cftr orthologue; cftr potentiators; cftr processing; cftr promoter; cftr protein; cftr regulation; cftr results; cftr sequence; cftr surface; cftr tm1unc; cftr trafficking; cftrinh-172; cfu; challenge; chamber; changes; channel; channel activity; channel function; chapel; chaperones; characteristics; characterized; chart; chemical; chest; chicago; chip; chloramphenicol; cholesterol; chromatography; chronic; chronic lung; chs cf; ciliated; ciliated cells; ciprofloxacin; circuit; classes; classic cf; classified; clchannel; clearance; clinical; clinical data; clinics; clonal; clones; cm2; coated; code; coding; codon; cohort; collagen; collection; colonic; colonization; colonized; combination; combined; commd1; common; common cf; communication; community; comparable; comparison; complete; completion; complex; compliance; complications; component; composition; compounds; concentrations; conclusion; conditions; conductance; configuration; confocal; conformational; consecutive; consecutive patients; consensus; consequences; consistent; constructs; containing; content; continued; contraction; contrast; contribution; control; control cells; control patients; conventional; correctors; correlated; correlation; corresponding; cost; cough; counseling; counts; course; cpg; creatinine; criteria; critical; cross; crp; crucial; csf; csp; cst; cultures; current; cycle; cystic fibrosis; cytochalasin; cytokine; cytoplasmic; cytosolic; daily; damage; data; date; day; days; death; decision; decline; decreased; defect; defective cftr; defense; deferens; deficient; deficient patients; degradation; degree; deletion; delf508 cftr; delivery; delta; deltaf508; density; denufosol; department; dependent; deposition; depression; desensitization; design; detectable; detection; determination; determined; developed; development; deviation; device; df508; dha; diabetes; diabetic; diagnosis; diet; dietary; differences; different; different cf; differential; differentiated; difficult; diminished; direct; discharge; discussion; disease; disruption; distinct; distribution; diverse; dna; dnase; dogs; domain; dominant; dose; dosing; double; downstream; drug; dry; duox; duration; dx-890; dxa; dysfunction; e.g.; earlier; early; ebc; ednra; effect; effective; effectiveness; efficacy; efficiency; efflux; effort; egfr; elastase; electronic; electrophoresis; elements; elevated; elevation; elisa; enac; encoding; endocytic; endogenous; endogenous cftr; endoplasmic; energy; enhanced; entire; entry; environment; enzyme; epidemiology; episodes; epithelial cells; epithelium; eps; equivalent; equol; essential; established; estimate; estrogen; eur-1008; evaluation; events; evidence; exacerbation; example; excessive; exchange; exercise; exhibit; exon; expansion; expected; experienced; experiments; expiratory; export; exposure; expressing; expression levels; extent; extracts; f508del; f508del cftr; factors; failure; families; family; fasting; fat; fatty; features; fed; fev1; fewer; ffm; fibrosis airway; fibrosis center; fibrosis foundation; fibrosis lung; fibrosis patients; fibrosis transmembrane; final; findings; flagellin; flow; fluid; fluorescence; focus; fold; folding; following; food; forms; forskolin; fractions; france; free; french cf; frequency; frequent; frt; frt cells; fumigatus; functional; functioning; fungal; future; fvc; fxyd5; g551d; gain; gamma; gastrointestinal; gastrostomy; gating; gel; gels; gender; gene expression; gene therapy; general; generation; genes; genetic; genistein; genome; genomic; genotype; genotyping; germany; gfp; girls; glands; global; glucose; glutathione; goal; good; gradient; grant; greater; green; groups; growth; gs-9310/11; gsh; guidelines; h2o; half; halide; hand; hbac cftr; hbe; hbe cells; hbecs; hdj-2; health; healthcare; hearing; hela; hela cells; help; heterozygous; high; higher; highest; hill; hispanic cf; hispanic patients; history; hits; hmgb1; home; homeostasis; homozygous; homozygous cf; hospital; hospitalization; host; hours; hrct; hrqol; hrs; hsp70; human airway; human cells; human cf; human lung; human patients; humans; hyperabsorption; hypertonic; hypoglycaemia; hypothesis; hypothesized; hypoxia; i.v; ib3; ib3 cells; ibuprofen; identical; identification; identifying; ige; igg; iii; il-10; il-17a; il-23; il-6; il-8; illness; images; imaging; immature cftr; immune; immunofluorescence; immunoprecipitation; impact; impaired; impairment; important; important cf; improved; improvement; incidence; income; increase; incubated; incubation; index; individuals; induced; induction; infected; infection; inflammation; inflammatory; inflammatory cells; influence; influx; information; inhalation; inhaled; inhibited; inhibition; inhibitors; initial; initiation; injury; innate; inserm; insights; institute; instrument; insufficiency; insulin; insurance; intact; intake; intensity; interaction; interest; interface; interim; intermediate; internal; internalized cftr; intervention; interviews; intestinal; intracellular; intravenous; introduction; investigation; involvement; iodide; irt; isc; isolates; isolation; issues; italian cf; italy; items; jet; junctions; kda; key; killing; kinase; kingdom; knockdown; knowledge; known; laboratories; laboratory; lack; lactate; large; lavage; layer; leading; leads; left; legal; length; lentiviral; levels; levofloxacin; library; life; likely; limited; linear; lines; lipid; liposomal; liposomes; liquid; list; literature; littermates; little; local; localization; localized; london; long; longer; longitudinal; loss; lower; lps; luciferase; lumen; luminal; lung cells; lung disease; lung epithelial; lung function; lung infection; lung inflammation; lung transplant; lungs; lymphoma; magnitude; maintenance; major; major cf; majority; making; malabsorption; male cf; malh; management; mannitol; marked; markers; mass; material; matrix; mature; maximal; maximum; mcc; mdck; mean; mean age; mean fev1; measure; measurements; mechanism; median; mediators; medical; medication; medicine; medium; members; membrane; membrane cftr; membrane expression; metabolism; methods; microbiology; micrornas; microscopy; migration; mild; mild cf; min.gland; mineral; minimal; minutes; missed; missense; mixed; mmol; mmp-8; model; moderate; modest; modifier; molecular; molecule; monitoring; monolayers; months; morbidity; mortality; motif; motility; motor; mouse lung; mp-376; mrna; mrsa; muc4; muc5ac; mucin; mucociliary; mucoid; mucosal; mucous cells; mucus; multicenter; multiple; murine; mutant cftr; mutants; n=10; n=3; n=4; n=5; n=6; n=7; n=9; na+; nacl; nanoparticles; nasal; national; nbd1; nbd2; nbds; nebulization; nebulizer; necessary; need; negative; neonatal; neutrophil; new; new cf; newborn; nherf1; nih; non; non cf; normal; normal cftr; north; novel; npt2a; nthi; nuclear; nucleolin; nucleotide; number; numerous; nutritional; objective; observation; observed; obstruction; ogtt; oil; ongoing; onset; oocytes; open; optimal; oral; order; organisms; outcomes; outpatient; output; overall; overexpression; overnight; oxalate; oxidative; oxygen; p2y; p<0.001; p<0.05; padi; pain; pairs; pancreatic; panel; pao1; parallel; parameters; parental; parents; participants; participation; particular; past; patch; pathogenesis; pathogens; pathology; pathway; patients age; pattern; pbs; pcd; pcn; pcr; pdz; peak; pediatric cf; pediatric patients; pediatrics; peg; people; peptide; percent; percentile; performance; perfusion; period; peritoneal cf; permeability; persistent; pex; pfge; pfts; pge2; pgp; pharmacokinetic; pharmacological; phase; phenotypes; phenylalanine; phosphorylation; physical; physicians; physiological; physiotherapy; picc; pigs; pilot; pka; pkc; placebo; placement; planktonic; plasma; plasmid; play; pmns; point; polarized; polymorphisms; poor; populations; porcine; porcine cftr; positive; positive cells; positive cf; possible; post; potency; potential; pparγ; practice; predominant; pregnancy; pregnant; preliminary; preliminary results; prescribed; presence; present; present study; pretreatment; prevalence; previous; primary; primary cf; prior; probability; probe; problem; procedures; process; processes; processing; production; products; profile; program; progression; project; proliferation; prolonged; prominent; promising; properties; proportion; prospective; prostasin; protease; protein expression; protein levels; proteins; proteolytic; protocol; providers; ps patients; psa; pseudomonas; pseudomonas aeruginosa; pulmonary disease; pulmonary exacerbation; pulmonary function; pulse; pups; purified; purpose; putative; pyocyanin; qds; quality; quantitative; quarterly; questionnaire; questions; raav; rab4; radiation; randomized; range; rapid; rare; rate; ratios; rats; ray; reactions; reactive; reasons; recent; receptor; recipients; recombinant; recommendations; recorded; records; recovery; recruitment; recurrent; recycling; redox; reduced; redundancy; reference; regimens; region; regular; regulated; regulation; regulatory; related; relationship; relative; relaxation; release; relevance; relevant; renal; repeat; reported; reporting; reports; reproductive; rescue; residue; resistance; respect; respondents; response; responsible; results; retention; reticulum; retrospective; review; risk; role; routine; royal; rsv; safety; saline; salt; samples; satisfaction; saturation; scale; scanning; scans; school; sciences; scores; screened; screening; sds; second; secondary; secrete; secretion; secretory; sectional; selective; self; sensitive; sensitivity; separate; sequence; sequencing; serca; series; serosal; serous; serous cells; serum; set; setting; severe; severe cf; severe lung; severity; sex; sft; short; shrinkage; signaling; significant; significant increase; signs; similar; single; sinus; sirna; site; size; skin; slc26a9; sleep; slope; slow; small; smm; snps; social; sodium; software; solids; soluble; solution; source; species; specific; specific cftr; specificity; specimens; spectrometry; spirometry; splicing; spp; stability; stable cf; stable patients; staff; staining; standard; standard cf; standardized; start; state; statistical; status; steady; stem cells; step; stimulated; stimulation; stip-1; stone; strains; strategies; strategy; stress; strong; structure; studies; study; study group; study patients; study period; stx6; submucosal; subsequent; substantial; substrate; subunit; successful; sufficient; suitable; sult1e1; summary; supernatant; supplementation; support; surface; surface expression; surfactant; surgery; survey; survival; susceptibility; sustained; sweat; symptoms; synagis; synergy; synthesis; system; systemic; t84; target; targeted; targeting; techniques; technology; temperature; terminal; terminus; test; tested; testing; tgf; tgfβ; therapeutic; therapies; therapy; thought; throughput; tidal; tight; time; tissue; tlr2; tnfα; tobramycin; tolerance; tolerated; tool; total; total cells; total cftr; toxicity; tracheas; tract; training; transcription; transduced; transduction; transepithelial; transfected; transfer; transgene; transient; transition; transplant; transplant patients; transplantation; transport; transporters; treatment; trend; trials; tube; type cftr; types; ubiquitin; udca; uk cf; unable; unchanged; unclear; underlying; understanding; underwent; unique; united; university; unknown; untreated; upr; uptake; urea; usa; useful; ussing; values; variability; variable; variants; variation; variety; vas; vcp; vector; vehicle; ventilation; vestibular; vip; viral; virulence; virus; viscosity; visits; vitamin; vitro; vivo; voltage; volume; volunteers; voriconazole; waiting; wall; water; weeks; weight; western; wide; wild; wildtype; women; work; worse; wt cells; wt cftr; wt mice; xbp-1s; years; young; young cf; young patients; younger; yrs; zone; ∆264; ∆f508 cftr; ∆f508cftr cache: cord-023211-kt5gt26t.txt plain text: cord-023211-kt5gt26t.txt item: #214 of 647 id: cord-023225-5quigar4 author: None title: Posters date: 2012-08-21 words: 70555 flesch: 41 summary: Aim of this study is the introduction, in the type 1' β turn peptide structure, of the sugar moiety specific for anti-gangliosides antibody recognition by synthesizing specific building blocks. Peptide synthesis was used to verify the accuracy of the determined sequence and to prepare sufficient peptide amount for biological activity studies. keywords: 1,2; 1,3; 26rfa; 61a; absorption; acceptor; acid; acid peptide; acid residues; acid sequence; acidic; activated; activation; active; active peptides; activities; activity; acyl; addition; administration; adp; affinity; agents; aggregates; aggregation; agonist; aib; aii; aim; ala; alanine; aldehydes; alkylation; alkyne; alternative; alzheimer; amide; amino; amino acid; amino group; amphiphilic; amps; amylin; amyloid; amyloidogenic; analogs; analogues; analysis; ang-(1; angiogenesis; angiotensin; animals; antagonist; antibacterial; antibiotics; antibodies; antibody; anticancer; antigen; antimicrobial; antimicrobial activity; antimicrobial peptides; apoptosis; application; approach; appropriate; aqueous; area; arginine; aromatic; artificial; asp; aspartic; aspirin; assay; assembly; assisted; associated; at1; athens; attached; attachment; attention; attractive; autoimmune; available; backbone; bacteria; base; basis; behavior; best; beta; better; bilayer; binding; bioactive; bioactivity; bioavailability; biological; biological activity; biology; biomolecules; blocks; blood; boc; bond; brain; bridge; building; cancer; candidates; capable; carboxylic; carrier; cascade; case; catalyst; catalytic; cationic; cell; cell membrane; cellular; central; certain; cf3; chain; challenge; changes; channels; characteristics; characterization; characterized; chemical; chemical synthesis; chemistry; chiral; chromatography; chronic; circular; cis; class; clear; cleavage; click; clinical; coagulation; column; combination; combinatorial; combined; common; comparable; comparison; complementary; complete; complex; complexes; components; compounds; computational; concentration; condensation; conditions; conformation; conjugates; conjugation; conserved; considerable; consisting; constraints; content; contrast; control; convenient; core; corresponding; cotton; coupling; course; covalent; cpps; crf1; critical; cross; crucial; curcumin; current; cxcr4; cycle; cyclic; cyclic peptides; cyclization; cycloaddition; cyclotides; cys; cysteine; cytochrome; cytotoxicity; data; death; degradation; delivery; demonstrated; department; dependent; deprotection; derivatives; design; designing; detection; determined; development; diagnostic; dichroism; different; different peptides; difficult; dimeric; dimerization; dipeptide; dipolar; direct; discovery; disease; disorders; display; distinct; disulfide; diverse; dna; docking; domain; dose; drug; dsip; dynamics; e.g.; early; ecd; effect; effective; efficient; elisa; end; endogenous; energy; enhanced; enzymatic; enzyme; epitopes; essential; established; ester; eukaryotic; evaluation; evidence; example; excellent; exhibit; experimental; expression; extended; factor; faculty; family; fatty; features; fibrils; final; findings; fluorescence; fmoc; folding; following; food; formation; forms; fractions; fragments; free; function; functionality; functionalized; gel; general; generation; germany; glu; gly; gnrh; gold; good; gpr103; gram; great; greece; group; growth; gyrase; half; hand; hb40; heart; helical; helix; hemolytic; high; higher; hiv; homology; hormone; hplc; hslv; human; hybrid; hydrogen; hydrolysis; hydrophobic; ic50; identical; identification; iii; ik312532; ile; imaging; immobilization; immobilized; immune; important; improved; incorporation; increase; induced; inflammatory; influence; inhibitor; inhibitory activity; innate; insertion; institute; insulin; integrin; interactions; interest; interesting; interface; intermediates; internalization; intracellular; intramolecular; introduction; investigated; investigation; involved; irradiation; isolated; key; kidney; known; labeling; labels; labile; laboratory; lack; lactam; large; lead; leakage; length; leu; level; libraries; library; life; ligands; ligation; light; like; limited; linear; linear peptide; lines; linker; lipid; liposome; liquid; little; long; loop; loss; low; lower; lps; mainly; major; mammalian; manner; mass; materials; matrix; means; mechanism; melanoma; membrane; metabolic; metal; metastasis; methanol; method; methodology; mhc; mice; microscopy; microwave; migration; mimetic; mimic; minimal; mirna; mixture; model; model peptides; modifications; modified; moieties; moiety; molecular; molecules; monitoring; monolayers; monomers; motif; mouse; multiple; mutations; nanoparticles; native; natural; nature; ncl; need; negative; neutral; new; new peptide; nh2; nisin; nmr; non; novel; nucleic; number; oeg; oligomers; opioid; optimization; order; organic; organisms; orientation; original; orthogonal; overall; oxidative; oxytocin; parallel; parameters; partial; particular; pathway; patients; patras; pattern; peg; penetrating; peptide; peptide analogues; peptide backbone; peptide bond; peptide chain; peptide conformation; peptide cyclization; peptide dendrimers; peptide derivatives; peptide fragments; peptide libraries; peptide ligation; peptide receptor; peptide sequence; peptide stability; peptide structure; peptide synthesis; peptidic; peptidomimetics; peptidyl; pharmaceutical; pharmacokinetic; pharmacological; phase; phase peptide; phase synthesis; phe; phosphorylation; physiological; piperidine; plant; plasma; platelet; pna; point; polypeptide; poor; position; positive; possible; post; potency; potential; powerful; ppii; precursor; preparation; prepared; presence; present; present study; pressure; previous; primary; probe; problem; procedure; process; processes; production; products; profile; progress; project; proliferation; proline; promising; propensity; properties; prostate; protease; protein; proteolytic; protocol; proven; pseudopeptides; pure; purification; purity; pyrrolidine; range; rapid; rats; ray; reaction; reactive; readthrough; reagents; reason; recent; receptor; recognition; recombinant; region; regulation; regulatory; related; relationship; release; relevant; removal; replacement; reported; research; residue peptide; residues; resin; resistance; response; responsible; resulted; results; reverse; rgd; ribavirin; rich; rigid; ring; role; samples; sar; scaffold; science; sclerosis; screening; secondary; secondary structure; segments; selected; selective; selectivity; self; sensitive; sequence; sequencing; sequential; sera; series; serine; serum; set; sfti-1; shape; sheet; short; showing; signaling; significant; silencing; silica; similar; simple; simulations; single; site; small; solid; solid phase; solubility; soluble; solution; solvents; somatostatin; species; specific; specificity; spectra; spectrometry; spectroscopy; spps; stability; stabilization; stable; standard; starting; state; step; stop; strategies; strategy; strong; structure; studies; study; subsequent; substituent; substitution; substrates; successful; suitable; support; surface; syntheses; synthesized; synthetic; system; tail; talin; target; targeting; tbu; technique; technology; temperature; template; terminal; terminus; tertiary; tested; testing; therapeutic; therapy; thioester; thiourea; thr; thrombin; time; tissue; tof; tools; topoisomerase; total; toxic; toxicity; trans; transition; treatment; triazole; trichogin; trna; trp; trypsin; tumor; turn; type; tyr; ufm1; understanding; unique; unit; university; uptake; use; useful; value; variety; vegf; venom; vesicles; vivo; water; weight; wide; wild; work; yield cache: cord-023225-5quigar4.txt plain text: cord-023225-5quigar4.txt item: #215 of 647 id: cord-023346-8sqbqjm1 author: None title: MONDAY: POSTERS date: 2005-06-08 words: 130150 flesch: 50 summary: The Polish Blood Transfusion Act of 22nd August 1997, in force since January 1st 1999, has been supplemented by 8 Decrees: 1. procedures for external BTS audits; 2. requirements for donor selection; 3. requirements and procedures for organization and safe management of blood transfusion in hospitals; 4. requirements for implementing of national and regional donor registers; 5. employment criteria for BTS personnel; 6. training requirements for hospital personnel involved in blood and blood product administration; 7. national, uniform price list for blood and blood products; 8. organization requirements for setting up of a National Committee for Blood and Blood Transfusion. Introduction: TRALI is a life threatening adverse reaction of blood transfusion. keywords: 0.001; abbott; abc; abo blood; absence; accepted; access; accreditation; accurate; acid; activation; activities; activity; actual; acute; additional; adequate; administration; adsorptions; adults; adverse; affected; affinity; aged; agglutination; aim; aims; albumin; alert; allele; alloantibodies; alloantibody; allogeneic blood; alloimmunization; alternative; amplification; analysed; analysis; analyze; anemia; anti; anti hcv; antibodies; antibody; antigens; antiglobulin; apheresis; application; applied; approach; appropriate; area; asked; assay; assessment; associated; association; assurance; atp; autoimmune; autologous blood; automated; automation; availability; available; average; b19; background; bacterial; bag; bags; base; baseline; basis; baxter; benefit; best; beta; better; binding; birth; bleeding; blood bag; blood banking; blood banks; blood cells; blood center; blood collection; blood components; blood conservation; blood consumption; blood derivatives; blood donation; blood donors; blood establishments; blood filtration; blood flow; blood group; blood grouping; blood inventory; blood loss; blood management; blood parameters; blood plasma; blood platelet; blood pressure; blood products; blood safety; blood samples; blood service; blood shortage; blood supply; blood system; blood testing; blood transfusion; blood units; blood use; blood volume; bone; bts; buffy; cancer; capacity; cardiac; cards; care; cases; categories; category; caucasian; cause; ccdee; cd34; cde; cell patients; cell transfusion; cellular; centers; central; centre; centrifugation; certain; cfu; chain; changes; characteristics; children; chronic; circulation; class; clinical; clinicians; close; cmv; coagulation; coat; cold; collaboration; collected; collections; column; combination; combined; commercial; common; comparison; compatible; compatible blood; complement; complete; complex; compliance; complications; concentrates; concentration; concerned; concerns; conclusion; conditions; confirmed; consequence; considerable; consideration; considered; consumption; contamination; content; continuous; contrast; control; control group; conventional; coombs; cord blood; core; corrective; correlation; cost; council; count; counting; countries; country; course; criteria; critical; croatia; cross; crossmatch; csf; culture; current; cytokines; cytometry; d type; d+ blood; daily; data; date; day; days; december; decision; decrease; deferrals; deferred; degree; delayed; delivery; department; depletion; design; detailed; detectable; detection; determination; determined; development; device; diagnosis; diamed; differences; different; different anti; different blood; difficult; direct; directive; disaster; discussion; disease; disorders; distribution; dna; doctors; donations; donor cells; dose; double; drugs; duration; e.g.; early; easy; ebds; education; effect; effective; effective blood; effectiveness; efficacy; efficient; efforts; eia; elasticity; elements; elimination; elisa; end; environment; enzyme; equal; equipment; errors; erythrocytes; essential; established; estimated; etc; european; european blood; evaluation; events; evidence; excessive; exchange; exclusion; exons; expected; experience; exposure; expression; external; extraction; factor; failure; false; family; febrile; female; female blood; female donors; ferritin; fetal; fetus; ffp; fibrinogen; filter; filtration; final; findings; flow; fluorescence; focus; following; fractionation; france; free; freezing; frequency; frequent; fresh; fresh blood; frozen; function; future; g'max; gamma; gel; general; generation; genes; genetic; genotype; genotyping; gestation; glucose; goal; good; graft; granulocyte; greater; greece; group system; groups; growth; guidelines; gvhd; h63d; haematological; haemolysis; haemovigilance; half; hbc; hbsag; hbv; hcv; hcv antibodies; hdn; health; help; hematocrit; hematology; hematopoietic; hemocue; hemoglobin; hemolytic; hemolytic transfusion; hemorrhage; heparin; hepatitis; heterozygous; high; high blood; higher; history; hiv; hla; homologous blood; homozygous; hospital; hospital blood; hospital transfusion; host; hours; hpa; hpa-1a; hsr; htlv; human; human blood; i.v; identification; igg; igm; il-10; ill; immediate; immune; immunization; immunoassay; immunoglobulin; impact; implementation; important; improved; improvement; incidence; incompatibility; incorrect blood; increased; increasing; incubated; incubation; independent; independent blood; index; indications; indirect; individuals; infants; infected; infections; inflammatory; influence; information; informed; infusion; inhabitants; initial; injury; institute; institutions; insufficient; integrated; intensive; intercept blood; internal; international; intervention; intravenous; introduction; intron; investigation; involved; iron; irradiated; irradiation; irregular; isolated; issue; ivig; january; jka; kell; kidd; kit; knowledge; known; labile blood; laboratories; laboratory; lack; lactate; large; law; lead; leucodepleted; leucodepletion; leukocyte; level; life; light; like; likely; limited; liss; literature; load; local; local blood; long; lots; low; lower; lst1; magnetic; main; maintenance; major; major blood; majority; males; malignant; management; mandatory; manual; manufacturing; markers; marrow; massive; material; maximum; mbl; mcmv; mds; mean; measured; measurements; mechanisms; median; medical; medium; membrane; metabolic; methods; microplate; mild; ministry; minutes; mmol; mnc; model; modified; mods; molecular; molecules; monitoring; monoclonal; monoclonal anti; months; morbidity; mortality; mother; multiple; multiple blood; mutation; n =; national blood; necessary; need; negative; negative blood; neonatal; new; new blood; new donors; newborn; non; normal; nucleic; number; objective; observation; observed; occurrence; old; ones; operations; optimal; order; organization; ortho; outcome; overall; oxygen; p =; pabd; packed; pall; panels; parameters; partial; participants; particular; past; pathogen; pathway; patients; patients anti; patients blood; pcr; pcs; people; percentage; performance; period; peripheral blood; personal; personnel; phase; phenotype; physical; physicians; place; plasma; plasma samples; plasma transfusion; plasma units; plasmapheresis; platelet; platelet concentrates; platelet count; platelet products; platelet quality; platelet storage; platelet transfusion; plt; point; policy; polish blood; polyclonal; pooled; pools; poor; population; positive; positive antibody; positive blood; positive cells; positive control; positive donors; positive patients; positive results; positive samples; positivity; possibility; possible; post; post transfusion; postoperative; potential; practice; practitioners; predonation; pregnancies; pregnancy; pregnant; preliminary; premature; preoperative; preparation; prepared; presence; present; prevalence; prevention; previous; primary; principles; prior; prism; problem; procedure; process; processes; processing; procleix; professional; program; programme; project; proper; prophylactic; proportion; prospective; protection; protein; protocol; pth; public; pulmonary; purpose; quality; quality blood; quality control; quality system; quantitative; questionnaire; questions; rabbits; random; randomized; range; rapid; rare; rare blood; rbc; rbc transfusion; rbcs; rccs; rcts; reactive; reagents; real; reasons; recent; recipients; recombinant; recommendations; recovery; red blood; red cell; reduced; reduction; reference; regional blood; regions; regular; regular blood; regulations; regulatory; related; relative; release; relevant; reliable; removal; repeat blood; replacement; reported; reporting; reports; republic; required; requirements; research; residual; resources; respect; respiratory; response; responsible; restrictive; results; retrospective; reverse; review; rhd; rhesus; risk; rna; roche; role; room; routine; routine blood; run; sampling; scansystem; scientific; screened; screening; second; security; selection; self; sensitive; sensitivity; separator; sepsis; sequence; sera; serbia; seroconversion; serological; serology; serum; services; set; setting; severe; severity; sex; shock; short; shows; sickle; significant; signs; similar; simple; singapore; single; site; situations; size; small; society; software; solution; source; special; specific; specific antibodies; specific blood; specificity; specimens; srbc; ssp; staff; standard; state; statistical; status; step; storage; strategies; strategy; students; studies; study; study blood; subjects; subsequent; subsequent blood; successful; suffering; suggested; summary; support; surface; surgery; surgery patients; surgical; survey; survival; symptoms; syndrome; syphilis; system; system antibodies; table; target; technical; technique; technology; temperature; temporary; test; test results; tested; testing; thalassemia; therapeutic; therapy; thrombin; thrombocytopenia; throughput; time blood; time donors; times; titer; titre; tool; total; training; trali; transfusion center; transfusion hepatitis; transfusion medicine; transfusion policy; transfusion practice; transfusion reactions; transfusion safety; transfusion service; transfusion system; transfusion testing; transfusion therapy; transfusions; transmission; transplantation; transport; trauma; trauma patients; treated; treatment; trend; trials; trigger; trima; tube; tumor; turkey; type; typing; ultrio; understanding; underwent; unique; university; unpaid blood; unrelated; usage; use; useful; validation; value; variable; vascular; venous blood; viability; viii; viral; virus; viruses; vitro; vivo; voluntary blood; volunteers; washed; way; wbc; weak; weak d; weeks; weight; white blood; wide; window; women; work; working; world; years; yield; young; ° c cache: cord-023346-8sqbqjm1.txt plain text: cord-023346-8sqbqjm1.txt item: #216 of 647 id: cord-023354-f2ciho6o author: None title: TUESDAY PLENARY SESSION 3 TUESDAY: POSTERS date: 2005-06-08 words: 130154 flesch: 50 summary: The Polish Blood Transfusion Act of 22nd August 1997, in force since January 1st 1999, has been supplemented by 8 Decrees: 1. procedures for external BTS audits; 2. requirements for donor selection; 3. requirements and procedures for organization and safe management of blood transfusion in hospitals; 4. requirements for implementing of national and regional donor registers; 5. employment criteria for BTS personnel; 6. training requirements for hospital personnel involved in blood and blood product administration; 7. national, uniform price list for blood and blood products; 8. organization requirements for setting up of a National Committee for Blood and Blood Transfusion. Introduction: TRALI is a life threatening adverse reaction of blood transfusion. keywords: 0.001; abbott; abc; abo blood; absence; accepted; access; accreditation; accurate; acid; activation; activities; activity; actual; acute; additional; adequate; administration; adsorptions; adults; adverse; affected; affinity; aged; agglutination; aim; aims; albumin; alert; allele; alloantibodies; alloantibody; allogeneic blood; alloimmunization; alternative; amplification; analysed; analysis; analyze; anemia; anti; anti hcv; antibodies; antibody; antigens; antiglobulin; apheresis; application; applied; approach; appropriate; area; asked; assay; assessment; associated; association; assurance; atp; autoimmune; autologous blood; automated; automation; availability; available; average; b19; background; bacterial; bag; bags; base; baseline; basis; baxter; benefit; best; beta; better; binding; birth; bleeding; blood bag; blood banking; blood banks; blood cells; blood center; blood collection; blood components; blood conservation; blood consumption; blood derivatives; blood donation; blood donors; blood establishments; blood filtration; blood flow; blood group; blood grouping; blood inventory; blood loss; blood management; blood parameters; blood plasma; blood platelet; blood pressure; blood products; blood safety; blood samples; blood service; blood shortage; blood supply; blood system; blood testing; blood transfusion; blood units; blood use; blood volume; bone; bts; buffy; cancer; capacity; cardiac; cards; care; cases; categories; category; caucasian; cause; ccdee; cd34; cde; cell patients; cell transfusion; cellular; centers; central; centre; centrifugation; certain; cfu; chain; changes; characteristics; children; chronic; circulation; class; clinical; clinicians; close; cmv; coagulation; coat; cold; collaboration; collected; collections; column; combination; combined; commercial; common; comparison; compatible; compatible blood; complement; complete; complex; compliance; complications; concentrates; concentration; concerned; concerns; conclusion; conditions; confirmed; consequence; considerable; consideration; considered; consumption; contamination; content; continuous; contrast; control; control group; conventional; coombs; cord blood; core; corrective; correlation; cost; council; count; counting; countries; country; course; criteria; critical; croatia; cross; crossmatch; csf; culture; current; cytokines; cytometry; d type; d+ blood; daily; data; date; day; days; december; decision; decrease; deferrals; deferred; degree; delayed; delivery; department; depletion; design; detailed; detectable; detection; determination; determined; development; device; diagnosis; diamed; differences; different; different anti; different blood; difficult; direct; directive; disaster; discussion; disease; disorders; distribution; dna; doctors; donations; donor cells; dose; double; drugs; duration; e.g.; early; easy; ebds; education; effect; effective; effective blood; effectiveness; efficacy; efficient; efforts; eia; elasticity; elements; elimination; elisa; end; environment; enzyme; equal; equipment; errors; erythrocytes; essential; established; estimated; etc; european; european blood; evaluation; events; evidence; excessive; exchange; exclusion; exons; expected; experience; exposure; expression; external; extraction; factor; failure; false; family; febrile; female; female blood; female donors; ferritin; fetal; fetus; ffp; fibrinogen; filter; filtration; final; findings; flow; fluorescence; focus; following; fractionation; france; free; freezing; frequency; frequent; fresh; fresh blood; frozen; function; future; g'max; gamma; gel; general; generation; genes; genetic; genotype; genotyping; gestation; glucose; goal; good; graft; granulocyte; greater; greece; group system; groups; growth; guidelines; gvhd; h63d; haematological; haemolysis; haemovigilance; half; hbc; hbsag; hbv; hcv; hcv antibodies; hdn; health; help; hematocrit; hematology; hematopoietic; hemocue; hemoglobin; hemolytic; hemolytic transfusion; hemorrhage; heparin; hepatitis; heterozygous; high; high blood; higher; history; hiv; hla; homologous blood; homozygous; hospital; hospital blood; hospital transfusion; host; hours; hpa; hpa-1a; hsr; htlv; human; human blood; i.v; identification; igg; igm; il-10; ill; immediate; immune; immunization; immunoassay; immunoglobulin; impact; implementation; important; improved; improvement; incidence; incompatibility; incorrect blood; increased; increasing; incubated; incubation; independent; independent blood; index; indications; indirect; individuals; infants; infected; infections; inflammatory; influence; information; informed; infusion; inhabitants; initial; injury; institute; institutions; insufficient; integrated; intensive; intercept blood; internal; international; intervention; intravenous; introduction; intron; investigation; involved; iron; irradiated; irradiation; irregular; isolated; issue; ivig; january; jka; kell; kidd; kit; knowledge; known; labile blood; laboratories; laboratory; lack; lactate; large; law; lead; leucodepleted; leucodepletion; leukocyte; level; life; light; like; likely; limited; liss; literature; load; local; local blood; long; lots; low; lower; lst1; magnetic; main; maintenance; major; major blood; majority; males; malignant; management; mandatory; manual; manufacturing; markers; marrow; massive; material; maximum; mbl; mcmv; mds; mean; measured; measurements; mechanisms; median; medical; medium; membrane; metabolic; methods; microplate; mild; ministry; minutes; mmol; mnc; model; modified; mods; molecular; molecules; monitoring; monoclonal; monoclonal anti; months; morbidity; mortality; mother; multiple; multiple blood; mutation; n =; national blood; necessary; need; negative; negative blood; neonatal; new; new blood; new donors; newborn; non; normal; nucleic; number; objective; observation; observed; occurrence; old; ones; operations; optimal; order; organization; ortho; outcome; overall; oxygen; p =; pabd; packed; pall; panels; parameters; partial; participants; particular; past; pathogen; pathway; patients; patients anti; patients blood; pcr; pcs; people; percentage; performance; period; peripheral blood; personal; personnel; phase; phenotype; physical; physicians; place; plasma; plasma samples; plasma transfusion; plasma units; plasmapheresis; platelet; platelet concentrates; platelet count; platelet products; platelet quality; platelet storage; platelet transfusion; plt; point; policy; polish blood; polyclonal; pooled; pools; poor; population; positive; positive antibody; positive blood; positive cells; positive control; positive donors; positive patients; positive results; positive samples; positivity; possibility; possible; post; post transfusion; postoperative; potential; practice; practitioners; predonation; pregnancies; pregnancy; pregnant; preliminary; premature; preoperative; preparation; prepared; presence; present; prevalence; prevention; previous; primary; principles; prior; prism; problem; procedure; process; processes; processing; procleix; professional; program; programme; project; proper; prophylactic; proportion; prospective; protection; protein; protocol; pth; public; pulmonary; purpose; quality; quality blood; quality control; quality system; quantitative; questionnaire; questions; rabbits; random; randomized; range; rapid; rare; rare blood; rbc; rbc transfusion; rbcs; rccs; rcts; reactive; reagents; real; reasons; recent; recipients; recombinant; recommendations; recovery; red blood; red cell; reduced; reduction; reference; regional blood; regions; regular; regular blood; regulations; regulatory; related; relative; release; relevant; reliable; removal; repeat blood; replacement; reported; reporting; reports; republic; required; requirements; research; residual; resources; respect; respiratory; response; responsible; restrictive; results; retrospective; reverse; review; rhd; rhesus; risk; rna; roche; role; room; routine; routine blood; run; sampling; scansystem; scientific; screened; screening; second; security; selection; self; sensitive; sensitivity; separator; sepsis; sequence; sera; serbia; seroconversion; serological; serology; serum; services; set; setting; severe; severity; sex; shock; short; shows; sickle; significant; signs; similar; simple; singapore; single; site; situations; size; small; society; software; solution; source; special; specific; specific antibodies; specific blood; specificity; specimens; srbc; ssp; staff; standard; state; statistical; status; step; storage; strategies; strategy; students; studies; study; study blood; subjects; subsequent; subsequent blood; successful; suffering; suggested; summary; support; surface; surgery; surgery patients; surgical; survey; survival; symptoms; syndrome; syphilis; system; system antibodies; table; target; technical; technique; technologies; technology; temperature; temporary; test; test results; tested; testing; thalassemia; therapeutic; therapy; thrombin; thrombocytopenia; throughput; time blood; time donors; times; titer; titre; tool; total; training; trali; transfusion center; transfusion hepatitis; transfusion medicine; transfusion policy; transfusion practice; transfusion reactions; transfusion safety; transfusion service; transfusion system; transfusion testing; transfusion therapy; transfusions; transmission; transplantation; transport; trauma; trauma patients; treated; treatment; trend; trials; trigger; trima; tube; tumor; turkey; type; typing; ultrio; understanding; underwent; unique; university; unpaid blood; unrelated; usage; use; useful; validation; value; variable; vascular; venous blood; viability; viii; viral; virus; viruses; vitro; vivo; voluntary blood; volunteers; washed; way; wbc; weak; weak d; weeks; weight; white blood; wide; window; women; work; working; world; years; yield; young; ° c cache: cord-023354-f2ciho6o.txt plain text: cord-023354-f2ciho6o.txt item: #217 of 647 id: cord-023364-ut56gczm author: None title: EDUCATION DAY MONDAY: PLENARY SESSION 1 MONDAY: PARALLEL SESSIONS date: 2005-06-08 words: 130157 flesch: 50 summary: The Polish Blood Transfusion Act of 22nd August 1997, in force since January 1st 1999, has been supplemented by 8 Decrees: 1. procedures for external BTS audits; 2. requirements for donor selection; 3. requirements and procedures for organization and safe management of blood transfusion in hospitals; 4. requirements for implementing of national and regional donor registers; 5. employment criteria for BTS personnel; 6. training requirements for hospital personnel involved in blood and blood product administration; 7. national, uniform price list for blood and blood products; 8. organization requirements for setting up of a National Committee for Blood and Blood Transfusion. Introduction: TRALI is a life threatening adverse reaction of blood transfusion. keywords: 0.001; abbott; abc; abo blood; absence; accepted; access; accreditation; accurate; acid; activation; activities; activity; actual; acute; additional; adequate; administration; adsorptions; adults; adverse; affected; affinity; aged; agglutination; aim; aims; albumin; alert; allele; alloantibodies; alloantibody; allogeneic blood; alloimmunization; alternative; amplification; analysed; analysis; analyze; anemia; anti; anti hcv; antibodies; antibody; antigens; antiglobulin; apheresis; application; applied; approach; appropriate; area; asked; assay; assessment; associated; association; assurance; atp; autoimmune; autologous blood; automated; automation; availability; available; average; b19; background; bacterial; bag; bags; base; baseline; basis; baxter; benefit; best; beta; better; binding; birth; bleeding; blood bag; blood banking; blood banks; blood cells; blood center; blood collection; blood components; blood conservation; blood consumption; blood derivatives; blood donation; blood donors; blood establishments; blood filtration; blood flow; blood group; blood grouping; blood inventory; blood loss; blood management; blood parameters; blood plasma; blood platelet; blood pressure; blood products; blood safety; blood samples; blood service; blood shortage; blood supply; blood system; blood testing; blood transfusion; blood units; blood use; blood volume; bone; bts; buffy; cancer; capacity; cardiac; cards; care; cases; categories; category; caucasian; cause; ccdee; cd34; cde; cell patients; cell transfusion; cellular; centers; central; centre; centrifugation; certain; cfu; chain; changes; characteristics; children; chronic; circulation; class; clinical; clinicians; close; cmv; coagulation; coat; cold; collaboration; collected; collections; column; combination; combined; commercial; common; comparison; compatible; compatible blood; complement; complete; complex; compliance; complications; concentrates; concentration; concerned; concerns; conclusion; conditions; confirmed; consequence; considerable; consideration; considered; consumption; contamination; content; continuous; contrast; control; control group; conventional; coombs; cord blood; core; corrective; correlation; cost; council; count; counting; countries; country; course; criteria; critical; croatia; cross; crossmatch; csf; culture; current; cytokines; cytometry; d type; d+ blood; daily; data; date; day; days; december; decision; decrease; deferrals; deferred; degree; delayed; delivery; department; depletion; design; detailed; detectable; detection; determination; determined; development; device; diagnosis; diamed; differences; different; different anti; different blood; difficult; direct; directive; disaster; discussion; disease; disorders; distribution; dna; doctors; donations; donor cells; dose; double; drugs; duration; e.g.; early; easy; ebds; education; effect; effective; effective blood; effectiveness; efficacy; efficient; efforts; eia; elasticity; elements; elimination; elisa; end; environment; enzyme; equal; equipment; errors; erythrocytes; essential; established; estimated; etc; european; european blood; evaluation; events; evidence; excessive; exchange; exclusion; exons; expected; experience; exposure; expression; external; extraction; factor; failure; false; family; febrile; female; female blood; female donors; ferritin; fetal; fetus; ffp; fibrinogen; filter; filtration; final; findings; flow; fluorescence; focus; following; fractionation; france; free; freezing; frequency; frequent; fresh; fresh blood; frozen; function; future; g'max; gamma; gel; general; generation; genes; genetic; genotype; genotyping; gestation; glucose; goal; good; graft; granulocyte; greater; greece; group system; groups; growth; guidelines; gvhd; h63d; haematological; haemolysis; haemovigilance; half; hbc; hbsag; hbv; hcv; hcv antibodies; hdn; health; help; hematocrit; hematology; hematopoietic; hemocue; hemoglobin; hemolytic; hemolytic transfusion; hemorrhage; heparin; hepatitis; heterozygous; high; high blood; higher; history; hiv; hla; homologous blood; homozygous; hospital; hospital blood; hospital transfusion; host; hours; hpa; hpa-1a; hsr; htlv; human; human blood; i.v; identification; igg; igm; il-10; ill; immediate; immune; immunization; immunoassay; immunoglobulin; impact; implementation; important; improved; improvement; incidence; incompatibility; incorrect blood; increased; increasing; incubated; incubation; independent; independent blood; index; indications; indirect; individuals; infants; infected; infections; inflammatory; influence; information; informed; infusion; inhabitants; initial; injury; institute; institutions; insufficient; integrated; intensive; intercept blood; internal; international; intervention; intravenous; introduction; intron; investigation; involved; iron; irradiated; irradiation; irregular; isolated; issue; ivig; january; jka; kell; kidd; kit; knowledge; known; labile blood; laboratories; laboratory; lack; lactate; large; law; lead; leucodepleted; leucodepletion; leukocyte; level; life; light; like; likely; limited; liss; literature; load; local; local blood; long; lots; low; lower; lst1; magnetic; main; maintenance; major; major blood; majority; males; malignant; management; mandatory; manual; manufacturing; markers; marrow; massive; material; maximum; mbl; mcmv; mds; mean; measured; measurements; mechanisms; median; medical; medium; membrane; metabolic; methods; microplate; mild; ministry; minutes; mmol; mnc; model; modified; mods; molecular; molecules; monitoring; monoclonal; monoclonal anti; months; morbidity; mortality; mother; multiple; multiple blood; mutation; n =; national blood; necessary; need; negative; negative blood; neonatal; new; new blood; new donors; newborn; non; normal; nucleic; number; objective; observation; observed; occurrence; old; ones; operations; optimal; order; organization; ortho; outcome; overall; oxygen; p =; pabd; packed; pall; panels; parameters; partial; participants; particular; past; pathogen; pathway; patients; patients anti; patients blood; pcr; pcs; people; percentage; performance; period; peripheral blood; personal; personnel; phase; phenotype; physical; physicians; place; plasma; plasma samples; plasma transfusion; plasma units; plasmapheresis; platelet; platelet concentrates; platelet count; platelet products; platelet quality; platelet storage; platelet transfusion; plt; point; policy; polish blood; polyclonal; pooled; pools; poor; population; positive; positive antibody; positive blood; positive cells; positive control; positive donors; positive patients; positive results; positive samples; positivity; possibility; possible; post; post transfusion; postoperative; potential; practice; practitioners; predonation; pregnancies; pregnancy; pregnant; preliminary; premature; preoperative; preparation; prepared; presence; present; prevalence; prevention; previous; primary; principles; prior; prism; problem; procedure; process; processes; processing; procleix; professional; program; programme; project; proper; prophylactic; proportion; prospective; protection; protein; protocol; pth; public; pulmonary; purpose; quality; quality blood; quality control; quality system; quantitative; questionnaire; questions; rabbits; random; randomized; range; rapid; rare; rare blood; rbc; rbc transfusion; rbcs; rccs; rcts; reactive; reagents; real; reasons; recent; recipients; recombinant; recommendations; recovery; red blood; red cell; reduced; reduction; reference; regional blood; regions; regular; regular blood; regulations; regulatory; related; relative; release; relevant; reliable; removal; repeat blood; replacement; reported; reporting; reports; republic; required; requirements; research; residual; resources; respect; respiratory; response; responsible; restrictive; results; retrospective; reverse; review; rhd; rhesus; risk; rna; roche; role; room; routine; routine blood; run; sampling; scansystem; scientific; screened; screening; second; security; selection; self; sensitive; sensitivity; separator; sepsis; sequence; sera; serbia; seroconversion; serological; serology; serum; services; set; setting; severe; severity; sex; shock; short; shows; sickle; significant; signs; similar; simple; singapore; single; site; situations; size; small; society; software; solution; source; special; specific; specific antibodies; specific blood; specificity; specimens; srbc; ssp; staff; standard; state; statistical; status; step; storage; strategies; strategy; students; studies; study; study blood; subjects; subsequent; subsequent blood; successful; suffering; suggested; summary; support; surface; surgery; surgery patients; surgical; survey; survival; symptoms; syndrome; syphilis; system; system antibodies; table; target; technical; technique; technologies; technology; temperature; temporary; test; test results; tested; testing; thalassemia; therapeutic; therapy; thrombin; thrombocytopenia; throughput; time blood; time donors; times; titer; titre; tool; total; training; trali; transfusion center; transfusion hepatitis; transfusion medicine; transfusion policy; transfusion practice; transfusion reactions; transfusion safety; transfusion service; transfusion system; transfusion testing; transfusion therapy; transfusions; transmission; transplantation; transport; trauma; trauma patients; treated; treatment; trend; trials; trigger; trima; tube; tumor; turkey; type; typing; ultrio; understanding; underwent; unique; university; unpaid blood; unrelated; usage; use; useful; validation; value; variable; vascular; venous blood; viability; viii; viral; virus; viruses; vitro; vivo; voluntary blood; volunteers; washed; way; wbc; weak; weak d; weeks; weight; white blood; wide; window; women; work; working; world; years; yield; young; ° c cache: cord-023364-ut56gczm.txt plain text: cord-023364-ut56gczm.txt item: #218 of 647 id: cord-023369-xwclh6ih author: Kim, Faith title: Human Herpesvirus-6 Meningitis in a Premature Infant with Fevers: A Case and Literature Review date: 2020-04-18 words: 4900 flesch: 38 summary: 2, 3 There is a wide clinical spectrum of HHV-6 infection ranging from asymptomatic disease to more serious disease including neonatal hepatitis, infectious mononucleosis-like syndrome, hemophagocytic syndrome, or viral myocarditis, particularly in the immunocompromised population. Major findings included significantly lower scores at 12 months of age on Bayley-Mental Development Index scores in the congenital infection group even after controlling for covariates potentially linking HHV-6 infection and neurologic disease; however, there were no specific clinical manifestations identified at birth such as hearing loss. keywords: active; acute; age; anomalies; antibodies; asymptomatic; authors; blood; case; cells; children; cihhv-6; clinical; cmv; cns; congenital; csf; culture; day; detection; disease; dna; elevated; evidence; exam; febrile; fetal; fevers; herpesvirus; hhv-6; high; human; igm; infants; infection; life; literature; maternal; meningitis; months; mothers; multiple; negative; neonatal; neurologic; old; panel; patient; pcr; period; population; pregnancy; premature; primary; reactivation; respiratory; samples; seizures; shunt; study; transmission; transplacental; viral; virus; weeks cache: cord-023369-xwclh6ih.txt plain text: cord-023369-xwclh6ih.txt item: #219 of 647 id: cord-023389-ilrp8vb7 author: Wefer, J. title: Protective DNA Vaccination Against MOG(91‐108)‐Induced Experimental Autoimmune Encephalomyelitis Involves Induction of IFNβ date: 2008-06-28 words: 16866 flesch: 43 summary: Findings in this project could provide an insight of cancer cell response to these cytokines and this could lead to a consideration on using cytokine as immunotherapy for cancer treatment. During contact sensitivity reaction, immune cells proliferate. keywords: acid; activation; activity; addition; adenosine; ag85a; aim; allergen; allergic; analysis; animals; antibodies; antibody; antigens; antiviral; applied; assays; associated; association; asthma; bacteria; binding; blood; cancer; capacity; carcinoma; cd4; cd8; cells; cellular; cla; clinical; coli; complement; concentration; conclusion; control; cytokine; cytometry; cytotoxicity; data; database; dcs; dendritic; dependent; der; development; differences; different; disease; dna; domain; donors; e.g.; eae; effect; epitopes; exon; expression; factor; ficolin; findings; flora; flow; gene; group; growth; gut; hbsag; healthy; high; higher; hla; human; ifn; iga1; igg; igm; il-12; immune; immunity; immunotherapy; important; increase; individuals; induction; infection; inflammation; inflammatory; information; innate; involved; lab; lactobacillus; large; lectin; levels; like; line; low; lower; lymph; lymphocytes; macrophages; major; malaria; markers; masp-2; maturation; mbl; mbp; mechanisms; methods; mhc; mice; microarrays; model; molecular; molecules; monocytes; mononuclear; mrna; mucosa; negative; nk cells; nodes; normal; novel; opri; oral; ospe; pathogenesis; pathway; patients; peptide; peripheral; phenotype; positive; potential; presence; present; probes; production; proliferation; protease; protein; proteome; pylori; qbc; receptor; recognition; recombinant; release; response; results; role; samples; sassari; sentinel; sera; serum; significant; single; site; skin; species; specific; stimulation; stockholm; strains; strong; studies; study; subsequent; surface; surgery; survival; svegf; svegfr1; system; t cells; target; th1; th2; time; tnf; treatment; tumour; type; upregulation; use; vaccination; vaccine; virus; vitamin; vitro; vivo; weeks; þ t cache: cord-023389-ilrp8vb7.txt plain text: cord-023389-ilrp8vb7.txt item: #220 of 647 id: cord-023592-w96h4rir author: None title: Abstracts cont. date: 2015-12-28 words: 67976 flesch: 48 summary: The maximum amino acid identities of genes among different non-antibiotic-producing bacterial isolates were close to 100% for most genes, but those between antibiotic-producing and human or animal bacteria ranged from <28 to <77%. Results: Seven or eight participants provided qualifying results in the two separate QC studies, and the calculated (proposed) ranges were (range; % results in range): E. faecalis ATCC 29212 (2-8 mg/ L; 95.6), S. aureus ATCC 29213 (0.5-2 mg/L; 99.4), S. pneumoniae ATCC 49619 (0.25-1 mg/L; 97.5 and 30-37 mm; 97.6), H. influenzae ATCC 49247 (1-4 mg/L; 97.5 and 24-32 mm; 99.8), and S. aureus ATCC 25923 keywords: 16s; ability; acid; acinetobacter; acrb; active; activity; acute; addition; administration; admission; aeruginosa; aflp; afzelii; agar; agents; aim; air; albicans; aminoglycoside; amphotericin; ampicillin; amplification; amplified; anaerobic; analysed; analysis; animals; antibiotic; antibiotic resistance; antibiotic susceptibility; antibodies; antifungal; antigen; antimicrobial; antimicrobial resistance; area; array; aspergillosis; aspergillus; assay; associated; association; atcc; auc; aureus; aureus isolates; automated; available; average; bacilli; background; bacteraemia; bacterial; bacterial isolates; bacterial strains; bacteriuria; bacteroides; baumannii; best; beta; better; binary; biochemical; biofilm; biomerieux; biopsy; blood; bloodstream; borrelia; broad; broth; burgdorferi; caga; cancer; candida; carbapenems; care; cases; casseliflavus; catheter; cause; cdt; cefepime; cefotaxime; cefoxitin; ceftazidime; ceftriaxone; cells; central; centres; cephalosporins; cfia; cfu; changes; characterisation; characterised; children; chloramphenicol; choice; ciprofloxacin; clarithromycin; class; clindamycin; clinical; clinical isolates; clinical strains; clonal; clones; clostridium; cns; coagulase; coli; coli isolates; collected; collection; colonies; colonisation; combination; commercial; common; community; comparison; complement; complex; concentrations; concern; conclusions; conditions; cons; contrast; control; conventional; correlation; corresponding; counts; course; cranberry; criteria; cross; csf; ctx; culture; cvc; dalfopristin; data; database; days; death; deformylase; detection; determinants; determination; determined; developed; development; diagnosis; diarrhoea; differences; different; difficile; diffusion; dilution; direct; discriminatory; disease; disk; distinct; distribution; dna; dose; double; drug; e. coli; e. faecium; eaec; early; effect; effective; efficacy; electrophoresis; elisa; emergence; encoding; endemic; enterobacteriaceae; enterococcus; environmental; enzymes; epidemic; epidemiological; epidemiology; epidermidis; episodes; eradication; erythromycin; esbl; escherichia; evaluated; evaluation; evidence; examination; expected; experiments; exposure; expression; extended; extraction; factors; faecalis; faeces; faecium; failure; fever; field; fimbriae; final; findings; flu; fluconazole; fluid; following; food; form; fragilis; fragments; france; frequency; frequent; gallinarum; garinii; gastric; gbs; gel; general; generation; genes; genetic; genome; genomic; genotypes; genotyping; gentamicin; glabrata; gram; greater; group; growth; guidelines; h. results; hand; health; high; higher; highest; hinton; hospital; hospitalisation; hospitalised; human; hybridisation; icu; identical; identification; igg; igm; iii; imipenem; important; incidence; increase; increasing; incubation; infected; infection; inhibitor; inoculum; integrons; intensive; internal; intestinal; invasive; island; isolates; isolation; january; jejuni; juice; kit; klebsiella; laboratory; lactamase; length; levels; like; linezolid; liver; lnz; load; log; loss; lower; lung; lzd; macrolide; main; mainly; major; majority; male; material; max; mean; meca; mechanism; median; medical; medium; meningitis; meropenem; methicillin; methods; metronidazole; mic; mic90; mice; microbiological; microbiology; microdilution; microflora; microorganisms; mics; model; molecular; monitoring; months; mortality; mouse; mrsa; mrsa isolates; mssa; mueller; multiplex; mutant; mutations; nasal; national; nccls; necessary; negative; negative strains; new; non; normal; nosocomial; novel; number; nvp; objectives; occurrence; old; oligonucleotide; oral; order; organisms; organs; origin; outbreak; outcome; overall; oxacillin; p ¼; pathogenicity; pathogens; patients; pattern; pcd; pcr; pcr results; pdf-713; pdf713; penicillin; peptide; percentage; period; perv; pfge; phase; phenotype; plasmid; plates; pneumoniae; population; positive; positive isolates; positive strains; possible; post; potential; poultry; predominant; presence; present; prevalence; previous; primary; primers; prior; probable; probes; process; producing; production; products; profile; prophylaxis; proportion; prostatitis; protein; proven; pseudomonas; pts; pulmonary; pulsed; pvl; pylori; pyrosequencing; quality; quantitative; quinupristin; rabbits; range; rapid; rates; reaction; real; recent; reduced; reference; region; related; relatedness; relationship; reports; resistance; resistance genes; resistant isolates; resistant strains; respiratory; response; responsible; restriction; results; rflp; ribotype; ribotyping; risk; rna; role; route; routine; rrna; s. aureus; salmonella; samples; screening; second; selected; sensitive; sensitivity; sepsis; sequence; sequencing; serotypes; serum; set; severe; severity; shigella; shv; significant; similar; single; sites; skin; small; sources; species; specific; specificity; specimens; spectrum; spleen; spp; spread; staff; standard; staphylococcus; statistical; stay; stool; strains; streptococcus; studies; study; subjects; suitable; sul3; surveillance; survey; survival; susceptibility; susceptible; swabs; sxt; symptoms; system; table; target; technique; teicoplanin; temperature; tested; testing; tests; tetracycline; therapeutic; therapy; ticks; tig; tigecycline; time; time pcr; tissue; tolc; total; toxigenic; toxin; tract; transfer; transmission; treatment; type; typhimurium; typing; underlying; units; unknown; urinary; urine; use; useful; values; vana; vanb; vancomycin; variable; varied; virulence; virus; vitek; vitro; vivo; vor; vre; water; way; weeks; weight; wild; work; years cache: cord-023592-w96h4rir.txt plain text: cord-023592-w96h4rir.txt item: #221 of 647 id: cord-023698-wvk200j0 author: Hammerschlag, Margaret R. title: Chlamydia pneumoniae date: 2014-10-31 words: 10021 flesch: 30 summary: Determination of whether C. pneumoniae infection is an acute primary infection or reinfection, a chronic persistent stage, or a past infection is also very difficult. In clinical settings, routine diagnosis of C. pneumoniae infection has been based on results of serologic testing to identify anti-C. pneumoniae immunoglobulin G (IgG), IgA, and IgM antibodies. keywords: acid; acute; adults; amplification; analysis; antibiotic; antibodies; antibody; antigen; apoptosis; artery; assays; association; asthma; atherosclerosis; available; azithromycin; cardiovascular; cell; chain; children; chlamydia; chlamydia pneumoniae; chlamydophila; chronic; clarithromycin; clinical; comparison; control; coronary; culture; data; days; detection; development; diagnosis; different; difficult; disease; dna; ebs; effect; enzyme; evidence; extraction; filmarray; host; hours; house; human; identification; igg; ihs; inclusions; infected; infection; inflammation; intracellular; isolates; laboratories; laboratory; meta; methods; mif; multicenter; multiple; naat; nested; new; nucleic; number; organism; pathogen; patients; pcr; persistent; pneumoniae; pneumoniae dna; pneumoniae infection; polymerase; populations; positive; presence; prevalence; rbs; reaction; real; reported; research; resistance; respiratory; respiratory infection; results; role; samples; serologic; serology; similar; single; specific; specimens; strain; studies; study; subjects; system; test; time; tissue; trachomatis; tract; treatment; trial; twar; use; vitro; years cache: cord-023698-wvk200j0.txt plain text: cord-023698-wvk200j0.txt item: #222 of 647 id: cord-023705-3q9yr6np author: FENNER, FRANK title: Viral Replication date: 2014-06-27 words: 8336 flesch: 48 summary: The eclipse period ranges from 5 to 15 hours for the various DNA viruses and from 3 to 10 hours for RNA viruses (see Table 4 -2). 4 -3 (for DNA viruses) and Fig. 4 -5 (for RNA viruses). keywords: acid; animal; antiviral; associated; attachment; budding; capsid; case; cell; cellular; chapter; cleavage; cleaved; complex; cycle; cytoplasm; dependent; dependent rna; different; dna; dna replication; dna viruses; dsdna; early; endoplasmic; envelope; enzymes; expression; families; fig; form; general; genes; genome; glycoprotein; host; icosahedral; infection; initiation; later; length; mechanisms; membrane; molecule; monocistronic; mrna; nucleic; nucleocapsid; nucleus; orthomyxoviruses; paramyxoviruses; particular; plasma; polycistronic; polymerase; polyprotein; posttranslational; process; processing; proteins; replication; reticulum; reverse; rna; rna polymerase; sense; sense rna; sequence; single; species; splicing; ssrna; step; strand; strategy; structural; studies; subgenomic; synthesis; template; terminus; transcriptase; transcription; translation; uncoating; viral; viral proteins; viral replication; viral rna; virion; virion rna; viruses cache: cord-023705-3q9yr6np.txt plain text: cord-023705-3q9yr6np.txt item: #223 of 647 id: cord-023724-5at0rhqk author: Cann, Alan J. title: Infection date: 2015-07-24 words: 14985 flesch: 44 summary: The former strategy relies on two approaches: public and personal hygiene, which perhaps plays the major role in preventing virus infection (e.g., provision of clean drinking water and disposal of sewage; good medical practice such as the sterilization of surgical instruments) and vaccination, which makes use of the immune system to combat virus infections. A common misconception is that virus infection inevitably results in disease. keywords: able; acids; action; activation; active; activity; acyclovir; adaptive; adcc; animals; antibodies; antibody; antigenic; antigens; antiviral; apoptosis; azt; bacteria; binding; body; cases; cause; cell; cellular; certain; chapter; clear; clinical; complement; complex; control; crispr; ctls; damage; death; different; direct; disease; dna; drugs; early; effective; effects; encode; example; expression; factor; fas; figure; function; gene; genomes; herpesviruses; high; hiv; host; hsv; human; humoral; ifn; ifns; immune; immune response; immune system; immunity; important; inducers; induction; infected; infection; influenza; influenza virus; inhibition; interaction; interference; killing; known; large; latent; life; long; major; means; mechanisms; membrane; mhc; mice; mirnas; molecular; molecules; mucosal; mutations; natural; necrosis; new; number; organism; particles; pathogenesis; persistent; plant; plant viruses; possible; potential; presence; present; primary; problem; process; production; proteins; receptor; recognition; recombinant; release; replication; resistance; response; result; resulting; rna; route; secondary; sequences; short; single; site; small; species; specific; spread; surface; symptoms; synthesis; system; systemic; target; terms; therapy; tissue; transcription; transmission; treatment; type; vaccines; vectors; virus; virus infection; virus particles; virus proteins; virus replication; virus vaccines; viruses; way cache: cord-023724-5at0rhqk.txt plain text: cord-023724-5at0rhqk.txt item: #224 of 647 id: cord-023727-ahbnchj9 author: Low, K. Brooks title: Genetic Recombination: A Brief Overview date: 2012-12-02 words: 4936 flesch: 35 summary: The two different aspects of recombination mentioned above, i.e., independent (Mendelian) chromosome segregation, and changes in linkage (crossing over), are combined collectively to mean genetic recombination as the term is currently used by many geneticists of higher organisms, for example, those studying human genetic linkage (Ott, 1985; Suzuki et al., 1986) . This definition of recombination was the one intended, for example, by Lederberg (1955) : Genetic recombination is taken to include any biological mechanism for the reassortment within one cell lineage of determinants from distinct sources. keywords: acid; analysis; bacteria; bacteriophage; bases; bateson; case; cell; certain; change; chapter; chromosome; clear; coli; combinations; conversion; corresponding; definition; different; dna; elements; ends; escherichia; et al; events; evidence; example; exchanges; fig; frequency; genes; genetic; genetic recombination; genome; homologous; homology; human; illegitimate; irregular; linkage; long; low; markers; mechanisms; meiosis; molecular; molecules; new; nonhomologous; number; observed; pairs; parental; parents; particular; physical; plasmid; process; rearrangements; recombination; replication; role; second; segregation; sequence; site; specific; system; term; time; traits; type; variation; volume cache: cord-023727-ahbnchj9.txt plain text: cord-023727-ahbnchj9.txt item: #225 of 647 id: cord-023830-w218ogsk author: Perlin, David title: Rapid Detection of Bioterrorism Pathogens date: 2008-09-10 words: 6051 flesch: 35 summary: The problem is not limited to a bioterrorism outbreak as hospital and public health laboratories, confounded by inadequate and slow methodology for pathogen detection, often have difficulty identifying pathogens. This technique allows for continuous, automated operation over an extended time with an assay time is less than 30 min for pathogen detection. keywords: acid; acute; agents; amplification; analysis; anthrax; antibodies; antibody; antigen; approach; assays; automated; bacteria; beacons; biological; bioterrorism; blood; cause; clinical; coronavirus; critical; detection; development; diagnostic; different; disease; dna; early; environmental; extraction; false; fidelity; fluorescence; fungi; genes; genetic; genomic; health; high; human; hybridization; identification; infectious; interactions; laboratories; large; levels; like; mass; methods; microarray; molecular; multiplex; new; novel; nucleic; nucleotide; organisms; outbreak; pathogens; pcr; polymerase; positive; possible; presence; primers; probes; public; range; rapid; reaction; real; regions; respiratory; response; ribosomal; rna; samples; sars; sensitive; sensitivity; sequences; single; species; specific; specificity; specimens; suitable; system; taqman; target; techniques; technology; testing; throughput; time; toxin; unknown; viruses; wide cache: cord-023830-w218ogsk.txt plain text: cord-023830-w218ogsk.txt item: #226 of 647 id: cord-023844-3flfngu0 author: Mülhardt, Cornel title: Was bitte ist denn »Molekularbiologie«? date: 2013 words: 2805 flesch: 59 summary: so: Weil sich die Basen paaren, kann man zu einer einzelsträngigen DNA einen komplementären Strang synthetisieren, zu dem man ebenfalls wieder einen komplementären Strang synthetisieren kann, der mit dem ersten Strang identisch ist. Niemals länger als eine Woche mit dem Nachtragen warten, weil man bis dahin schon die Hälfte der Details vergessen hat. keywords: aber; allerdings; alles; als; andere; arbeiten; arbeitsplatz; auch; auf; aus; autoklaviert; außerdem; bedeutet; beim; beispielsweise; bereiche; bezeichnet; bin; bis; braucht; bzw; daher; damit; dann; darf; das; dass; davon; dem; den; denen; der; des; die; diese; dna; dort; drei; durch; eine; erst; fall; fenster; für; ganzen; gar; gebiet; genehmigung; gentechnik; geschlossen; glp; grenzenlose; großen; haben; handschuhe; hat; ihn; ihnen; institut; internet; ist; jeder; jeweils; kann; kein; klappt; kollegen; labor; laboratory; langen; lassen; leben; liste; lösungen; machen; man; man sich; mehr; mit; molekularbiologie; molli; muss; müssen; nach; nicht; noch; nucleinsäuren; nur; oder; ohne; organismen; pipettieren; recht; rna; schon; sein; selbst; sich; sicherheitsmaßnahmen; sicherheitsstufe; sie; sind; solange; solche; sollte; stehen; strang; synthetisieren; system; tag; teil; tragen; tun; umgang; und; unter; viel; vielleicht; von; vor; weil; weit; welchen; wenn; werden; wie; wieder; wird; zum; zumeist; zumindest; zweite; über; überlegen cache: cord-023844-3flfngu0.txt plain text: cord-023844-3flfngu0.txt item: #227 of 647 id: cord-023928-9a1w174h author: Thomas, Neal J. title: Genetic Predisposition to Critical Illness in the Pediatric Intensive Care Unit date: 2011-12-16 words: 12261 flesch: 40 summary: It is unlikely as there are no reports of associations between surfactant protein gene polymorphisms and outcomes from pulmonary disease. As will be discussed below, genetic variations that infl uence the activity or level of the protein in several of these candidate genes have been examined in gene association studies in patients with ALI. keywords: ace; acid; activity; acute; adults; ali; allele; amino; ammation; ammatory; anti; ards; association; association studies; care; cell; certain; change; children; chromosome; coding; common; complex; critical; development; differences; different; disease; dna; dysfunction; elevated; environmental; example; expression; factor; frequency; gene expression; genes; genetic; genetic association; genetic polymorphisms; genetic variations; genome; greater; haplotype; higher; human; identifi; illness; impact; important; individual; infections; infl; infl ammatory; infl uence; information; injury; interest; levels; lower; lung; meningococcal; mortality; mrna; multiple; mutations; nucleotide; number; observed; organ; outcome; patients; pneumonia; polymorphisms; position; process; promoter; protein; receptor; recognition; region; related; respiratory; response; results; risk; role; sepsis; septic; sequence; severe; severity; shock; signifi; single; site; specifi; specifi c; studies; study; surfactant; susceptibility; tnf; transcription; uence; variable; variants; variations cache: cord-023928-9a1w174h.txt plain text: cord-023928-9a1w174h.txt item: #228 of 647 id: cord-024058-afgvztwo author: None title: Engineering a Global Response to Infectious Diseases: This paper presents a more robust, adaptable, and scalable engineering infrastructure to improve the capability to respond to infectious diseases.Contributed Paper date: 2015-02-17 words: 5594 flesch: 35 summary: key: cord-024058-afgvztwo authors: nan title: Engineering a Global Response to Infectious Diseases: This paper presents a more robust, adaptable, and scalable engineering infrastructure to improve the capability to respond to infectious diseases. Infectious diseases are a major cause of death and economic impact worldwide. keywords: acid; agents; algorithms; analysis; animal; applications; approaches; associated; biology; care; cause; challenges; clinical; complex; data; deaths; design; detection; development; different; digital; disease; dna; ebola; effective; electronic; engineering; engineers; environmental; example; fig; food; framework; genome; global; health; host; human; impact; individual; infectious; infectious disease; influenza; information; infrastructure; innovative; interventions; issues; life; like; management; manufacturing; medical; methods; microbes; network; new; nucleic; opportunities; organisms; outbreak; pandemic; paper; pathogen; potential; powerful; privacy; public; public health; research; response; scale; scientific; seasonal; sequence; sequencing; significant; strains; support; surveillance; systems; technology; timely; traditional; vaccines; virus; viruses cache: cord-024058-afgvztwo.txt plain text: cord-024058-afgvztwo.txt item: #229 of 647 id: cord-024149-qnclsjym author: Gupta, Ankit title: Microbes and Environment date: 2016-10-15 words: 11676 flesch: 37 summary: One of the best nature's strategies for bioremediation is the catechol dioxygenase found in soil bacteria which is involved in transformation and degradation of aromatic molecules into aliphatic products. Hartig net is a soil network that connects several organisms and protects against pathogenic fungi and soil bacteria. keywords: ability; able; acids; activity; air; amino; ammonia; anaerobic; animals; applications; aquatic; archaea; area; aromatic; ascomycetes; association; atmosphere; available; bacteria; bacterium; basis; biological; bioremediation; capable; carbon; cell; chain; communities; community; complex; compounds; conditions; contaminants; critical; cycle; damage; degradation; degrading; denitrification; different; disease; diverse; dna; earth; ecosystem; energy; environment; enzymes; eukaryotes; example; exhibit; extracellular; factors; fig; fixation; food; form; formation; free; freshwater; fungal; fungi; genes; genome; gram; group; growth; habitats; heterotrophic; high; higher; host; humidity; hyphae; important; interactions; known; lakes; large; level; life; light; lignin; like; living; longer; low; lower; major; marine; materials; mechanisms; members; membrane; metal; methane; microbes; microbial; microenvironment; microorganisms; monooxygenases; mycelium; mycorrhizal; new; nitrite; nitrogen; nucleic; number; nutrients; organic; organisms; oxidation; oxygen; parasitic; particles; pathogenic; phenolic; phyla; plant; population; presence; present; primary; process; processes; producers; production; productivity; proteases; proteins; proteobacteria; protists; pseudomonas; radiation; range; relationship; relative; resistance; results; rhizobium; rhizosphere; role; root; salt; soil; soil bacteria; source; species; specific; structure; substances; substrates; sulfur; surface; symbiotic; temperature; terrestrial; toxic; types; viruses; water; web cache: cord-024149-qnclsjym.txt plain text: cord-024149-qnclsjym.txt item: #230 of 647 id: cord-025232-5itrsfmk author: Yan, Yuqian title: Construction and Characterization of a Novel Recombinant Attenuated and Replication-Deficient Candidate Human Adenovirus Type 3 Vaccine: “Adenovirus Vaccine Within an Adenovirus Vector” date: 2020-05-26 words: 5684 flesch: 36 summary: A community-derived outbreak of adenovirus type 3 in children in Taiwan between Molecular identification and epidemiological features of human adenoviruses associated with acute respiratory infections in hospitalized children in Southern China Comparative genomic analysis of re-emergent human adenovirus type 55 pathogens associated with adult severe communityacquired pneumonia reveals conserved genomes and capsid proteins Adenoviral infections in Singapore: should new antiviral therapies and vaccines be adopted? Analysis of 15 adenovirus hexon proteins reveals the location and structure of seven hypervariable regions containing serotype-specific residues Generation and characterization of a novel candidate gene therapy and vaccination vector based on human species D adenovirus type 56 Mortime P (eds) Principles and practice of clinical virology, 6th edn Hexon and fiber of adenovirus type 14 and 55 are major targets of neutralizing antibody but only fiber-specific antibody contributes to cross-neutralizing activity Molecular epidemiology of adenovirus type 3 detected from 1994 to 2006 in Hyogo Prefecture Immune response to recombinant capsid proteins of adenovirus in humans: antifiber and anti-penton base antibodies have a synergistic effect on neutralizing activity Gene therapy clinical trials worldwide to 2017: an update A recombinant adenovirusbased vector elicits a specific humoral immune response against the V3 loop of HIV-1 gp120 in mice through the 'Antigen Capsid-Incorporation' strategy Identification and typing of respiratory adenoviruses in Guangzhou, Southern China using a rapid and simple method A primary school outbreak of pharyngoconjunctival fever caused by adenovirus type 3 Novel replicationincompetent vector derived from adenovirus type 11 (Ad11) for vaccination and gene therapy: low seroprevalence and non-crossreactivity with Ad5 Household transmission of human adenovirus type 55 in case of fatal acute respiratory disease Emergent US adenovirus 3 strains associated with an epidemic and serious disease Comprehensive serotyping and epidemiology of human adenovirus isolated from the respiratory tract of Korean children over 17 consecutive years Epidemiology, clinical presentation and respiratory sequelae of adenovirus pneumonia in children in Kuala Lumpur Molecular epidemiology and clinical features of adenovirus infection in Taiwanese children Adenovirus infections in immunocompetent and immunocompromised patients Gene therapy progress and prospects cancer: oncolytic viruses Detection and molecular characterization of human adenovirus infections among hospitalized children with acute diarrhea in Safety and immunogenicity of novel adenovirus type 26-and modified vaccinia ankara-vectored Ebola vaccines: a randomized clinical trial Rapid construction of a replication-competent infectious clone of human adenovirus type 14 by gibson assembly Delivery of a foot-and-mouth disease virus empty capsid subunit antigen with nonstructural protein 2B improves protection of swine Adenoviruses and acute respiratory infections in children living in an equatorial area of Brazil Oral administration of an adenovirus vector encoding both an avian influenza A hemagglutinin and a TLR3 ligand induces antigen specific granzyme B and IFN-gamma T cell responses in humans Adenovirus assay by the fluorescent cell-counting procedure Structure-based identification of a major neutralizing site in an adenovirus hexon Dramatic decline of respiratory illness among US military recruits after the renewed use of adenovirus vaccines Gene therapy: the first approved gene-based medicines, molecular mechanisms and clinical indications Vaccine-preventable adenoviral respiratory illness in US military recruits Type-specific epitope locations revealed by X-ray crystallographic study of adenovirus type 5 hexon Structural and phylogenetic analysis of adenovirus hexons by use of high-resolution X-ray crystallographic, molecular modeling, and sequence-based methods An adenovirus-based vaccine with a double-stranded RNA adjuvant protects mice and ferrets against H5N1 avian influenza in oral delivery models a placebo-controlled trial of immunization of HIV-1-infected persons with a replication-deficient adenovirus type 5 vaccine expressing the HIV-1 core protein Using the whole-genome sequence to characterize and name human adenoviruses A two-dose heterologous prime-boost vaccine regimen eliciting sustained immune responses to Ebola Zaire could support a preventive strategy for future outbreaks Recombination of the epsilon determinant and corneal tropism: human adenovirus species D types 15 A human type 5 adenovirus-based tuberculosis vaccine induces robust T cell responses in humans despite preexisting anti-adenovirus immunity Generation of adenovirus vectors devoid of all viral genes by recombination between inverted repeats Development and assessment of human adenovirus type 11 as a gene transfer vector Mapping the epitope of neutralizing monoclonal antibodies against human adenovirus type 3 Increasing the efficacy of oncolytic adenovirus vectors Community outbreak of adenovirus Epidemical features of HAdV-3 and HAdV-7 in pediatric pneumonia in Adenovirus vectors for gene therapy, vaccination and cancer gene therapy Characterization of culture-positive adenovirus serotypes from respiratory specimens in Fatal community-acquired pneumonia in children caused by re-emergent human adenovirus 7d associated with higher severity of illness and fatality rate Comparative genomic analysis of two strains of human adenovirus type 3 isolated from children with acute respiratory infection in southern China Construction and characterization of a replication-competent human adenovirus type 3-based vector as a livevaccine candidate and a viral delivery vector Comparative genomic analysis of two emergent human adenovirus type 14 respiratory pathogen isolates in China reveals similar yet divergent genomes A survey of recent adenoviral respiratory pathogens in Hong Kong reveals emergent and recombinant human adenovirus type 4 (HAdV-E4) circulating in civilian populations Molecular typing of human respiratory adenoviruses with universal PCR and sequencing primers for three major capsid genes: penton base, hexon, and fiber Re-emergent human adenovirus genome type 7d caused an acute respiratory disease outbreak in Southern China after a twenty-one year absence Comparison of viral and epidemiological profiles of hospitalized children with severe acute respiratory infection in Beijing and Construction and Characterization of a Novel HAdV-3 Vaccine Author Contributions QZ designed the experiments. A PCRderived product comprising the complete hexon gene (epsilon epitope) of adenovirus type 3 was directly cloned into the multiple cloning site of pShuttle using the EcoR V and Xho I restriction sites. keywords: a549; acute; ad293; ad293 cells; adenovirus; amplification; analysis; antibodies; antibody; ard; candidate; capsid; cells; characterization; children; china; complete; construction; culture; day; defective; deficient; disease; dna; ecor; epitope; epsilon; et al; fig; fluorescence; gene; generations; genomic; gz01; hadv-3; hexon; hexon gene; homologous; human; infected; infection; intramuscular; intranasal; mice; min; molecular; mouse; neutralizing; novel; number; pcr; penton; plasmid; post; protein; pshuttle; rad3h; rad5; recombinant; recombination; replication; respiratory; restriction; sequencing; specific; stability; strain; therapy; time; type; usa; vaccine; vector; viral; wild; zhang cache: cord-025232-5itrsfmk.txt plain text: cord-025232-5itrsfmk.txt item: #231 of 647 id: cord-025251-evnfvc0l author: Nemunaitis, John title: Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) infection: let the virus be its own demise date: 2020-05-26 words: 7329 flesch: 30 summary: Halstead et al., also showed how GM-CSF overexpression after IV virus infection in a GM-CSF transgene mouse model prevents mortality Relationship of GM-CSF to immune response activation against cancer and viral infection is well described [71] keywords: activation; activity; acute; advanced; aec; aerosol; alveolar; animal; anti; ards; assessment; autologous; benefit; cancer; cd8; cell; clearance; cleavage; clinical; colony; convertases; coronavirus; cov-2; covid-19; critical; csf; data; delivery; development; disease; dna; domain; early; effective; effects; enhancement; entry; epithelial; ewing; expression; factor; function; furin; fusion; gene; glycoprotein; granulocyte; high; hiv; host; human; immune; immunotherapy; important; induced; infection; inflammatory; influenza; inhibition; inhibitors; innate; large; late; like; lung; macrophage; membrane; mice; model; multiple; pandemic; pathogens; patients; pdna; peptide; plasmid; pneumonia; potential; processing; product; propagation; proprotein; protease; protection; proteins; pulmonary; receptor; repair; resistance; respiratory; response; results; ribavirin; role; safety; sarcoma; sars; sequence; severe; shrna; similar; site; study; support; target; targeting; testing; therapeutic; therapy; transgenic; treatment; trial; tumor; type; use; vaccine; vigil; viral; virus; viruses; vivo cache: cord-025251-evnfvc0l.txt plain text: cord-025251-evnfvc0l.txt item: #232 of 647 id: cord-026025-xqj877en author: PETRAS, ROBERT E. title: Large Intestine (Colon) date: 2009-10-30 words: 48346 flesch: 37 summary: Large cell carcinoma and small cell carcinoma of the colon and rectum have a poor prognosis. A phase II trial with preliminary evidence of antiviral activity and low incidence of opportunistic infection Multicenter trial of lowdose paclitaxel in patients with advanced AIDS-related Kaposi sarcoma Docetaxel in anthracycline-pretreated AIDS-related Kaposi's sarcoma: A retrospective study Angiosarcoma of the colon and rectum: Report of a case and review of the literature Endoscopic management of rectal Dieulafoy-like lesions: A case series and review of literature Familial Polyposis Coli The Pathogenesis of Colorectal Cancer Cribriform-morular variant of papillary carcinoma: A distinctive variant representing the sporadic counterpart of familial adenomatous polyposis-associated thyroid carcinoma Gastric and duodenal polyps in familial adenomatous polyposis: A prospective study of the nature and prevalence of upper gastrointestinal polyps Fundic gland polyps in familial adenomatous polyposis: Neoplasms with frequent somatic adenomatous polyposis coli gene alterations The risk of upper gastrointestinal cancer in familial adenomatous polyposis Localization of the gene for familial adenomatous polyposis on chromosome 5 The gene for familial polyposis coli maps to the long arm of chromosome 5 Identification and characterization of the familial adenomatous polyposis coli gene Identification of FAP locus genes from chromosome 5q21 Mutations of chromosome 5q21 genes in FAP and colorectal cancer patients The multiple colorectal adenoma phenotype and MYH, a base excision repair gene Responsive colon cancer cell lines to the introduction of APC, a colon-specific tumor suppressor gene Familial adenomatous polyposis Correlation between the location of germ-line mutations in the APC gene and the number of colorectal polyps in familial adenomatous polyposis patients Attenuated familial adenomatous polyposis (AFAP). keywords: abdominal; abnormalities; absence; active; active colitis; activity; acute; additional; adenocarcinoma; adenomas; adenomatous; adherent; adjacent; advanced; affect; affected; agents; aids; analysis; anastomosis; aneuploidy; anti; antibiotics; antibodies; antigen; apc; apoptosis; apoptotic; appearance; approach; architectural; areas; arteriovenous; artery; associated; association; asymptomatic; autosomal; available; bacteria; base; behçet; benign; best; biopsy; biopsy specimens; bleeding; blood; bowel; bowel disease; bowel syndrome; cancer; carcinoma; cases; cause; cavernous; cecum; cell carcinoma; cells; changes; characteristic; characterized; chemotherapy; chronic; chronic colitis; classic; classification; clinical; clinicopathologic; clostridium; colectomy; colitis; colitis pattern; collagenous; collagenous colitis; colleagues; colon; colon cancer; colonic; colonoscopy; colorectal; colorectal adenomas; colorectal biopsy; colorectal cancer; colorectal carcinoma; colorectal polyps; common; complications; component; conditions; constipation; contrast; correlate; correlation; cowden; criteria; crohn; crypt; culture; cystic; cysts; cytoplasmic; damage; deep; definitive; degree; deposits; detection; development; diagnosis; diarrhea; differential; differentiated; difficile; difficult; diffuse; disease; disorders; distal; distinction; distinguished; distribution; diverticula; diverticular disease; dna; dominant; drugs; dysplasia; early; ectasia; effects; endoscopic; enterocolitis; entity; eosinophilic; epithelial; escherichia; evaluation; evidence; examination; examples; excised; excision; experience; expression; extensive; externa; factors; familial; family; fap; features; fibrosis; fibrous; fig; figures; finding; fistula; flow; focal; follow; following; form; formation; frequent; ganglion; ganglioneuromatosis; gastric; gastrointestinal; gene; general; genetic; germline; giant; glands; glandular; goblet; grade; grade dysplasia; grading; granulomas; gross; group; growth; guidelines; gut; gvhd; half; helpful; hemangiomas; hemorrhage; hereditary; high; hirschsprung; histologic; histologic features; history; hiv; host; human; hyperplastic; ibd; identical; identification; idiopathic; ileal; immunodeficiency; immunohistochemical; increase; indeterminate; individuals; induced; infarct; infection; infectious colitis; infiltration; inflammation; inflammatory; inflammatory bowel; inflammatory cells; injury; instability; interpretation; intestinal; intracellular; intraepithelial; intramucosal; invasion; invasive; invasive carcinoma; investigators; involved; involvement; irinotecan; irregular; ischemic; ischemic bowel; jeghers; jeghers syndrome; juvenile; juvenile polyps; kaposi; lack; lamina; large; large bowel; later; lead; lesions; like; likely; limited; literature; localized; long; loss; low; lower; luminal; lymphocytic; lymphocytic colitis; lymphoid; lymphoma; lynch; macrophages; major; malignant; management; margin; marked; markers; mass; medical; mesenteric; metastatic; microsatellite; microscopic; mild; mitotic; mmr; molecular; morphology; msi; mucinous; mucosal; mucosal biopsy; multiple; muscle; muscularis; mutations; necrosis; necrotizing; negative; neoplasia; neuroendocrine; neuronal; neutrophils; new; node; nodosa; nonspecific; normal; nuclear; nuclei; numbers; o157; obstruction; occur; organisms; original; outcome; pain; patchy; pathogenesis; pathologic; pathologists; patients; pattern; pcr; perforation; peutz; phase; phlebitis; plexus; polyarteritis; polypectomy; polypoid; polyposis; polyposis syndrome; polyps; poor; positive; possible; pouch; pouches; pouchitis; practice; presence; present; prevalence; primary; proctitis; profunda; prognosis; prolapse; proliferation; prominent; propria; prospective; protein; proximal; pten; radiation; rare; reaction; receptor; recognition; rectum; refractory; related; relative; repair; reported; reports; resection; resemble; residual; response; results; review; right; right colon; ring; risk; role; routine; sarcoma; screening; sections; segment; self; serrated; sessile; setting; severe; short; sided; sigmoid; significance; similar; site; situ; size; skin; small; small bowel; smooth; solitary; species; specific; specimens; spectrum; spindle; sporadic; squamous; stage; staining; status; stomach; stool; stromal; studies; study; submucosa; subsequent; surface; surgery; surgical; surveillance; symptoms; syndrome; systemic; table; techniques; term; testing; therapy; thickening; tissue; toxin; tract; trauma; treatment; true; tubules; tumor; type; typical; ulcerative colitis; ulcers; unknown; unusual; upper; useful; value; variant; vascular; venous; vessels; villous; wall; watery; years; yield; zone cache: cord-026025-xqj877en.txt plain text: cord-026025-xqj877en.txt item: #233 of 647 id: cord-026518-xv03vpji author: Xie, Peng title: Immune effect of a Newcastle disease virus DNA vaccine with IL-12 as a molecular adjuvant delivered by electroporation date: 2020-06-09 words: 5793 flesch: 48 summary: Tracing the origins of genotype VIIh Newcastle disease in southern Africa Intranasal interleukin-12 is a powerful adjuvant for protective mucosal immunity Immunologic responses to West Nile virus in vaccinated and clinically affected horses Electroporation enables plasmid vaccines to elicit CD8 + T cell responses in the absence of CD4 + T cells Updated unified phylogenetic classification system and revised nomenclature for Newcastle disease virus DNA vaccines: progress and challenges Construction of a novel DNA vaccine candidate targeting F gene of genotype VII Newcastle disease virus and chicken IL-18 delivered by Salmonella Electroporation of alphavirus RNA translational reporters into fibroblastic and myeloid cells as a tool to study the innate immune system Cytotoxicity and immunological responses following oral vaccination of nanoencapsulated avian influenza virus H5 DNA vaccine with green synthesis silver nanoparticles Improved immune responses against avian influenza virus following oral vaccination of chickens with HA DNA vaccine using attenuated Salmonella typhimurium as carrier Recent advances in delivery of veterinary DNA vaccines against avian pathogens A novel genotype VII Newcastle disease virus vaccine candidate generated by mutation in the L and F genes confers improved protection in chickens Host innate immune responses of ducks infected with Newcastle disease viruses of different pathogenicities Evaluation of a fusion gene-based DNA prime-protein boost vaccination strategy against Newcastle disease virus Clinical potential of electroporation for gene therapy and DNA vaccine delivery A review of DNA vaccines against influenza The future of human DNA vaccines DNA priming increases frequency of T-cell responses to a vesicular stomatitis virus HIV vaccine with specific enhancement of CD8(+) T-cell responses by interleukin-12 plasmid DNA Isolation, identification, and hexon gene characterization of fowl adenoviruses from a contaminated live Newcastle disease virus vaccine Molecular characterization of new emerging subgenotype VIIh Newcastle disease viruses in China Effects of the HN antigenic difference between the vaccine strain and the challenge strain of Newcastle disease virus on virus shedding and transmission Increased protection against pneumococcal disease by mucosal administration of conjugate vaccine plus interleukin-12 Interleukin-12 as an adjuvant for induction of protective antibody responses Effects of Newcastle disease virus vaccine antibodies on the shedding and transmission of challenge viruses Littel-van den Hurk S (2013) A review on electroporation-based intracellular delivery Immunoadjuvant activities of a recombinant chicken IL-12 in chickens vaccinated with Newcastle disease virus recombinant HN protein Newcastle disease virus-attenuated vaccine LaSota played a key role in the pathogenicity of contaminated exogenous virus Generation and evaluation of a genetically attenuated Newcastle disease virus rGM-VIIm as a genotype-matched vaccine Advancements in DNA vaccine vectors, non-mechanical delivery methods, and molecular adjuvants to increase immunogenicity Sulfated glucan can improve the immune efficacy of Newcastle disease vaccine in chicken Interleukin-12 gene adjuvant increases the immunogenicity of virus-like particles of human papillomavirus type 16 regional variant strain Direct gene transfer into mouse muscle in vivo Preparation and efficacy of Newcastle disease virus DNA vaccine encapsulated in chitosan nanoparticles IgA response and protection following nasal vaccination of chickens with Newcastle disease virus DNA vaccine nanoencapsulated with Ag@SiO2 hollow nanoparticles Immune effect of Newcastle disease virus DNA vaccine with c3d as a molecular adjuvant keywords: adjuvant; animal; antibodies; antibody; avian; cells; challenge; chickens; chil-12; china; collected; control; days; ddh; delivery; disease; dna; dna vaccine; dpc; efficacy; electroporation; ep group; experiments; f gene; fig; gene; genotype; group; higher; il-12; immune; immunization; important; induced; influenza; injection; level; lymphocyte; mean; molecular; ndv; newcastle; old; pcag; pcaggs; plasmid; primary; proliferation; protection; protein; response; samples; serum; shedding; spf; strain; study; swabs; test; use; vaccination; vaccine; vector; viral; virus; weeks cache: cord-026518-xv03vpji.txt plain text: cord-026518-xv03vpji.txt item: #234 of 647 id: cord-026729-hn0q0sbv author: Xu, Jun title: Functional investigation of the chromosomal ccdAB and hipAB operon in Escherichia coli Nissle 1917 date: 2020-06-13 words: 8875 flesch: 45 summary: Moreover, toxin HipA remarkably reduced the colony-forming activity of E. coli cells (Fig. 1g) . Previous studies showed that biofilm formation promotes the ability of Lactobacillus strains in resistance to temperature, gastric pH and mechanical forces (Salas-Jara et al. 2016) , and a bile-induced biofilm formation during stationary growth allows Bifidobacteria strains for strong colonization in the gastrointestinal tract (Ambalam et al. 2014) . keywords: 1917; addition; analysis; antibiotic; antitoxin; assay; atc; bacterial; biofilm; biofilm formation; ccdab; cdna; cells; chromosomal; cmec; coli; commensal; conserved; control; crispri; culture; data; different; distribution; dna; e. coli; ecn; ecolin_00240; ecolin_08370; efficient; encoding; escherichia; escherichia coli; et al; expression; f1c; fig; fimbriae; fold; formation; fragments; fresh; functional; future; gene; genetic; gentamycin; groups; growth; gyra; hfq; hipab; homologs; important; induced; inhibited; interference; knockdown; lane; medium; mic; min; multiple; mutant; nissle; norfloxacin; operon; pathogenic; pcr; persistence; persister; plasmid; previous; primer; probiotic; protein; putative; reca; regulation; rela; repressed; response; results; rna; role; rpos; sequence; sos; strains; stress; stringent; studies; study; supplementary; systems; table; tass; tool; toxin; transcription; treatment; type cache: cord-026729-hn0q0sbv.txt plain text: cord-026729-hn0q0sbv.txt item: #235 of 647 id: cord-027309-8siz9rb8 author: Paul, Debjani title: Developing a Point-of-Care Molecular Test to Detect SARS-CoV-2 date: 2020-06-19 words: 2269 flesch: 44 summary: Instead of using PCR to amplify DNA, which requires the use of a thermocycler, we used isothermal DNA amplification techniques that can be performed at a single temperature. We believe we can build on our past experience with isothermal DNA amplification techniques and paperfluidic devices to develop an isothermal amplification-based molecular diagnostic test for COVID-19 that can be deployed more easily. keywords: amplification; assay; care; cov-2; covid-19; crispr; detection; development; diagnostic; dna; flow; india; integrated; isothermal; lamp; lateral; min; molecular; need; paper; paperfluidic; pcr; point; preprint; rapid; rna; sars; substrate; technique; tests; use; viral; virus cache: cord-027309-8siz9rb8.txt plain text: cord-027309-8siz9rb8.txt item: #236 of 647 id: cord-027654-k0uby99n author: Nabel, Gary J. title: The development of gene-based vectors for immunization date: 2020-06-22 words: 6555 flesch: 27 summary: The AIDS Vaccine Clinical Trials Network Potential improvement for poxvirus-based immunizations vehicles Multienvelope HIV vaccine safety and immunogenicity in small animals and chimpanzees Containment of simian immunodefi ciency virus infection in vaccinated macaques: correlation with the magnitude of virus-specifi c pre-and postchallenge CD4+ and CD8+ T cell responses Largescale production and purifi cation of a vaccinia recombinant-derived HIV-1 gp160 and analysis of its immunogenicity Removal of cryptic poxvirus transcription termination signals from the human immunodefi ciency virus type 1 envelope gene enhances expression and immunogenicity of a recombinant vaccinia virus Recombinant virus vaccine-induced SIV-specifi c CD8+ cytotoxic T lymphocytes Immunization with a modifi ed vaccinia virus expressing simian immunodefi ciency virus (SIV) Gag-Pol primes for an anamnestic Gag-specifi c cytotoxic T-lymphocyte response and is associated with reduction of viremia after SIV challenge Reduction of simian-human immunodefi ciency virus 89.6P viremia in rhesus monkeys by recombinant modifi ed vaccinia virus Ankara vaccination Enhanced simian immunodefi ciency virusspecifi c immune responses in macaques induced by priming with recombinant Semliki Forest virus and boosting with modifi ed vaccinia virus Ankara Effect of vaccination with recombinant modifi ed vaccinia virus Ankara expressing structural and regulatory genes of SIV(macJ5) on the kinetics of SIV replication in cynomolgus monkeys Induction of simian immunodefi ciency virus (SIV)-specifi c CTL in rhesus macaques by vaccination with modifi ed vaccinia virus Ankara expressing SIV transgenes: infl uence of preexisting anti-vector immunity Comparison of vaccine strategies using recombinant env-gag-pol MVA with or without an oligomeric Env protein boost in the SHIV rhesus macaque model Immunogenicity and protective effi cacy of a human immunodefi ciency virus type 2 recombinant canarypox (ALVAC) vaccine candidate in cynomolgus monkeys Mature dendritic cells infected with canarypox virus elicit strong anti-human immunodefi ciency virus CD8+ and CD4+ T-cell responses from chronically infected individuals Potentiation of simian immunodefi ciency virus (SIV)-specifi c CD4(+) and CD8(+) T cell responses by a DNA-SIV and NYVAC-SIV prime/boost regimen Cross-protection against mucosal simian immunodefi ciency virus (SIVsm) challenge in human immunodefi ciency virus type 2-vaccinated cynomolgus monkeys Induction of cytotoxic T lymphocytes by recombinant canarypox (ALVAC) and attenuated vaccinia (NYVAC) viruses expressing the HIV-1 envelope glycoprotein Memory cytotoxic T lymphocyte responses in human immunodefi ciency virus type 1 (HIV-1)-negative volunteers immunized with a recombinant canarypox expressing gp 160 of HIV-1 and boosted with a recombinant gp160 Clade B-based HIV-1 vaccines elicit cross-clade cytotoxic T lymphocyte reactivities in uninfected volunteers Induction of neutralizing antibodies and gag-specifi c cellular immune responses to an R5 primary isolate of human immunodefi ciency virus type 1 in rhesus macaques ALVAC-SIVgag-pol-env-based vaccination and macaque major histocompatibility complex class I (A*01) delay simian immunodefi ciency virus SIVmacinduced immunodefi ciency AAV vectors: is clinical success on the horizon? Venezuelan equine encephalitis virus vectors expressing HIV-1 proteins: vector design strategies for improved vaccine effi cacy Vaccination of macaques against pathogenic simian immunodefi ciency virus with Venezuelan equine encephalitis virus replicon particles Sindbis virus vectors for expression in animal cells Evaluation of recombinant alphaviruses as vectors in gene therapy Replication-defective viruses as vaccines and vaccine vectors An effective AIDS vaccine based on live attenuated vesicular stomatitis virus recombinants West Nile virus/dengue type 4 virus chimeras that are reduced in neurovirulence and peripheral virulence without loss of immunogenicity or protective effi cacy Live attenuated recombinant vaccine protects nonhuman primates against Ebola and Marburg viruses Priming with plasmid DNAs expressing interleukin-12 and simian immunodefi ciency virus gag enhances the immunogenicity and effi cacy of an experimental AIDS vaccine based on recombinant vesicular stomatitis virus A single-cycle vaccine vector based on vesicular stomatitis virus can induce immune responses comparable to those generated by a replication-competent vector A live, attenuated recombinant West Nile virus vaccine A single intranasal inoculation with a paramyxovirusvectored vaccine protects guinea pigs against a lethal-dose Ebola virus challenge Vaccine cell substrates Cell line issues: historical and future perspectives Points to Consider in the Characterization of Cell Lines Used to Produce Biologicals. In contrast, the gene-based delivery of vaccine vectors can stimulate both humoral and cellular immunity, thus providing greater selective pressure on infectious agents in vaccines. keywords: ability; ad5; addition; adenovirus; aids; alternative; alvac; animal; ankara; anti; antibodies; antigens; approach; attenuated; bacterial; boost; cacy; canarypox; cd8; cell; cellular; challenge; ciency; clinical; combinations; defective; delivery; development; disease; dna; ebola; effi; expression; gag; gene; hiv; hiv-1; human; humoral; immune; immunity; immunization; immunodefi; immunogenicity; improved; infectious; infl; lines; major; malaria; mice; models; modifi; mucosal; neutralizing; nile; novel; nyvac; pathogens; phase; potential; poxvirus; primary; prime; protection; proteins; rad5; recombinant; replication; responses; rhesus; safety; serotypes; simian; siv; specifi; strain; studies; technology; trials; type; vaccination; vaccine; vaccinia; variety; vectors; viral; virus; viruses; vivo; west cache: cord-027654-k0uby99n.txt plain text: cord-027654-k0uby99n.txt item: #237 of 647 id: cord-027865-p1epjn51 author: Sterchi, Diane L. title: Molecular pathology date: 2020-06-22 words: 13239 flesch: 50 summary: Moreover, PCR allows great flexibility in the choice of probe sequences by the use of appropriate primers. FISH probes have been developed for the majority of recurrent chromosomal aberrations found in hematological malignancies (Table 21 .4). keywords: abnormal; acid; addition; advantage; alcohol; amplification; analysis; application; area; available; background; base; binding; biotin; bladder; blue; breast; buffer; cancer; cells; chain; choice; chromosome; clinical; color; common; complementary; concentration; conditions; control; cut; dapi; denaturation; depc; detection; determined; different; digestion; digoxigenin; direct; dna; dna probe; double; enzyme; et al; example; expression; fig; fish; fixation; fluorescent; formalin; gene; genetic; green; her2; high; homologous; hours; human; hybridization; hydrogen; ihc; important; increase; interest; interphase; ish; kit; kits; labeling; laboratories; laboratory; length; light; low; material; membrane; metaphase; methods; minutes; molecular; mrna; necessary; non; normal; nucleic; nucleotides; number; oligonucleotide; pairs; paraffin; pathology; pattern; pcr; penetration; polymerase; positive; post; pre; present; probe; procedure; protein; random; reaction; reagents; red; regions; results; rinse; rna; sample; sections; sensitive; sensitivity; sequences; signals; single; situ; situ hybridization; size; slides; small; solution; specific; specimens; spreads; staining; standard; step; strand; stringency; substrate; synthesis; system; target; techniques; temperature; template; test; testing; time; tissue; translocation; tumor; type; use; useful; viral; water; yellow cache: cord-027865-p1epjn51.txt plain text: cord-027865-p1epjn51.txt item: #238 of 647 id: cord-028729-vhpuvp4g author: Singh, Simranjeet title: Biological Biosensors for Monitoring and Diagnosis date: 2020-07-08 words: 4795 flesch: 20 summary: Microbiological sensing technologies: a review Label-free detection of Staphylococcus aureus captured on immutable ligand arrays Water pollution with special reference to pesticide contamination in India Bacterial bioluminescent biosensors: applications in food and environmental monitoring Detecting food borne pathogens using electrochemical biosensors: an overview Surface Plasmon resonance investigations of bioselective element based on the recombinant protein a for immunoglobulin detection Advances in immunosensors for clinical applications Assembling amperometric biosensors for clinical diagnostics Enzymatic sensing with organic electrochemical transistors Introduction to biosensors Evolution characteristics of surface water quality due to climate change and LUCC under scenario simulations: a case study in the Luanhe River Basin Recent development in optical fiber biosensors Electrochemical immunosensor for forest-spring encephalitis based on protein a labeled with colloidal gold Nanoparticles in the environment: where do we come from, where do we go to? Lytic phage-based magnetoelastic biosensors for on-site detection of methicillin-resistant Staphylococcus aureus on spinach leaves New tool for superoxide and nitric oxide radicals determination using suitable enzymatic sensors DNA sensors Electrochemical biosensors for rapid detection of foodborne salmonella: a critical overview Wearable potentiometric sensors for medical applications Optical biosensors Optical biosensors: a revolution towards quantum nanoscale electronics device fabrication Electrochemical DNA sensors for detection of DNA damage Regenerative electronic biosensors using supramolecular approaches Biotechnological tools for environmental sustainability: prospects and challenges for environments in Nigeria-a standard review Sensitive optical biosensors for unlabeled targets: a review Food safety in the 21st century Development and standardization of a piezo electric immunobiosensor for foot and mouth disease virus typing An amperometric immunosensor for the Newcastle disease antibody assay Application of amperometric biosensors for analysis of ethanol, glucose, and lactate in wine Voltammetric biosensors for the determination of paracetamol at carbon nanotube modified pyrolytic graphite electrode Electrochemical biosensors -sensor principles and architectures Impedimetric biosensors Electrochemical biosensors and nanobiosensors Aptamer-fluorescent silica nanoparticles bioconjugates based dual-color flow cytometry for specific detection of Staphylococcus aureus A biosensor platform for rapid detection of E. coli in drinking water Detection of severe acute respiratory syndrome (SARS) coronavirus nucleocapsid protein in human serum using a localized surface plasmon coupled fluorescence fiber-optic biosensor Voltammetric biosensors for the determination of formate and glucose-6-phosphate based on the measurement of dehydrogenase-generated NADH and NADPH Recent advances in electrochemical nonenzymatic glucose sensors -a review Conductometric microbiosensors for environmental monitoring Ecology of zoonoses: natural and unnatural histories Impedimetric biosensors for detecting vascular endothelial growth factor (VEGF) based on poly(3,4-ethylene dioxythiophene) (PEDOT)/ gold nanoparticle Chemical sensors and biosensors Transgenic plants as sensors of environmental pollution genotoxicity Sensors based on bio and biomimetic receptors in medical diagnostic, environment, and food analysis An approximate analytical method for the evaluation of the concentrations and current for hybrid enzyme biosensor Bioluminescent bioassays based on luminous bacteria marker system Rapid metho ds for the detection of foodborne bacterial pathogens: principles, applications, advantages and limitations Detection of newcastle disease virus using an evanescent wave immune-based biosensor Microbial biosensors Direct detection of Salmonella typhimurium on fresh produce using phage-based magnetoelastic biosensors Recent advances in optical biosensors for environmental monitoring and early warning Microfluidics integrated biosensors: a leading technology towards lab-on-A-chip and sensing applications Noble metal nanoparticles in biosensors: recent studies and applications Biosensors: principle, types and applications Biosensors and their applications -a review Food safety analysis using electrochemical biosensors Heavy metal contamination: an alarming threat to environment and human health -Foodborne disease s principles and practice of infectious diseases, 8th edn Biosensor-based technologies for the detection of pathogens and toxins Biosensors for sustainable food engineering: challenges and perspectives Immobilized enzymes in biosensor applications Critical review: grand challenges in assessing the adverse effects of contaminants of emerging concern on aquatic food webs Biosensing technologies for the detection of pathogens -a prospective way for rapid analysis A calorimetric biosensor and its application for detecting a cancer cell with optical imaging Bioindicators: the natural indicator of environmental pollution Optical biosensors for label-free detection of small molecules Recent advances in electrochemical immunosensors Potentiometric biosensors: concept and analytical applications-an editorial The piezoelectric biosensors: principles and applications, a review Overview of piezoelectric biosensors, immunosensors and DNA sensors and their applications Fiber-optic chemical sensors and fiber-optic biosensors Impedance biosensors: applications to sustainability and remaining technical challenges Lectin-based biosensors: as powerful tools in bioanalytical applications Electrochemical DNA sensors based on the use of gold nanoparticles: a review on recent developments Environmentally-related contaminants of high concern: potential sources and analytical modalities for detection, quantification, and treatment Food spoilage: microorganisms and their prevention Urbanization and infectious diseases: general principles, historical perspectives, and contemporary challenges Enzyme biosensors for biomedical applications: strategies for safeguarding analytical performances in biological fluids Biosensors as useful tools for environmental analysis and monitoring Human health risks due to exposure to inorganic and organic chemicals from textiles: a review A voltammetric biosensor based on poly(o-methoxyaniline)-gold nanocomposite modified electrode for the simultaneous determination of dopamine and folic acid Sensors for biosensors: a novel tandem monitoring in a droplet towards efficient screening of robust design and optimal operating conditions Label-free impedimetric biosensor for salmonella Typhimurium detection based on poly [pyrrole-co-3-carboxyl-pyrrole] copolymer supported aptamer Piezoelectric biosensors Review of physical principles of sensing and types of sensing materials Development and applications of portable biosensors Biosensors in the system of express control of chemicals, regularly used as terrorist means, to prevent non-desirable consequences Biosensors for water quality monitoring Biosensors for the control of some toxins, viral and microbial infections to prevent actions of bioterrorists. Fluorescence resonance energy transfer (FRET)-based biosensors are also a type of optical biosensor. keywords: advances; amperometric; analysis; analyte; analytical; antibodies; applications; aureus; biological; biosensors; cell; challenges; change; clinical; coli; component; compounds; concentration; contaminants; contamination; detection; development; device; diagnostics; different; disease; dna; effective; electrical; electrochemical; electrode; element; environmental; enzymatic; enzyme; et al; food; foodborne; glucose; immunosensor; impedimetric; interaction; light; measures; microbes; molecules; monitoring; nanoparticles; natural; optical; organic; pathogens; piezoelectric; plasmon; potential; presence; principles; probes; quality; range; rapid; reaction; recent; resonance; review; salmonella; sensitivity; signal; specific; spp; staphylococcus; substances; surface; system; toxic; toxicity; transducer; type; typhimurium; virus; voltammetric; water cache: cord-028729-vhpuvp4g.txt plain text: cord-028729-vhpuvp4g.txt item: #239 of 647 id: cord-029462-jm5qwxhz author: Ouidir, Marion title: Concentrations of persistent organic pollutants in maternal plasma and epigenome-wide placental DNA methylation date: 2020-07-13 words: 6387 flesch: 38 summary: Environmental chemicals in pregnant women in the United States: NHANES Prenatal exposure to endocrine disrupting chemicals and risk of being born small for gestational age: pooled analysis of seven European birth cohorts The transfer of polychlorinated biphenyls (PCBs) and polybrominated biphenyls (PBBs) across the human placenta and into maternal milk Transport of persistent organic pollutants across the human placenta Perfluoroalkyl and polyfluoroalkyl substances and human fetal growth: a systematic review Prenatal exposure to perfluoroalkyl substances and birth outcomes in a Spanish birth cohort Prenatal exposure to polychlorinated biphenyls and fetal growth in British girls Endocrine disruptors and neonatal anthropometry Association of maternal exposure to persistent organic pollutants in early pregnancy with fetal growth Early-life exposure to persistent organic pollutants (OCPs, PBDEs, PCBs, PFASs) and attention-deficit/hyperactivity disorder: a multi-pollutant analysis of a Norwegian birth cohort Serum PBDEs and age at menarche in adolescent girls: analysis of the National Health and Nutrition Examination Survey Prenatal exposure to persistent organic pollutants and anogenital distance in children at 18 months Morphologic and molecular changes in the placenta: what we can learn from environmental exposures Bisphenol A affects placental layers morphology and angiogenesis during early pregnancy phase in mice Effects of estradiol administration on feto-placental growth in rat Associations between in utero exposure to polybrominated diphenyl ethers, pathophysiological state of fetal growth and placental DNA methylation changes Prenatal exposure to persistent organic pollutants and methylation of LINE-1 and imprinted genes in placenta: a CHECK cohort study Maternal exposures to persistent organic pollutants are associated with DNA methylation of thyroid hormone-related genes in placenta differently by infant sex In utero exposures to environmental organic pollutants disrupt epigenetic marks linked to fetoplacental development Umbilical cord blood PBDEs concentrations are associated with placental DNA methylation Genetic variants influence on the placenta regulatory landscape Mechanisms and disease associations of haplotype-dependent allele-specific DNA methylation Systematic identification of genetic influences on methylation across the human life course Exposure to polybrominated biphenyl (PBB) associates with genome-wide DNA methylation differences in peripheral blood DNA methylation profiling implicates exposure to PCBs in the pathogenesis of B-cell chronic lymphocytic leukemia An epigenome-wide study of cord blood DNA methylations in relation to prenatal perfluoroalkyl substance exposure: the Hokkaido study Leveraging polygenic functional enrichment to improve GWAS power Meta-analysis of genome-wide association studies for body fat distribution in 694 649 individuals of European ancestry Whole-genome sequencing coupled to imputation discovers genetic signals for anthropometric traits Dissection of genetic variation and evidence for pleiotropy in male pattern baldness Altered DNA methylation of glycolytic and lipogenic genes in liver from obese and type 2 diabetic patients Occupational exposure to endocrine-disrupting chemicals and birth weight and length of gestation: a European meta-analysis Exposure to 2,2',4,4'-tetrabromodiphenyl ether at late gestation modulates placental signaling molecules in the mouse model Diagnostic utility of genome-wide DNA methylation testing in genetically unsolved individuals with suspected hereditary conditions Biallelic mutations in MYORG cause autosomal recessive primary familial brain calcification Evaluation of MYORG mutations as a novel cause of primary familial brain calcification DNA methylation loci in placenta associated with birthweight and expression of genes relevant for early development and adult diseases Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals Sex differences in the genetic architecture of obsessive-compulsive disorder Genome-wide association study of paliperidone efficacy Prenatal arsenic exposure and the epigenome: identifying sites of 5-methylcytosine alterations that predict functional changes in gene expression in newborn cord blood and subsequent birth outcomes Prenatal concentrations of perfluoroalkyl substances and bone health in British girls at age 17 Effects of developmental exposure to perfluorooctanoic acid (PFOA) on long bone morphology and bone cell differentiation Accounting for population stratification in DNA methylation studies An epigenome-wide association study of obesity-related traits Controlling bias and inflation in epigenome-and transcriptome-wide association studies using the empirical null distribution Cohort profile: NICHD fetal growth studies-singletons and twins Calculation of serum total lipid concentrations for the adjustment of persistent organohalogen toxicant measurements in human samples Chlorinated hydrocarbon levels in human serum: effects of fasting and feeding Plasma concentrations of lipids during pregnancy and the risk of gestational diabetes mellitus: a longitudinal study The limitations due to exposure detection limits for regression models Sex differences in the associations of placental epigenetic aging with fetal growth DNA methylation age of human tissues and cell types Salmon provides fast and bias-aware quantification of transcript expression limma powers differential expression analyses for RNA-sequencing and microarray studies methylKit: a comprehensive R package for the analysis of genomewide DNA methylation profiles Capturing heterogeneity in gene expression studies by surrogate variable analysis sva: surrogate variable analysis. Placental epigenetic mechanisms may be involved, but no prior epigenome-wide studies have investigated the impact of maternal POPs on placental DNA methylation. keywords: acid; adjusted; age; analysis; annotated; anthropometry; association; bacon; birth; blood; cg18145877; changes; chemicals; circumference; cohort; concentrations; correlations; cpg; cpg sites; data; dna; dna methylation; effect; epigenome; ewas; exposure; expression; fdr; fetal; figure; findings; gene; genome; genotype; growth; head; higher; highest; human; length; levels; maternal; measures; mechanisms; mediation; meqtl; methylation; neonatal; nichd; ocps; organic; p value; package; pathways; pbde; pcbs; pcs; persistent; pfass; pfunda; placental; plasma; pollutants; polybrominated; pops; pregnancy; pregnant; prenatal; sh3pxd2b; significant; sites; studies; study; sum; supplementary; table; total; tusc3; value; weight; wide; women cache: cord-029462-jm5qwxhz.txt plain text: cord-029462-jm5qwxhz.txt item: #240 of 647 id: cord-029957-q7v5gli8 author: Prabhu, D. title: In silico Functional Annotation and Characterization of Hypothetical Proteins from Serratia marcescens FGI94 date: 2020-07-31 words: 5802 flesch: 33 summary: Phylogenomics and comparative genomic studies delineate six main clades within the family Enterobacteriaceae and support the reclassification of several polyphyletic members of the family Basic local alignment search tool Complete genome of Serratia sp. strain FGI 94, a strain associated with leaf-cutter ant fungus gardens Cloning and characterization of spoVR, a gene from Bacillus subtilis involved in spore cortex formation Non-classical protein secretion in bacteria In silico functional annotation of a hypothetical protein from Staphylococcus aureus PSLpred: prediction of subcellular localization of bacterial proteins The molecular mechanism of bacterial lipoprotein modification-how, when and why Wzi is an outer membrane lectin that underpins group 1 capsule assembly in Escherichia coli Prot: web-based support vector machine software for functional classification of a protein from its primary sequence Antibiotic resistant threats report Tetratricopeptide repeat motifs in the world of bacterial pathogens: role in virulence mechanisms The multifunctional LigB adhesin binds homeostatic proteins with potential roles in cutaneous infection by pathogenic Leptospira interrogans The RecA protein as a recombinational repair system Functional annotation of hypothetical proteins from the Exiguobacterium antarcticum strain B7 reveals proteins involved in adaptation to extreme environments, including high arsenic resistance Gene expression profile of the plant pathogen Xylella fastidiosa during biofilm formation in vitro Functionally unrelated signaling proteins contain a fold similar to Mg 2+ dependent endoculeases Genetic and biochemical characterization of a gene operon for trans-aconitic acid, a novel nematicide from Bacillus thuringiensis Identification of ZapD as a cell division factor that promotes the assembly of FtsZ in Escherichia coli Unravelling potential virulence factor candidates in Xanthomonas citri subsp. Photodyn SignalP 4.0: discriminating signal peptides from transmembrane regions Iron, copper, zinc, and manganese transport and regulation in pathogenic Enterobacteria: correlations, between strains, site of infection and the relative importance of the different metals transport systems for virulence, Front ProtoNet 6.0: organizing 10 million protein sequences in a compact hierarchical family tree Tripartite ATP-independent periplasmic (TRAP) transporters and tripartite tricarboxylate transporters (TTT): from uptake to pathogenicity VICMpred: an SVM-based method for the prediction of functional proteins of gramnegative bacteria using amino acid patterns and composition Functional annotation of conserved hypothetical proteins from Haemophilus influenzae Rd KW20 Functional evolution of BRCT domains from binding DNA to protein Exploring the relationship between lipoprotein mislocalization and activation of the Rcs signal transduction system in Escherichia coli Functional annotation and classification of the hypothetical proteins of Neisseria meningitidis H44/76 Beta-barrel scaffold of fluorescent proteins: folding, stability and role in chromophore formation Applications for protein sequence-function evolution data: mRNA/protein expression analysis and coding SNP scoring tools Manganese homeostasis in group A Streptococcus is critical for resistance to oxidative stress and virulence Principles governing amino acid composition of integral membrane proteins: application to topology prediction DNAtension dependence of restriction enzyme activity reveals mechanochemical properties of the reaction pathway DNA binding: a novel function of Pseudomonas aeruginosa type IV pili The first report of drug resistant bacteria isolated from the brown-banded cockroach, Supella longipalpa The university conserved prokaryotic GTPases, Microbiol A novel metal transporter mediating manganese export (MntX) regulates the Mn toFe intracellular ration and Neisseria meningitidis virulence Toxin-antitoxin systems: their role in persistence, biofilm formation and pathogenicity Charting the landscape of tandem BRCT domain-mediated protein interactions Predicting subcellular localization of proteins for gram-negative bacteria by support vector machines based on n-peptide compositions PSORTb 3.0: Improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes Secretion of bacterial lipoproteins: through the cytoplasmic membrane, the periplasm and beyond Supplementary materials are available for this article at https://doi.org/10.1134/S1062359020300019 and are accessible for authorized users. keywords: acid; activity; aliphatic; amino; analysis; annotation; antibiotic; bacterial; binding; biofilm; biological; brct; cell; cellular; characterization; coli; conserved; crucial; cytoplasmic; data; development; division; dna; domain; drug; enzymes; escherichia; essential; et al; extinction; factor; families; family; formation; functional; gene; genome; growth; higher; hps; hypothetical; identification; important; index; infections; instability; level; like; localization; major; manganese; marcescens; mechanism; membrane; metabolism; molecular; motifs; novel; organisms; outer; pathogenesis; pathogenicity; pathogens; pathways; potential; prediction; presence; present; process; proteins; range; regulation; regulatory; report; residues; resistance; results; role; sequences; serratia; signal; species; strain; structural; study; supplementary; survival; system; table; targets; tools; transport; transporters; understanding; vaccine; values; variety; virulence; wide cache: cord-029957-q7v5gli8.txt plain text: cord-029957-q7v5gli8.txt item: #241 of 647 id: cord-030028-s6sxi8uj author: Rubio, Luis title: Detection of Plant Viruses and Disease Management: Relevance of Genetic Diversity and Evolution date: 2020-07-17 words: 14694 flesch: 22 summary: IF acknowledges financial support from the Spanish Ministerio de Economia y Competitividad, through the Severo Ochoa Programme for Centers of Excellence in R&D 2016-2019 (SEV-2015-0533). Detection and quantitation of two cucurbit criniviruses in mixed infection by real-time RT-PCR Mutations associated with resistancebreaking isolates of Beet necrotic yellow vein virus and their allelic discrimination using TaqMan technology Advances in plant virus evolution: translating evolutionary insights into better disease management Codon usage bias amongst plant viruses Virus adaptation by manipulation of host's gene expression Ecogenomic survey of plant viruses infecting tobacco by next generation sequencing Simultaneous detection and identification of Pepino mosaic virus (PepMV) isolates by multiplex one-step RT-PCR Genetic bottlenecks during systemic movement of Cucumber mosaic virus vary in different host plants Analysis of genetic bottlenecks during horizontal transmission of Cucumber mosaic virus Multiplex RT-PCR detection of three common viruses infecting orchids Rapid generation of genetic heterogeneity in progenies from individual cDNA clones of peach latent mosaic viroid in its natural host Emerging infectious diseases of plants: pathogen pollution, climate change and agrotechnology drivers Control methods of virus diseases in the Mediterranean basin Simultaneous detection of six RNA plant viruses affecting tomato crops using a single digoxigenin-labelled polyprobe Development of a molecular assay for the detection of Cucumber mosaic virus and the discrimination of its subgroups I and II Detection of five seedborne legume viruses in one sensitive multiplex polymerase chain reaction test Single-step multiplex RT-PCR for simultaneous and colourimetric detection of six RNA viruses in olive trees Real-time RT-PCR high-resolution melting curve analysis and multiplex RT-PCR to detect and differentiate grapevine leafroll-associated virus 3 variant groups I, II, III and VI Estimation of the effective number of founders that initiate an infection after aphid transmission of a multipartite plant virus Localizing viruses in their insect vectors Third generation sequencing: technology and its potential impact on evolutionary biodiversity research Microarrays for rapid identification of plant viruses Methods in virus diagnostics: from ELISA to next generation sequencing Real time portable genome sequencing for global food security Epidemiology and control of tomato mosaic virus Nanopore sequencing as a surveillance tool for plant pathogens in plant and insect tissues Multiple virus resistance at a high frequency using a single transgene construct DNA microarray: parallel detection of potato viruses Design, synthesis, and functional analysis of highly specific artificial small RNAs with antiviral activity in plants Fast-forward generation of effective artificial small RNAs for enhanced antiviral defense in plants Multi-targeting of viral RNAs with synthetic trans-acting small interfering RNAs enhances plant antiviral resistance A real-time RT-PCR assay for quantifying the fitness of Tobacco etch virus in competition experiments Diagnosis of plant diseases using the Nanopore sequencing platform Development of broad virus resistance in non-transgenic cucumber using CRISPR/Cas9 technology Selection pressures in the capsid genes of plant RNA viruses reflect mode of transmission A phylogenetic survey of recombination frequency in plant RNA viruses Antibody array in a multiwell plate format for the sensitive and multiplexed detection of important plant pathogens Multiple virus resistance using artificial trans-acting siRNAs Next-generation diagnostics with CRISPR Characteristics of the microplate method of enzyme-linked immunosorbent assay for the detection of plant viruses The promiscuous evolutionary history of the family Bromoviridae NGS of virus-derived small RNAs as a diagnostic method used to determine viromes of Hungarian vineyards Lethal mutagenesis of an RNA plant virus via lethal defection Contribution of uneven distribution of genomic RNA variants of citrus tristeza virus (CTV) within the plant to changes in the viral population following aphid transmission A multiplex reverse transcription PCR assay for simultaneous detection of five tobacco viruses in tobacco plants Induction of silencing in plants by high-pressure spraying of in vitro-synthesized small RNAs Recombination profiles between Tomato yellow leaf curl virus and Tomato yellow leaf curl Sardinia virus in laboratory and field conditions: evolutionary and taxonomic implications Emergence and Phylodynamics of Citrus tristeza virus in Sicily, Italy Molecular detection of papaya meleira virus in the latex of carica papaya by RT-PCR Characterization of RNA-mediated resistance to tomato spotted wilt virus in transgenic tobacco plants Dominant resistance against plant viruses Detection, discrimination and absolute quantitation of Tomato spotted wilt virus isolates using real time RT-PCR with TaqMan ® MGB probes Transmission of Tomato spotted wilt virus isolates able and unable to overcome tomato or pepper resistance by its vector Frankliniella occidentalis Increase in Zucchini yellow mosaic virus symptom severity in tolerant zucchini cultivars is related to a point mutation in P3 protein and is associated with a loss of relative fitness on susceptible plants Differentiation of Cucumber mosaic virus isolates by hybridization to Rubio et al. genome move systemically and protect cucurbits against ZYMV Entomopathogenic viruses and bacteria for insect-pest control, in Integrated Pest Management: Current concepts and ecological perspective Nonparametric estimation from incomplete observations Plant virology and next generation sequencing: experiences with a potyvirus Screening for plant viruses by next generation sequencing using a modified double strand RNA extraction protocol with an internal amplification control Polycistronic artificial miRNA-mediated resistance to Wheat dwarf virus in barley is highly efficient at low temperature Current trends in diagnostics of viral infections of unknown etiology Lateral flow assays Population structure and genetic diversity within California Citrus tristeza virus (CTV) isolates The phylogeny of RNA-dependent RNA polymerases of positive-strand RNA viruses Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: a generic method for diagnosis, discovery and sequencing of viruses MEGA X: molecular evolutionary genetics analysis across computing platforms Multiple artificial microRNAs targeting conserved motifs of the replicase gene confer robust transgenic resistance to negative-sense singlestranded RNA plant virus Tempo and mode of plant RNA virus escape from RNA interferencemediated resistance Improving the effectiveness of artificial microRNA (amiR)-mediated resistance against Turnip mosaic virus by combining two amiRs or by targeting highly conserved viral genomic regions Viruses of cucurbit crops in the Mediterranean region: an ever-changing picture Phylogenetic and recombination analysis of tomato spotted wilt virus Simultaneous detection of three lilyinfecting viruses using a multiplex Luminex bead array Genetic diversity and biological variation among California isolates of Cucumber mosaic virus Molecular evolution of a viral non-coding sequence under the selective Virus Variability: Diagnosis and Control pressure of amiRNA-mediated silencing Development of a one-step immunocapture real-time TaqMan RT-PCR assay for the broad spectrum detection of Pepino mosaic virus Effectiveness of chemo-and thermotherapeutic treatments on Pepino mosaic virus in tomato seed MicroRNA-mediated gene silencing in plant defense and viral counter-defense Development of real-time and conventional RT-PCR assays for the detection of potato yellow vein virus (PYVV) keywords: accumulation; accuracy; accurate; acid; amino; amplification; analysis; antibodies; approach; artificial; assay; binding; biological; boonham; boonham et; breakdown; breeding; broad; cases; chain; change; characterization; citrus; conditions; conserved; control; crop; cross; ctv; cucumber; design; detection; development; diagnosis; different; differentiation; disease; diversity; dna; electrophoresis; elisa; emergence; et al; evolution; evolutionary; expression; factors; false; family; field; figure; flow; fluorescent; free; generation; genetic; genome; genomic; genus; high; higher; host; hts; hybridization; identification; identity; important; increase; individual; infected; infecting; infection; information; insect; interactions; introduction; isolates; isothermal; known; lamp; leaf; length; level; like; low; main; management; material; measures; mechanism; methods; microarray; mixed; molecular; mosaic; mosaic virus; movement; multiplex; mutation; nanopore; natural; necessary; negative; new; nucleic; nucleotide; number; oligonucleotide; pcr; pepino; phylogenetic; plant; plant viruses; plum; polymerase; populations; positive; possible; potato; pox; primers; probes; procedures; process; products; protection; protein; qpcr; quantification; quarantine; rapid; reaction; real; recombination; regions; related; relative; replication; resistance; reverse; rna; rna viruses; rnas; rubio; rubio et; ruiz; samples; seed; selection; sensitive; sensitivity; sequence; sequencing; short; silencing; simultaneous; single; sites; small; species; specific; specificity; step; strains; strand; strategies; structure; synthetic; taqman; target; techniques; throughput; time; tobacco; tomato; transcription; transgenic; transmission; tristeza; universal; variability; variants; variation; vectors; vein; viral; viroids; virus; virus species; viruses; wilt; yellow cache: cord-030028-s6sxi8uj.txt plain text: cord-030028-s6sxi8uj.txt item: #242 of 647 id: cord-030295-jlhht2l9 author: Cruz-Flores, Roberto title: Genome reconstruction of white spot syndrome virus (WSSV) from archival Davidson’s-fixed paraffin embedded shrimp (Penaeus vannamei) tissue date: 2020-08-10 words: 4018 flesch: 41 summary: These findings demonstrate that DFPE shrimp tissue represents an invaluable resource for prospective and retrospective studies, evolutionary studies and opens avenues for pathogen discovery. Sequence analysis of the WSSV genome from DFPE shrimp tissue and annotation. keywords: analysis; animals; aquaculture; archived; cancer; characterization; china; complete; data; deletions; detection; dfpe; dfpe tissue; discovery; disease; dna; evolution; ffpe; fig; formalin; geneious; generation; genetic; genome; genomic; ihhnv; illumina; infection; large; nested; ngs; novel; nucleotide; paraffin; pathogen; pcr; possible; prime; reads; reconstructed; reference; regions; results; retrospective; rna; samples; sequence; sequencing; shrimp; single; snps; spot; strain; studies; study; syndrome; time; tissue; variations; viral; virus; viruses; white; wssv; wssv genome; years cache: cord-030295-jlhht2l9.txt plain text: cord-030295-jlhht2l9.txt item: #243 of 647 id: cord-030369-4dn02a35 author: Peng, Liang title: Clinical Manifestations and Laboratory Tests of AECHB and Severe Hepatitis (Liver Failure) date: 2019-05-21 words: 35873 flesch: 36 summary: Of the possible complications occurring in liver failure patients, bleeding is the most common and severe. Concomitant infection in liver failure patients has the following characteristics: (1) a high incidence; (2) infection may occur at different sites either simultaneously or sequentially, and abdominal and biliary tract infection is the most common. keywords: abdominal; abnormal; acid; aclf; activation; active; activity; acute exacerbation; acute hepatitis; acute liver; acute severe; addition; adefovir; aechb; affected; alf; alf patients; alt; amino; ammonia; analysis; antigen; antiviral; apoptosis; area; arterial; artificial liver; ascites; associated; b virus; bacterial; ballooning; basis; bile; bilirubin; binding; biological; bleeding; blood; brain; bridging; carriers; cases; cause; cellular; central; cerebral; changes; characteristics; chb; chb patients; china; chinese; cholestasis; chronic hbv; chronic hepatitis; chronic liver; chronic severe; cirrhosis; cirrhosis patients; classification; clearance; clinical; coagulation; common; complications; concentration; concomitant; condition; confluent; control; core; course; cytokines; days; death; decompensated; decompensation; degeneration; degree; detection; deterioration; development; diagnosis; different; difficult; diffuse; disease patients; diseases; dna; drug; dysfunction; early; edema; effect; effective; efficacy; encephalopathy; end; endotoxemia; entecavir; evaluation; evidence; exacerbation; examination; example; expression; extensive; factors; failure patients; features; fibrosis; following; forms; fulminant; fulminant hepatitis; fulminant liver; gastrointestinal; gcs; gene; genetic; genome; genotype; grade; guidelines; hbeag; hbv; hbv infection; hbv replication; hemorrhage; hepatic; hepatic cirrhosis; hepatic encephalopathy; hepatic failure; hepatitis; hepatitis patients; hepatocellular; hepatocytes; hepatorenal; high; higher; history; hormone; host; hps; hrs; human; hypertension; ifn; il-10; immune; immunity; important; incidence; increased; increasing; independent; infected; infection; infiltration; inflammation; inflammatory; influence; inhibit; inr; intracranial; intrahepatic; jaundice; key; laboratory; lactic; lamivudine; large; levels; life; like; liver biopsy; liver cells; liver cirrhosis; liver damage; liver disease; liver failure; liver function; liver injury; liver necrosis; liver tissue; liver transplantation; lobules; long; low; lps; lymphocytes; main; major; manifestations; massive; mechanism; meld; metabolic; methods; model; molecule; months; mortality; mouse; multiple; mutants; mutation; necessary; necrosis; negative; neutrophils; new; non; normal; number; obvious; occurrence; onset; organ; pathogenesis; pathological; pathway; patients; pct; peripheral; persistent; plasma; platelets; point; poor; portal; positive; practice; predictive; presence; present; pressure; prevention; primary; process; production; prognosis; progression; promoter; protein; prothrombin; pta; pulmonary; quasispecies; rapid; rare; rate; reaction; recent; receptor; recovery; reduced; region; regulate; regulation; related; renal; replication; reported; resistance; response; result; risk; role; salf; scholars; scoring; secondary; selection; sequence; sequencing; serum; severe hepatitis; severe liver; severe type; severity; short; signal; significant; similar; single; site; slf; small; specific; spontaneous; stage; stage liver; status; studies; study; subacute; surface; survival; symptoms; syndrome; synthesis; system; tendency; tenofovir; term; tests; th17; therapeutic; therapy; time; tlr4; tnf; total; transcription; treatment; tremor; type; type hepatitis; type patients; value; viral; viral hepatitis; virus; virus infection; weeks; years cache: cord-030369-4dn02a35.txt plain text: cord-030369-4dn02a35.txt item: #244 of 647 id: cord-031565-mos619wp author: Troedsson, Christofer title: Quantification of copepod gut content by differential length amplification quantitative PCR (dla-qPCR) date: 2009-02-01 words: 4221 flesch: 39 summary: In order to evaluate whether the dla-qPCR could be used to correct for prey DNA digestion, additional experiments were conducted with C. finmarchicus fed R. marina for different time periods. A possible explanation for the underestimation of ingested prey cells by qPCR is the digestion of prey genomic DNA in copepod gut. keywords: 18s; algal; amplicon; amplification; analysis; assay; calanus; cell; content; copepod; deagle; detection; different; differential; digested; digestion; dla; dna; dnase; estimates; et al; experiments; feeding; fig; finmarchicus; fragments; gene; genomic; gut; harwood; inc; kit; length; marina; min; nejstgaard; number; pigment; prey; primers; profiles; qiagen; qpcr; quantification; quantitative; rates; real; samples; significant; size; species; specific; standard; studies; study; target; time cache: cord-031565-mos619wp.txt plain text: cord-031565-mos619wp.txt item: #245 of 647 id: cord-031907-ilhr3iu5 author: None title: ISEV2020 Abstract Book date: 2020-07-15 words: 201435 flesch: 40 summary: Normal pancreas cells (hTERT-HPNE and HPDE-H6c7) were co-cultured with cancer cell EVs for 24-48 hours. Before EV isolation cells were kept for 24 h either under normoxia or hypoxia (1% oxygen). keywords: a549 cells; ability; able; absence; absent; abundance; abundant; acceptor cells; access; accumulation; accuracy; accurate; acids; acs evs; activated; activation; active; activities; activity; acute; ad evs; addition; adenocarcinoma; adhesion; adipocyte; adipose; administration; adult; advanced; advantage; af4; affected; affinity; afsc; aged; ageing; agents; aggregates; aggregation; aggressive; ago2; aid; aim; aims; airway; akt; albumin; alix; allogeneic evs; alpha; alterations; altered; alternative; alveolar; alzheimer; aml; amniotic; amounts; amplification; amyloid; analyse; analysis; analysis methods; analytical; androgen; angiogenesis; angiogenic; animals; annexin; anti; antibacterial; antibodies; antibody; antigen; antimicrobial; anxa2; apobds; apoptosis; apoptotic; applicable; applications; approach; appropriate; aptamer; area; array; aspects; assay; assayed; assembly; assessment; associated; association; asthma; astrocytes; atomic; attenuated; auc; autoimmune; automated; autophagy; available; average; b cells; background; bacterial evs; bakeri evs; balf; barrier; baseline; batf2; bbb; bca; bdevs; beads; bearing; behaviour; beneficial; benefit; benign; best; beta; better; bilayer; binding; bioactive; biochemical; biofluids; biological; biology; biomarkers; biomedical; biomolecules; biophysical; biopsies; biopsy; bioreactor; blocking; blood; blood cells; blood evs; blood plasma; blood samples; blot; blot analysis; blotting; bmmsc; bone; bovine; brain; brain cells; brain evs; breast; breast cancer; cadherin; calnexin; calu6 evs; canada; cancer biomarkers; cancer cells; cancer diagnosis; cancer evs; cancer exosomes; cancer institute; cancer introduction; cancer patients; cancer progression; cancer stem; cancers; candidate; canonical; capability; capable; capacity; capture; capturing; carcinoma; carcinoma cells; cardiac; cardiovascular; cargoes; carriers; cartilage; cas9; cases; cause; ccm; cd105; cd31; cd34exo; cd45; cd47; cd61; cd63; cd81; cd82; cd9; cdc; cdvs; cell activation; cell adhesion; cell communication; cell culture; cell cycle; cell death; cell disease; cell evs; cell exosomes; cell extracellular; cell free; cell function; cell growth; cell imaging; cell interactions; cell lines; cell lung; cell lysates; cell media; cell membrane; cell migration; cell motility; cell populations; cell proliferation; cell rna; cell surface; cell therapy; cell types; cell viability; cells; cells introduction; cellular ev; center; central; centre; centrifuged; cerebrospinal; cfdna; chagas; challenge; challenging; chamber; changes; channel; characteristics; characterization; characterized; charge; chemical; chemotherapy; chf; children; china; chip; cholesterol; chondrocytes; chromatography; chronic; ciliary evs; circulating; circulatory evs; cirrhosis; clarified; classification; clearance; clec9a evs; clic4; clinical; closure; clot; cns; coated; coding; cognitive; cohort; collagen; collected; colorectal; colorectal cancer; column; combination; combined; commercial; committee; common; community; comparable; comparative; comparison; compartments; complementary; complete; complex; complexes; components; composition; compounds; comprehensive; concentrated; concentration; concept; conclusion; conditioning; conditions; confirmed; confocal; consequence; conserved; consistent; consists; contact; contaminants; contamination; content; continuous; contrast; contribute; control; control cells; control evs; conventional; cord; correlated; correlation; corresponding; cortex; cortical; cost; counts; cpc; cpe; crc; crc cells; crispr; critical; cross; crosstalk; crucial; crude evs; cruzi; cryo; csf; ctl evs; cultured; current; current methods; curve; custom; cvd; cx43; cxcr4; cytokines; cytometer; cytometry; cytometry analysis; cytosolic; cytotoxicity; damage; data; data analysis; daughter evs; david; days; dbh; dcs; death; debris; decline; decreased; defects; deficient; degradation; delivery; dendritic cells; density; department; dependent; depleted; deposition; dermal; design; detectable; detection; determined; development; device; dftd; dguc; diabetes; diabetic; diagnose; diagnosis; diameter; diet; differences; different; different cell; different ev; different isolation; different methods; differential; differential expression; differentiation; difficult; digital; dilution; direct; discovery; disease; disease introduction; disorders; display; disruption; distance; distant; distinct; distribution; diverse; dls; dmem; dna; domain; donor cells; donors; dose; double; downregulation; downstream; droplet; drug; dsg2; dye; dyes; dynamic; dysfunction; dysregulation; early; ecm; ecvs; edta; education; eev; eevs; effect; effective; efficacy; efficiency; efforts; egfp; egfr; egfrviii; electrochemical; electron; electron microscopy; elevated; elisa; emt; endogenous; endosomal; endosomes; endothelial cells; engineered; engineering; enhanced; enriched; enrichment; enzyme; epcam; epithelial; epithelial cell; equivalent; erythrocytes; essential; established; establishment; eukaryotic cells; european; ev analysis; ev associated; ev biogenesis; ev biomarkers; ev capture; ev cargo; ev collection; ev composition; ev concentrations; ev content; ev core; ev detection; ev dna; ev effect; ev evs; ev flow; ev formation; ev fraction; ev functionality; ev funding; ev isolation; ev levels; ev loading; ev markers; ev mice; ev mirnas; ev numbers; ev particles; ev population; ev preparations; ev production; ev productivity; ev protein; ev proteomics; ev quantification; ev reference; ev release; ev research; ev rna; ev samples; ev secretion; ev size; ev subpopulations; ev subtypes; ev summary; ev surface; ev tracking; ev treatment; ev uptake; ev yield; evaluation; events; evidence; evs; evs characteristics; evs chemical; evs delivery; evs harbouring; evs mediate; evs membrane; evs pellet; evs phenotype; evs present; evs proteome; exchange; exclusion; exercise; exhibit; exodisc; exoquick; exosomal; exosome isolation; exosome markers; exosomes; exoview; expansion; expected; experiments; exposure; expressed; expression; expression analysis; expression levels; exrna; extent; extracellular matrix; extracellular rna; extracellular vesicles; extraction; facs; factors; failure; family; fat; fbs; fcm; features; female; fibroblasts; fibrosis; field; filopodia; filter; filtration; final; findings; flow; flow cytometry; fluid; fluorescent; fluorescent evs; fn1; focused; foetal; foetuses; fold; following; formation; forms; foundation; fractionation; fractions; fragments; free; free plasma; fresh; function; funding; fungal; fusion; future; gain; gbm cells; gdm; gene; general; genetic; genome; genomic; germany; gfap; gfp; gfp+ evs; glial cells; glioma cells; global; glucose; goal; gold; good; gradient; grant; great; greater; group; growth; grp78; guidelines; gw4869; h cells; haematopoietic; hcc; head; healing; healthy; heart; hek293; hek293 cells; hela cells; hepatocytes; her2; heterogeneity; heterogeneous; hevs; high; high expression; higher; higher ev; highest; hippocampal; hipsc; hiv; hiv-1; hla; hnscc; homoeostasis; hospital; host cells; hotair; hours; hpv; hrs; hscs; hsp70; hspgs; ht29; human; human brain; human cancer; human cells; human disease; human evs; human plasma; huvec; hypertension; hypothesis; hypothesized; hypoxia; ibd; identification; identity; ifn; iii; il-6; il-8; illumina; imaged; imaging; immune cells; immunity; immunoblotting; immunocapture; immunofluorescence; immunohistochemistry; immunomagnetic; immunomodulatory; immunoprecipitation; impact; impaired; impairment; important; improved; increased; increasing; incubation; index; individual evs; individuals; induced; induction; infected cells; infection; inflammation; inflammatory; influence; informed; inhibited; inhibition; inhibitors; initial; injected; injured; injury; innate; innovation; input; insights; institute; instrument; intact evs; integrated; integration; integrin; integrity; intensity; interactions; intercellular; interest; interferometric; internalization; internalized; intestinal; intra; intranasal; intravenous; introduction; invasion; invasive; investigated; investigation; involvement; iodixanol; ipscs; iris; irradiated; ischaemic; isev; islets; isolated evs; isolated exosomes; isolated vesicles; isolates; isolation methods; israel; isuf; italy; izon; japan; junctions; kda; key; kidney; kit; knockdown; knowledge; known; l1cam; l1cam evs; labelling; laboratory; lack; lacking; large evs; larger; later; lead; learning; length; lesions; leukaemia; levels; levs; library; ligands; light; like; likely; limitations; limited; line evs; lineage; linear; lipid; lipoprotein; liposomes; liquid; little; loaded; loading; localization; long; loss; lower; lps; luciferase; lung; lung cancer; lymph; lymphocytes; lysosomal; machine; macrophages; magnetic; main; major; majority; making; male; malignant; manner; manufacturing; marneffei evs; marrow; mass; mast; materials; matrix; maturation; mature; mb-231; mb-231 cells; mb-231 evs; mcmv; mda; mdd; mean; measured; measurements; mechanical; mechanisms; media; mediate; mediators; medical; medicine; medium; melanocytic evs; melanoma; melanoma cells; members; membrane; membrane proteins; membrane vesicles; memory; menthol; mesenchymal; mesf; metabolic; metastasis; metastatic cells; methodologies; methodology; methods; mex; mhc; mice; microalgal evs; microarray; microenvironment; microfluidic; microglia; micrornas; microscopy; microvesicles; migration; mild; milk evs; mimic; minimal; minutes; mir-142; mir-20a; mir-21; mirna; mirs; mitochondrial; mitovesicle; ml cells; mock; model; modification; modified; modulate; modulation; molecular; molecules; monitoring; monocytes; months; morphine; morphological; morphology; mortality; mortem; motifs; motility; motor; mouse; mps; mri; mrps; msa; msc evs; mscs; mtbi; multiple; multiplexed; muris evs; muscle; muscle cells; muscle evs; mutant; mutant cells; mutations; mvb; mvs; myc; myeloid; myotubes; n =; nanoparticle; nanoscale; nanosight; nanovesicles; national; national cancer; natural evs; naïve; necessary; need; negative; nervous; network; neural; neuroblastoma; neurodegenerative; neurogenesis; neuroinflammation; neurological; neuronal; neuronal cells; neuronal evs; neurons; neutrophil; nevs; new; new ev; niche; nicotine; nih; nk cells; nk evs; nk3.3 evs; nm23; non; normal; normal cells; normal evs; normalization; norovirus; novel; novel ev; npc; nrf2; nta; nuclear; nucleic; number; numerous; obese; obesity; objective; observed; offers; ohsv; old evs; omvs; oncogenic; ongoing; ontology; opportunity; optimal; optimization; optiprep; oral; order; organoids; organotropic evs; organs; origin; orthogonal; outcomes; outer; ovarian; ovarian cancer; overall; overexpressed; overexpression; overnight; oxidative; p =; p53; paca; paca cell; packaging; pad evs; pah; pain; pancreatic; pancreatic cancer; panel; paracrine; parallel; parameters; parasite; parental cells; parkinson; participants; particle analysis; particle size; particles; particular; pathogenesis; pathogenic; pathological; pathology; pathway; pathway analysis; patients; patients introduction; pattern; pbs; pc3; pca; pcr evs; pdac; pddc; peak; pei; people; peptide; performance; perfusion; peripheral; permeability; pevs; phenotype; phenotyping; philadelphia; phosphorylation; physical; physiological; physiology; pipeline; plasma evs; plasma exosomes; plasma extracellular; plasma membrane; plasma samples; plasma sevs; platelet; platelet ev; platform; play; players; pluripotent; pneumonia; point; polymer; pooled; poor; pore; positive evs; possibility; possible; post; potency; potential; potential biomarkers; potential ev; potential role; prca; precipitation; preclinical; pregnant; preliminary; presence; present; pressure; previous; primary; primary cell; prior; procedures; process; processes; processing; producer cells; products; profile; profiling; profiling evs; progenitor cell; prognosis; program; programme; progression; project; proliferation; promise; promising; promote; propagation; properties; prostanoids; prostate; prostate cancer; protein; protein analysis; protein cargo; protein content; protein expression; protein levels; protein markers; proteome; proteomic; protocol; prp; ps+ evs; pulmonary; pulse; pure; pure evs; purification; purification methods; purified; purity; purpose; qev; qpcr; qrt; quality; quantified; quantitative; quantity; r01; rab11; rab27a; radiation; raman; range; rapid; ratios; rats; rcc; reaction; reagent; recent; receptor; recipient cells; recognition; recovery; recruitment; reduced; reduction; reference; regeneration; regulated; regulation; regulatory; related; relationship; relative; releasing; relevance; relevant; reliable; remodelling; removal; renal; repair; replication; reported; reporter cells; reproducibility; reproducible; republic; required; research; researchers; resident; resistance; resistant cells; resistive; resolution; respiratory; response; responsible; results; reticulum; retinal; reverse; rfp; risk; rna; rna analysis; rna cargo; rna expression; rnas; robust; role; rpe cells; safety; saline; saliva; salivary; salt; samples; sampling; scalable; scale; scanning; scatter; scattering; scd; schistosomula evs; school; science; scientific; sclc; sclerosis; score; screening; secondary; secrete; secrete evs; selected; selection; selective; self; sem; senescence; senescent cells; sensing; sensitive; sensitivity; sensor; separated; separation; sepsis; sequence; sequencing; sequential; sera; serial; sers; serum; serum evs; serum exosomes; set; settings; severe; sevs; sgrna; shape; shh; short; showing; shows; signalling; signals; signature; significant; similar; simoa; simple; sinai; singapore; single cell; single ev; site; situ; size; size distribution; size exclusion; skin; skm; skov-3 evs; small cell; small evs; small extracellular; small rna; small size; small vesicles; smaller; smooth; software; soluble; sorting; source; space; species; specific cell; specific evs; specific exosomes; specific markers; specific proteins; specificity; specimens; spectral; spectrometry; spectroscopy; spectrum; speed; spfs; spiked; spines; spleen; spread; spreading; sputum; stability; stable; stage; staining; standard; standard ev; standardization; standardized; starting; statistical; status; stellate cells; stem cells; step; stimulated; stimulation; storage; strains; strategies; strategy; stress; stroke; stromal cells; strong; structure; studies; study; subjects; subsequent; subset; substrate; subx; successful; sucrose; sufficient; suitable; summary; superior; supernatant; supported; suppression; surface; surface markers; surface protein; surgery; survival; swarm; symptoms; synaptic; syndrome; synthesis; synthetic; synuclein; system; systemic; tail; tangential; target cells; targeted; targeting; targets; tau; tbi; techniques; technologies; technology; temperature; terms; tested; testing; tests; tetraspanins; tex; tff; tgf; th17; th17 cells; therapeutic; therapeutic evs; therapeutic potential; therapies; therapy; thrombus; throughput; time; tissue; tissue evs; tlr4; tnbc; tnbc cells; tnf; tnfα; tolerance; tool; total cell; total evs; total protein; total rna; tracking; traditional; trafficking; training; transcription; transcriptome; transcripts; transfection; transfer; translation; transmembrane; transmission; transplantation; transport; trap; treatment; tregs; triacylglycerol; triple; trps; tsg101; tspan8; tube; tuberculosis; tumorigenic; tumour cells; tumour evs; tumour growth; tumours; twist1; type evs; typical; uev; uevs; ultracentrifugation; ultrafiltration; umbilical; unclear; underlying; understanding; understood; unique; unique ev; university; unknown; untreated; uptake; urinary evs; urine; urine evs; usa; usa introduction; use; useful; utility; validation; valuable; value; variability; variable; variety; vascular; vegf; vehicle; vein; ventricular; vesicles introduction; vesicular; viral; virus; viruses; visualization; vitro; vivo; vivo ev; volume; volunteers; washed; weeks; western; western blot; wild; women; work; working; workshop; worldwide; worm evs; wound; years; yields; young; young evs; zeta; zikv; αvβ6 cache: cord-031907-ilhr3iu5.txt plain text: cord-031907-ilhr3iu5.txt item: #246 of 647 id: cord-031970-7szpo4zx author: Qiao, Yu title: Tumorigenic and Immunogenic Properties of Induced Pluripotent Stem Cells: a Promising Cancer Vaccine date: 2020-09-16 words: 6953 flesch: 36 summary: iPSC disease modeling Human induced pluripotent stem cells as a platform for personalized and precision cardiovascular medicine Telomere and telomerase in stem cells Telomere regulation in pluripotent stem cells Metabolic regulation in pluripotent stem cells during reprogramming and self-renewal The metabolome of induced pluripotent stem cells reveals metabolic changes occurring in somatic cell reprogramming Embryonic stem cell-specific signatures in cancer: Insights into genomic regulatory networks and implications for medicine Common stemness regulators of embryonic and cancer stem cells An embryonic stem celllike gene expression signature in poorly differentiated aggressive human tumors Cancer-related epigenome changes associated with reprogramming to induced pluripotent stem cells Autologous iPSC-based vaccines elicit anti-tumor responses in vivo Dissecting the oncogenic and tumorigenic potential of differentiated human induced pluripotent stem cells and human embryonic stem cells Tumour markers in oncology: past, present and future Senescence impairs successful reprogramming to pluripotent stem cells A Myc network accounts for similarities between embryonic stem and cancer cell transcription programs Moreover, given the vital role that cancer stem cells (CSCs) play in sustaining tumor growth and causing relapse after therapy, vaccines generated from different types of CSCs were also proven to display effective tumor immunity in respective cancers keywords: aberrant; addition; adult; anti; antigen; apoptosis; autologous; cancer; cells; cellular; clinical; colon; copy; derivatives; development; differentiated; disease; dna; early; effect; embryonic; epigenetic; escs; evidence; expression; factors; formation; generation; genes; genetic; genome; genomic; germ; group; growth; human; immune; immunity; immunogenicity; immunotherapy; induced; ipscs; klf4; level; like; lin28; long; major; markers; mdm2; medicine; melanoma; methylation; mice; microenvironment; model; modified; mouse; mutations; myc; nanog; new; number; oct4; oncofetal; ovarian; p53; patients; phosphorylation; pluripotent; pluripotent stem; potential; process; proliferation; protein; rate; recipients; regenerative; regulation; rejection; reprogramming; researchers; response; results; role; similar; somatic; sox2; specific; state; stem; stem cells; studies; study; survival; syngeneic; technology; term; transplantation; transplanted; tumor; tumorigenic; types; vaccine cache: cord-031970-7szpo4zx.txt plain text: cord-031970-7szpo4zx.txt item: #247 of 647 id: cord-032183-yqqqe325 author: Ning, Qin title: Antiviral Therapy for AECHB and Severe Hepatitis B (Liver Failure) date: 2019-05-21 words: 32709 flesch: 39 summary: Survival analysis of 190 patients with HBV-related acuteon-chronic liver failure Does antiviral therapy reduce complications of cirrhosis? Hepatitis B-associated fibrosis and fibrosis/cirrhosis regression with nucleoside and nucleotide analogs Lamivudine treatment in patients with severely decompensated cirrhosis due to replicating hepatitis B infection Lamivudine for patients with chronic hepatitis B and advanced liver disease Determinants of early mortality in patients with decompensated chronic hepatitis B treated with antiviral therapy The role of lamivudine and predictors of mortality in severe flare-up of chronic hepatitis B with jaundice Meta-analysis of the short-term effects of lamivudine treatment for severe chronic hepatitis B Lamivudine monotherapy for spontaneous severe acute exacerbation of chronic hepatitis B Adefovir dipivoxil therapy for lamivudine resistant hepatitis B in pre-and post-liver transplantation patients Long-term therapy with adefovir dipivoxil for HBeAg negative chronic hepatitis B for up to 5 years A comparison of entecavir and lamivudine for HBeAgpositive chronic hepatitis B Entecavir versus lamivudine for patients with HBeAgnegative chronic hepatitis B Entecavir versus lamivudine therapy for patients with chronic hepatitis B-associated liver failure: a meta-analysis Entecavir vs. lamivudine in chronic hepatitis B patients with severe acute exacerbation and hepatic decompensation The pros and cons of lamivudine vs. entecavir in decompensated or severe acute exacerbation of chronic hepatitis B Efficacy and safety of telbivudine therapy in liver failure patients with chronic hepatitis B virus infection Randomized clinical trial: efficacy and safety of telbivudine and lamivudine in treatment-naïve patients with HBV-related decompensated cirrhosis Nucleoside analogues improve the short-term and long-term prognosis of patients with hepatitis B virus-related acute-on-chronic liver failure The study of efficacy of lamivudine in patients with severe acute hepatitis B HBV-DNA suppression and disease course in HBV cirrhosis patients on long-term lamivudine therapy Clinical outcome of HBeAg-negative chronic hepatitis B in relation to virological response to lamivudine Long-term continuous entecavir therapy in nucleos(t) ide-naïve chronic hepatitis B patients Update in the management of chronic hepatitis B Asian-Pacific consensus statement on the management of chronic hepatitis B: a 2012 update A treatment algorithm for the management of chronic hepatitis B virus infection in the United States: 2008 update Risk of hepatocellular carcinoma across a biological gradient of serum hepatitis B virus DNA level United States Lamivudine Compassionate Use Study Group. In 64% of patients HBV DNA levels were detectable by the branched chain DNA assay. keywords: aasld; ablation; aclf; active; activity; acute; addition; adefovir; adv; adverse; aechb; agents; alt; analogs; analogues; analysis; antigen; antiviral; antiviral therapy; antiviral treatment; apoptosis; association; b immune; b virus; baseline; benefit; breakthrough; cancer; carcinoma; cases; cccdna; cells; chb; chb patients; chemotherapy; china; chinese; chronic hbv; chronic hepatitis; chronic liver; cirrhosis; cirrhosis patients; cirrhotic; clinical; combination; combination therapy; combined; complete; comprehensive; consensus; continuous; control; copies; course; ctp; cumulative; curative; cure; current; cytotoxic; damage; data; death; decompensated; decompensation; decrease; development; different; dipivoxil; disease; dna level; dose; drug; early; easl; effect; effective; efficacy; emtricitabine; entecavir; entry; etv; evidence; exacerbation; expression; factors; failure; failure patients; fibrosis; follow; function; globulin; goal; group; growth; guidelines; hbeag; hbig; hbs; hbv; hbv dna; hbv infection; hbv reactivation; hbv recurrence; hbv replication; hbv therapy; hbv treatment; hbx; hcc; hcc patients; hepatic; hepatitis b; hepatocellular; hepatocyte; high; high hbv; higher; hiv; host; human; ifn; immune; immunosuppressive; important; improved; improvement; incidence; increased; independent; infected; infection; inflammation; inhibit; initial; interferon; lamivudine; lamivudine treatment; ldt; lead; level; life; liver; liver cancer; liver cirrhosis; liver disease; liver failure; liver function; liver transplantation; load; long; loss; low; lower; management; median; medical; meld; meta; monotherapy; months; mortality; mutations; nas; need; negative; negative patients; new; non; normal; nucleoside; number; oral; outcome; overall; pathway; patients; peg; pegylated; period; poor; positive; positive patients; post; postoperative; potent; practice; predictor; pregnancy; prevention; prognosis; progression; prophylaxis; prospective; protein; randomized; rate; reactivation; recent; recommendations; recurrence; replication; rescue; resection; resistance; response; results; risk; role; safety; score; sequential; seroconversion; serum; serum hbv; severe; severe hepatitis; significant; similar; specific; stage; strategies; studies; study; suppression; surface; survival; sustained; switch; tace; tdf; telbivudine; tenofovir; term; therapeutic; therapy; thyroid; time; tolerance; total; transplantation; treatment; treatment group; trial; tumor; use; vaccination; vaccine; virological; virus; virus infection; weeks; years cache: cord-032183-yqqqe325.txt plain text: cord-032183-yqqqe325.txt item: #248 of 647 id: cord-032220-u5oo7mj2 author: Bao, Mengdi title: Magnetic Bead-Quantum Dot (MB-Qdot) Clustered Regularly Interspaced Short Palindromic Repeat Assay for Simple Viral DNA Detection date: 2020-09-04 words: 4829 flesch: 43 summary: With the optimized MB-Qdot conjugation assay in hand, we then applied this protocol for CRISPR detection. Bright and Versatile in Vitro and in Vivo Fluorescence Imaging Biosensors Cpf1 Is a Single RNA-Guided Endonuclease of a Class 2 CRISPR-Cas System The CRISPR-Associated DNA-Cleaving Enzyme Cpf1 Also Processes Precursor CRISPR RNA Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems Diversity and Evolution of Class 2 CRISPR−Cas Systems Analysis Reveals Specificities of Cpf1 Endonucleases in Human Cells Kinetic Basis for DNA Target Specificity of CRISPR-Cas12a Comparison of Human and Camera Visual AcuitySetting the Benchmark for Shallow Water Autonomous Imaging Platforms Comparison Between the Number of Discernible Colors in a Digital Camera and the Human Eye. keywords: acid; african; amplification; asfv; assay; background; beads; buffer; cas12a; cleavage; complementary; complex; conjugation; crispr; crrna; detection; dna; fever; figure; flashlight; fluorescence; fluorometer; high; higher; hybridization; inc; instruments; intensity; linker; magnetic; magnetic beads; min; novel; nucleic; outbreak; pcr; plasma; pmol; point; probe; qdots; quantum; rapid; reaction; reporter; room; samples; sensitive; sensitivity; sequence; signal; simple; single; ssdna; streptavidin; substrates; supernatant; swine; system; target; temperature; testing; throughput; time; uncleaved; use; viral; virus; visual; work cache: cord-032220-u5oo7mj2.txt plain text: cord-032220-u5oo7mj2.txt item: #249 of 647 id: cord-033054-qaj1f6qq author: Samad, Abdus title: Computational assessment of MCM2 transcriptional expression and identification of the prognostic biomarker for human breast cancer date: 2020-10-01 words: 5013 flesch: 38 summary: Strong and highly intense staining of cancer cells compared to that of normal glandular cells ascertain the higher levels of MCM2 expression in BC tissues. The GEPIA2 database contains data from 1,085 tumors and 291 normal tissues related to BC where the type of cancers can be predicted by the query sample based on the intensity of gene expression. keywords: alterations; analysis; biomarker; breast; cancer; carcinoma; cases; cell; clinical; correlated; correlation; cox; cycle; data; database; datasets; development; different; disease; distant; dna; ductal; early; expression; factor; features; figure; free; gene; genome; genomics; gepia2; healthy; higher; human; levels; lung; maintenance; mcm2; mcm2 expression; mcm4; metastasis; methylation; minichromosome; mrna; mutations; normal; oncomine; overall; overexpression; pathways; patients; patterns; potential; prognostic; progression; proliferation; protein; replication; results; role; samples; server; signaling; significant; status; strong; study; survival; table; tcga; tissues; tumor; ualcan; value cache: cord-033054-qaj1f6qq.txt plain text: cord-033054-qaj1f6qq.txt item: #250 of 647 id: cord-035173-6974gw6j author: Wang, Zhuo title: Effects of Low-Dose X-Ray on Cell Growth, Membrane Permeability, DNA Damage and Gene Transfer Efficiency date: 2020-10-28 words: 5529 flesch: 50 summary: It induced significant DSBs and cell damage to result in lower cell viability. This suggested that the very low dose irradiations of X-ray would not induce cell damage. keywords: analysis; apoptosis; assay; biological; breaks; cell growth; cells; cellular; cho; comet; control; damage; dna; dna damage; dose; dose x; dual; effects; efficiency; figure; foci; gene; gfp; groups; growth; h2ax; harmful; higher; human; induced; information; ionizing; irradiations; kv x; low; low dose; medical; membrane; morphology; mv x; permeability; radiation; ray; rays; repair; response; results; significant; similar; study; time; transfection; transfer; viability cache: cord-035173-6974gw6j.txt plain text: cord-035173-6974gw6j.txt item: #251 of 647 id: cord-048322-5eqdrd52 author: Aigner, Achim title: Delivery Systems for the Direct Application of siRNAs to Induce RNA Interference (RNAi) In Vivo date: 2006-05-18 words: 7344 flesch: 28 summary: Molecular Vision Antitumor activity of small interfering RNA/cationic liposome complex in mouse models of cancer Small interfering RNA-mediated functional silencing of vasopressin V 2 receptors in the mouse kidney Therapeutic EphA2 gene targeting in vivo using neutral liposomal small interfering RNA delivery siRNA-induced caveolin-1 knockdown in mice increases lung vascular permeability via the junctional pathway Cationic liposome-mediated delivery of siRNAs in adult mice Efficient delivery of small interfering RNA for inhibition of IL-12p40 expression in vivo Small interfering RNAs directed against beta-catenin inhibit the in vitro and in vivo growth of colon cancer cells Gene silencing by systemic delivery of synthetic siRNAs in adult mice Intravesical administration of small interfering RNA targeting PLK-1 successfully prevents the growth of bladder cancer In vitro and in vivo suppression of GJB2 expression by RNA interference Blockage of the macrophage migration inhibitory factor expression by short interference RNA inhibited the rejection of an allogeneic tracheal graft Widespread lipoplex-mediated gene transfer to vascular endothelial cells and hemangioblasts in the vertebrate embryo Systemic delivery of Raf-siRNA using cationic cardiolipin liposomes silences Raf-1 expression and inhibits tumor growth in xenograft model of human prostate cancer Novel cationic cardiolipin analogue-based liposome for efficient DNA and small interfering RNA delivery in vitro and in vivo An efficient intrathecal delivery of small interfering RNA to the spinal cord and peripheral neurons Comparison of antisense oligonucleotides and siR-NAs in cell culture and in vivo An siRNA-based microbicide protects mice from lethal herpes simplex virus 2 infection Therapeutic silencing of an endogenous gene by systemic administration of modified siRNAs Potent and persistent in vivo anti-HBV activity of chemically modified siR-NAs Inhibition of gene expression in mice muscle by in vivo electrically mediated siRNA delivery Small interfering RNA targeting Raf-1 inhibits tumor growth in vitro and in vivo A small interfering RNA targeting vascular endothelial growth factor as cancer therapeutics Atelocollagenmediated synthetic small interfering RNA delivery for effective gene silencing in vitro and in vivo Efficient delivery of small interfering RNA to bone-metastatic tumors by using atelocollagen in vivo Rad51 siRNA delivered by HVJ envelope vector enhances the anti-cancer effect of cisplatin Antibody mediated in vivo delivery of small interfering RNAs via cell-surface receptors Silencing heat shock factor 1 by small interfering RNA abrogates heat shock-induced cardioprotection against ischemiareperfusion injury in mice Reconstituted influenza virus envelopes as an efficient carrier system for cellular delivery of small-interfering RNAs A statistical sampling algorithm for RNA secondary structure prediction Efficient reduction of target RNAs by small interfering RNA and RNase H-dependent antisense agents. keywords: able; activity; administration; adult; aigner; angiogenesis; antisense; antitumoral; apoptosis; application; binding; biological; brain; breast; cancer; cationic; cells; cellular; certain; cleavage; complex; complexation; complexes; degradation; delivery; dependent; development; different; dna; double; effects; efficacies; efficacy; efficient; endothelial; expression; factor; fgf; figure; gene; growth; her-2; high; higher; human; induced; influenza; inhibition; inhibits; injection; intact; interference; interferon; low; lung; mammalian; mice; molecular; molecules; mouse; mrna; naked; neu; nonviral; novel; oligonucleotides; pei; peis; pleiotrophin; polyethylenimine; proliferation; protection; protein; ptn; receptor; reduction; relevant; response; results; review; ribozyme; risc; rnai; sequence; short; silencing; sirnas; small; specific; strategies; structure; studies; subcutaneous; synthetic; systemic; systems; targeted; targeting; therapeutic; therapy; transfection; transfer; treatment; tumor; uptake; vascular; vegf; virus; vitro; vivo; weight; xenografts cache: cord-048322-5eqdrd52.txt plain text: cord-048322-5eqdrd52.txt item: #252 of 647 id: cord-048359-lz37rh82 author: Li, Jin title: s-RT-MELT for rapid mutation scanning using enzymatic selection and real time DNA-melting: new potential for multiplex genetic analysis date: 2007-06-01 words: 6264 flesch: 39 summary: s-RT-MELT was subsequently applied in the same manner to screen for p53 mutations in exons 5-7 from cell lines and surgical colon samples harboring sequencing-identified mutations including a single-base frameshift mutation in exon 7 (listed in Supplementary Table 2 ). Since 480% of p53 mutations in human tumors are encountered in exons 5-9 (45), the multiplex single-tube s-RT-MELT reaction could be used to identify most p53 mutations encountered in clinical tumor samples. keywords: 948c; addition; amplification; analysis; base; cancer; cell; clamp; curve; data; denaturation; detection; dhplc; different; differential; dna; egfr; electrophoresis; enzymatic; enzyme; exon; figure; fragments; genetic; genomic; high; hybridized; identification; level; lines; low; lung; melt; melting; method; min; mismatches; multiplex; mutant; mutation; nucleotide; openarray; p53; parallel; pcr; poly; positions; presence; primer; products; reaction; real; samples; scanning; screening; selective; sequences; sequencing; single; small; specific; step; surveyor; tail; temperature; throughput; time; time pcr; tube; type; wild cache: cord-048359-lz37rh82.txt plain text: cord-048359-lz37rh82.txt item: #253 of 647 id: cord-102206-mb0qcd0b author: Seymour, Elif title: Configurable Digital Virus Counter on Robust Universal DNA Chips date: 2020-10-22 words: 5918 flesch: 48 summary: As we improved SP-IRIS to develop it as a robust POC diagnostic platform, we focused on optimizing virus capture efficiency of antibody microarray chips, one of the most important factors that affect assay sensitivity in solid-phase immunoassays. Antibody spots were ~150 μm in diameter. keywords: active; antibodies; antibody; approach; assay; capture; cartridge; channel; chip; complementary; concentration; conjugates; ddi; density; detection; different; disposable; dna; dna conjugates; ebola; ebov; figure; flow; high; homogeneous; image; immobilization; immobilized; incubation; iris; lasv; lod; marv; microarray; microfluidic; min; multiplexed; number; particles; passive; pbs; pfu; platform; probes; rapid; rvsv; sample; sensitivity; sensor; sequences; signal; single; solution; specific; spots; stability; step; surface; technique; test; testing; time; viral; virus; viruses cache: cord-102206-mb0qcd0b.txt plain text: cord-102206-mb0qcd0b.txt item: #254 of 647 id: cord-102219-d3gkfo7s author: Perzel Mandell, Kira A. title: Characterizing the dynamic and functional DNA methylation landscape in the developing human cortex date: 2019-10-30 words: 5039 flesch: 41 summary: Previously, many studies of brain DNA methylation have used the Illumina Infinium® HumanMethylation450 BeadChip (450k) and more recent Infinium MethylationEPIC (850k) microarray technologies. This corresponds to 30x coverage of the human genome as extra reads were generated to account for the addition of PhiX. Data Processing: The raw WGBS data was processed using FastQC to control for quality of reads 12 , Trim Galore to trim reads and remove adapter content 13 , Arioc for alignment to the GRCh38.p12 genome (obtained from ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/001/405/GCA_000001405.27_GRCh38.p12/GC A_000001405.27_GRCh38.p12_assembly_structure/Primary_Assembly/assembled_chromoso mes/) 14 , duplicate alignments were removed with SAMBLASTER 15 , and the Bismark methylation extractor to extract methylation data from the sequencing data 16 . keywords: 450k; age; analysis; associated; autosomal; bisulfite; brain; cell; changes; consortium; cortex; coverage; cpgs; cph; cphs; data; development; differences; differential; disease; disorders; dlpfc; dmrs; dnam; dynamic; effects; enriched; enrichment; epigenetic; expression; figure; findings; functional; gene; genome; human; illumina; important; landscape; levels; life; likely; loci; methylation; microarray; model; neurodevelopmental; prenatal; psychiatric; reads; regions; rna; role; samples; schizophrenia; seq; set; sex; sexes; significant; sites; study; table; time; tissue; wgbs cache: cord-102219-d3gkfo7s.txt plain text: cord-102219-d3gkfo7s.txt item: #255 of 647 id: cord-102270-rfhtlodc author: Azhar, Mohd. title: Rapid, field-deployable nucleobase detection and identification using FnCas9 date: 2020-04-21 words: 3978 flesch: 40 summary: Although FELUDA results can be precisely determined by agarose or capillary electrophoresis, we envisioned fluorescence or chemiluminescence as alternate end-point readouts to expand the scope of devices that can suit FELUDA based detection. In recent times, CRISPR based detection of nucleic acids has provided an economical and quicker alternative to sequencing-based platforms which are often difficult to implement in the field. keywords: accuracy; acid; activity; affinity; agarose; amplification; assay; binding; buffer; cleavage; complete; complex; covid-19; crispr; design; detection; discrimination; disease; dna; feluda; figure; fluorescent; fncas9; gene; genome; genomic; high; individuals; kit; mins; minutes; mismatch; mutation; non; nucleic; pam; pcr; platforms; point; positions; pylori; reaction; readout; rna; rnp; samples; sca; science; sensitivity; sequence; sequencing; sgrna; signal; single; snvs; specificity; step; study; substrate; supernatant; supplementary; target; type cache: cord-102270-rfhtlodc.txt plain text: cord-102270-rfhtlodc.txt item: #256 of 647 id: cord-102336-ex3zlq38 author: De Wijngaert, Brent title: Cryo-EM structures reveal transcription initiation steps by yeast mitochondrial RNA polymerase date: 2020-04-14 words: 2286 flesch: 52 summary: Much of our understanding of mitochondrial DNA transcription comes from studies of yeast (S. cerevisiae) and human mtRNAPs (2, 3, 5) . Insights into transcription: structure and function of singlesubunit DNA-dependent RNA polymerases Maintenance and Expression of Mammalian Mitochondrial DNA Structural basis of mitochondrial transcription Mechanism of bacterial transcription initiation: RNA polymerase -promoter binding, isomerization to initiation-competent open complexes, and initiation of RNA synthesis Mechanism of transcription initiation by the yeast mitochondrial RNA polymerase Structural Basis of Mitochondrial Transcription Initiation The thumb subdomain of yeast mitochondrial RNA polymerase is involved in processivity, transcript fidelity and mitochondrial transcription factor binding Crystal structure of the transcription factor sc-mtTFB offers insights into mitochondrial transcription Transcription factor-dependent DNA bending governs promoter recognition by the mitochondrial RNA polymerase Mutations in the yeast mitochondrial RNA polymerase specificity factor, Mtf1, verify an essential role in promoter utilization Structure of a transcribing T7 RNA polymerase initiation complex Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism Movies S1 -S3 Movie S1. keywords: active; base; complex; dna; downstream; fig; initiation; loop; melting; mitochondrial; mtf1; mtic; non; ntp; pic; polymerase; promoter; rna; rpo41; scrunching; site; state; strand; structure; synthesis; tail; template; transcription; transition; upstream; yeast cache: cord-102336-ex3zlq38.txt plain text: cord-102336-ex3zlq38.txt item: #257 of 647 id: cord-102359-k1xxz4hc author: Klotsa, Daphne title: Electronic Transport in DNA date: 2005-04-04 words: 6672 flesch: 57 summary: In section V, we show that DNA sequences with different arrangement of nucleotide bases Adenine (A), Cytosine (C), Guanine (G) and Thymine (T) exhibit different ξ's when measured, e.g. as function of the Fermi energy They may be calculated like in section II D. We would like to point out that it may therefore be advantageous to use the naturally occurring telomeric parts of DNA sequences as prime, in-vivo candidates when looking for good conductivity in a DNA strand. keywords: anderson; atgc; backbone; bands; bases; behaviour; binary; biological; central; charge; coding; complete; conductivity; decrease; different; disorder; dna; dna sequences; effects; electronic; energy; environment; experiments; fig; finite; fishbone; function; gap; hopping; important; ladder; larger; lengths; like; localisation; localisation lengths; long; model; molecule; non; note; onsite; pairs; poly(dg)-poly(dc; potentials; properties; quantum; random; range; regions; results; scrambled; section; sequences; sites; small; solution; states; strand; structure; studies; telomeric; transfer; transport; values; window cache: cord-102359-k1xxz4hc.txt plain text: cord-102359-k1xxz4hc.txt item: #258 of 647 id: cord-102370-5uy8dq18 author: Marano, Jeffrey M. title: Rolling Circle Amplification is a high fidelity and efficient alternative to plasmid preparation for the rescue of infectious clones date: 2020-06-23 words: 4120 flesch: 48 summary: However, the titer of RCA product transfection was significantly higher than the plasmid titer in HEK293T cells (p=0.0027). 1 µl of RCA product was then used as the template for a subsequent 10 µl RCA reaction. keywords: alphaviruses; amplification; analysis; anova; bacterial; cdna; cells; circle; clones; colonies; comparisons; control; correction; cost; days; dna; evomics; genome; high; infectious; input; kinetics; kit; lines; molecular; multiple; mutations; passage; peak; plasmid; post; product; promoter; rca; replication; rescue; results; rna; rolling; sequencing; superphi; system; template; time; titer; transfection; unwanted; vero; viral; virus; viruses; yield cache: cord-102370-5uy8dq18.txt plain text: cord-102370-5uy8dq18.txt item: #259 of 647 id: cord-102504-d840uu3e author: Hass, Kenneth N. title: Integrated Micropillar Polydimethylsiloxane Accurate CRISPR Detection (IMPACT) System for Rapid Viral DNA Sensing date: 2020-03-20 words: 4437 flesch: 49 summary: 27, 28 One of the main advantages of the IMPACT chip compared to traditional CRISPR assays is its ability to limit the background caused by dye-quencher probes, which is typically seen in CRISPR detection in the liquid state and needs to be designed around to lower the detection limit. Therefore, we used 3 hrs incubation to prepare the IMPACT chip for solid phase CRISPR detection. keywords: acid; aptes; asfv; aspect; assay; background; binding; capacity; cas12a; channel; chip; complex; coronavirus; crispr; crrna; detection; device; dna; fig; flat; fluorescence; high; hotplate; hrs; impact; increase; incubation; input; integrated; intensity; light; limit; micropillar; min; modification; nmoles; nucleic; pcr; pdms; phase; poc; probe; ratio; reporter; sample; shows; signal; silicon; solid; solution; ssdna; streptavidin; surface; system; target; time; treatment; viral; virus; water cache: cord-102504-d840uu3e.txt plain text: cord-102504-d840uu3e.txt item: #260 of 647 id: cord-102511-7zgd45fl author: Khodakov, Dmitriy title: Donut PCR: a rapid, portable, multiplexed, and quantitative DNA detection platform with single-nucleotide specificity date: 2020-05-05 words: 4292 flesch: 39 summary: There are patents pending on the Donut PCR chip and Donut PCR instrument presented in this work. key: cord-102511-7zgd45fl authors: Khodakov, Dmitriy; Li, Jiaming; Zhang, Jinny X.; Zhang, David Yu title: Donut PCR: a rapid, portable, multiplexed, and quantitative DNA detection platform with single-nucleotide specificity date: 2020-05-05 journal: bioRxiv DOI: 10.1101/2020.04.24.058453 sha: doc_id: 102511 cord_uid: 7zgd45fl Current platforms for molecular analysis of DNA markers are either limited in multiplexing (qPCR, isothermal amplification), turnaround time (microarrays, NGS), quantitation accuracy (isothermal amplification, microarray, nanopore sequencing), or specificity against single-nucleotide differences (microarrays, nanopore sequencing). keywords: acid; amplicons; amplification; analysis; applications; bacterial; breadboard; care; chamber; chip; closed; convection; design; detection; different; disease; dna; donut; donut pcr; drug; dyz; fig; fluid; fluorescence; gene; genetic; genome; genomic; genotyping; high; human; hybridization; identification; instrument; isothermal; low; microarray; multiplexed; multiplexing; nucleic; nucleotide; panel; pathogen; pcr; platform; point; portable; power; pre; primer; probe; prototype; qpcr; quantitation; quenched; range; rapid; reaction; readout; resistance; risk; sample; sequencing; single; snp; species; specificity; spot; temperature; thermal; time; tube; turnaround; use; wide cache: cord-102511-7zgd45fl.txt plain text: cord-102511-7zgd45fl.txt item: #261 of 647 id: cord-102661-lh7992rl author: Valentine, Charles C. title: Direct Quantification of in vivo Mutagenesis and Carcinogenesis Using Duplex Sequencing date: 2020-11-03 words: 9841 flesch: 42 summary: Errors in DNA replication as a basis of malignant changes Overview of biological mechanisms of human carcinogens Mutational signatures in tumours induced by high and low energy radiation in Trp53 deficient mice Overview of genotoxic carcinogens and non-genotoxic carcinogens Guidlines for Testing of Chemicals: OECD Test Guideline 488 -Transgenic Rodent Somatic and Germ Cell Gene Mutation Assays, adopted 26 Genotoxicity and Carcinogenicity Testing of Pharmaceuticals Mutation as a toxicological endpoint for regulatory decision-making A compendium of mutational signatures of environmental agents Detection of ultra-rare mutations by next-generation sequencing Enhancing the accuracy of next-generation sequencing for detecting rare and subclonal mutations Highthroughput sequencing in mutation detection: A new generation of genotoxicity tests? Next-generation genotoxicology: using modern sequencing technologies to assess somatic mutagenesis and cancer risk Validation of transgenic mice harboring the human prototype c-Haras gene as a bioassay model for rapid carcinogenicity testing Analysis of spontaneous and induced mutations in transgenic mice using a lambda ZAP/lacl shuttle vector Detailed review of transgenic rodent mutation assays Detecting ultralow-frequency mutations by Duplex Sequencing Characterizing Benzo[a]pyrene-induced lacZ mutation spectrum in transgenic mice using next-generation sequencing Chemically induced mutations in a MutaMouse reporter gene inform mechanisms underlying Mapping the binding site of aflatoxin B1 in DNA: systematic analysis of the reactivity of aflatoxin B1 with guanines in different DNA sequences Mechanism of the inhibition of mutagenicity of a benzo ENU) increased brain mutations in prenatal and neonatal mice but not in the adults Efficient repair of O6-ethylguanine, but not O4 -ethylthymine or O2-ethylthymine, is dependent upon O6-alkylguanine-DNA alkyltransferase and nucleotide excision repair activities in human cells Efficient rescue of integrated shuttle vectors from transgenic mice: a model for studying mutations in vivo Other transgenic mutation assays: A new transgenic mouse mutagenesis test system using Spi-and 6-thioguanine selections The use of shuttle vectors for mutation analysis in transgenic mice and rats Mutational signatures are jointly shaped by DNA damage and repair Mutational spectra of aflatoxin B 1 in a mouse model of cancer establish biomarkers of exposure for human hepatocellular carcinoma Short title: Mutational spectra of aflatoxin B 1 in mice Transgenic mouse mutation assay systems can play an important role in regulatory mutagenicity testing in vivo for the detection of site-of-contact mutagens Detailed review paper on transgenic rodent mutation assays, series on testing and assessment whole-genome sequencing of organoid cultures The genome as a record of environmental exposure Tissue-specific mutation accumulation in human adult stem cells during life Genome-wide quantification of rare somatic mutations in normal human tissues using massively parallel sequencing Optimizing drug discovery by Investigative Toxicology: To illustrate the impact of TGR selection on mutant recovery, we plotted the functional class of all cII mutations identified by Duplex Sequencing of either genomic DNA obtained directly from mouse samples (Fig. 3A) or from a pool of 3,510 individual mutant plaques that were isolated post-selection (Fig. 3B) . keywords: aca; acc; acg; act; analysis; animals; assays; atc; atg; att; b[α]p; base; bias; big; blood; blue; cancer; carcinogens; cca; ccc; ccg; cct; cell; chemical; cii; clonal; clustering; consensus; control; correction; cta; ctc; ctg; ctnnb1; ctt; data; detection; different; dna; duplex; ecngs; endogenous; enu; error; exposure; fig; fold; frequencies; frequency; gca; gcc; gcg; gct; generation; genome; genomic; gta; gtc; gtg; gtt; high; hras; human; increase; induction; liver; locus; lung; marrow; mean; measure; methods; mice; model; mouse; mutagenesis; mutagenic; mutant; mutations; non; nucleotide; number; pairs; phage; plaque; positive; possible; rash2; rate; reads; regions; relative; reporter; rodent; samples; selection; sequence; sequencing; signatures; similar; single; species; specific; spectra; spectrum; spleen; standard; strand; studies; target; tca; tcc; tcg; tct; testing; tgr; tissue; total; transcribed; transgenic; trinucleotide; tta; ttc; ttg; ttt; types; urethane; variant; vehicle; vivo cache: cord-102661-lh7992rl.txt plain text: cord-102661-lh7992rl.txt item: #262 of 647 id: cord-102866-40s64455 author: Bhadra, Sanchita title: One enzyme reverse transcription qPCR using Taq DNA polymerase date: 2020-05-30 words: 2867 flesch: 43 summary: We report optimized buffer and salt compositions that promote the reverse transcriptase activity of Taq DNA polymerase, and thereby allow it to be used as the sole enzyme in TaqMan RT-qPCR reactions. The buffer was supplemented with 0.4 mM deoxyribonucleotides (dNTP), 402 nM each of forward and reverse PCR primer pairs, 102 nM of the TaqMan probe, and 2.5 units of Taq DNA polymerase from indicated commercial vendors. keywords: activity; amplification; armored; assays; buffer; cdc; copies; cov-2; curves; detection; dna; dnase; enzyme; figure; gene; genomic; min; neb; panels; polymerase; qpcr; reactions; reverse; rna; sars; taq; taqman; templates; traces; transcriptase; transcription; viral cache: cord-102866-40s64455.txt plain text: cord-102866-40s64455.txt item: #263 of 647 id: cord-103417-2uinislh author: Doi, Hideyuki title: On-site eDNA detection of species using ultra-rapid mobile PCR date: 2020-10-01 words: 1507 flesch: 43 summary: Our ultra-rapid on-site eDNA extraction and measurement method using mobile PCR successfully detected the eDNA of H. molitrix, and analysis took only 30 min. The Ct of mobile PCR was larger than that of qPCR, because the DNA concentration in the field-extracted samples was lower. keywords: analysis; aquatic; carp; conservation; detection; distribution; edna; environmental; extraction; field; fish; invasive; laboratory; measurements; method; mobile; molitrix; pcr; platform; qpcr; rapid; site; species; survey; time; ultra; water cache: cord-103417-2uinislh.txt plain text: cord-103417-2uinislh.txt item: #264 of 647 id: cord-103422-ys846i99 author: Xu, Xinhui title: CRISPR-Assisted DNA Detection, a novel dCas9-based DNA detection technique date: 2020-05-13 words: 4281 flesch: 55 summary: We also verified three forms of CADD method by detecting 15 hrHPV plasmids and as many 64 clinical cervical samples. These investigations demonstrate the feasibility and reliability of CADD method. keywords: acid; activity; amplification; beads; cadd; capture; cleavage; clinical; collateral; complex; crispr; current; dcas9; detection; dna; elisa; fig; gdna; hcr; high; hpv; hpv16; human; hybridization; infections; method; microplate; min; nucleic; pcr; pmd; polymerase; promoter; r n; rapid; reaction; readout; results; reverse; samples; sensitivity; sequence; sgrna; sgrnact; signal; single; specificity; table; target; virus cache: cord-103422-ys846i99.txt plain text: cord-103422-ys846i99.txt item: #265 of 647 id: cord-103563-7a3wdduq author: Nunez-Bajo, Estefania title: Ultra-Low-Cost Integrated Silicon-based Transducer for On-Site, Genetic Detection of Pathogens date: 2020-03-25 words: 4541 flesch: 35 summary: As shown in Figure 4C , the peak current intensity (measured from the recorded SWVs) increased two to four times in comparison to room temperature when operated at higher temperatures; this is due to enhanced transport of the analyte to the surface of the electrode. We speculate that this could be related to thermal and electrical crosstalk between the heater and the electrochemical sensing structures which introduce additional noise to the electroanalytical measurements at higher temperatures. keywords: amplification; avium; chain; chip; contacts; control; cost; current; cyclic; detection; device; dna; electrical; electroanalytical; electrochemical; electrodes; fabrication; figure; handheld; heater; heating; high; infectious; integrated; isothermal; laboratory; low; measurements; metal; methods; need; nucleic; optical; paratuberculosis; pathogens; pcr; peak; point; polymerase; precision; range; rapid; reactions; real; redox; rpa; sample; sars; semiconductor; sensing; sensitive; sensor; setpoint; silicon; single; solution; substrate; surface; swv; temperature; testing; thermistor; time; trisilix; use; wafer cache: cord-103563-7a3wdduq.txt plain text: cord-103563-7a3wdduq.txt item: #266 of 647 id: cord-103735-nil1vv6h author: Alfano, Niccolo title: Non-invasive surveys of mammalian viruses using environmental DNA date: 2020-03-29 words: 5837 flesch: 49 summary: Viral contigs were confirmed by PCR and Sanger sequencing for samples L7, L17, L25 and L37 (Suppl. Of the 11 water filtrate samples tested, two samples from Mongolia (WM3 and WM20) (18.2%) had viral contigs with 100% identity to the Equid herpesvirus 1 and 3 (EHV-1 and EHV-3). keywords: africa; analysis; anelloviridae; approaches; baits; best; blast; bloodmeals; bushmeat; capture; circoviridae; contigs; coronaviridae; coronavirus; data; database; detection; different; diversity; dna; edna; emergence; environmental; equine; equus; families; fig; filtrate; gene; genome; genus; haematophagous; host; human; hybridization; identification; identity; idna; illumina; infectious; invasive; kit; leeches; libraries; library; mammalian; method; mongolia; monitoring; ncbi; new; non; novel; nucleic; number; oligonucleotides; panel; parvoviridae; pathogens; pcr; phylogenetic; polymerase; pooled; positive; protocol; reads; reference; region; retroviridae; rna; samples; sampling; sanger; sars; sediment; sequences; set; sources; species; suppl; tab; tanzania; target; terrestrial; total; unknown; vertebrate; viral; virochip; viruses; water; waterhole; wildlife; âµl cache: cord-103735-nil1vv6h.txt plain text: cord-103735-nil1vv6h.txt item: #267 of 647 id: cord-103813-w2sb6h94 author: Schumacher, Garrett J. title: Genetic information insecurity as state of the art date: 2020-07-10 words: 6461 flesch: 30 summary: Human genetic information is identifiable and contains sensitive information, but genetic data security is only recently gaining attention. Genetic data is generated in an evolving and distributed cyber-physical ecosystem, with multiple systems that handle data and multiple partners that utilize the data. keywords: access; adversarial; analysis; analytical; attacks; availability; available; bioinformatic; biological; capabilities; cloud; compromise; confidentiality; connected; controllers; controls; cyber; data; databases; devices; dissemination; dna; ecosystem; entities; et al; examples; fayans; firmware; genetic; genetic data; genetic information; genome; genomics; guide; hardware; health; human; illumina; inc; individuals; information; information ecosystem; information security; infrastructure; integrity; internal; laboratories; laboratory; level; local; material; measures; metadata; national; network; ney; nonsensitive; numerous; operating; originators; party; personal; personnel; phase; physical; platform; privacy; private; processes; providers; public; raw; relatives; requirements; research; researchers; resources; restricted; risk; samples; secure; security; sensitive; sensitive genetic; sensitive information; sequence; sequencing; services; signal; site; software; stakeholders; storage; systems; technology; threats; use; vendors; vulnerabilities; vulnerable cache: cord-103813-w2sb6h94.txt plain text: cord-103813-w2sb6h94.txt item: #268 of 647 id: cord-103830-pu6v53oy author: Pichon, Fabien title: Analysis and annotation of genome-wide DNA methylation patterns in two nonhuman primate species using the Infinium Human Methylation 450K and EPIC BeadChips date: 2020-05-10 words: 5444 flesch: 42 summary: For example, using different selection criteria for probes yielding reliable signals, 61% of human probes were mapped and annotated to the Macaca fascicularis genome and subsequently used to study the impact of birth weight on gene methylation and expression in Macaca fascicularis We thus chose to remove probes presenting a mismatch at 1 or 2 bp from the CpG from the Furthermore, using Pyrosequencing, which as a sequencing-by-synthesis method is not dependent on human probes but uses species-specific amplification and sequencing primers, we validated DNA methylation levels measured by the respective Infinium probes at three CpG positions in each species showing a high correlation between the two orthogonal technologies and validating our approach of selecting reliable probes (Figure 4 ). keywords: 450k; analysis; annotation; approach; beadchips; beta; chlorocebus; cpg; cpgs; data; density; diseases; distribution; dna; dna methylation; epic; feature; figure; files; functional; gene; genome; human; human genome; illumina; infinium; island; macaca; methylation; microarrays; mismatches; models; monkey; mulatta; non; nonhuman; number; position; primate; probes; regions; reliable; research; respective; results; rhesus; sabaeus; samples; sequences; simian; similar; sites; species; strong; studies; study; substitutions; supplementary; table; targeting; valid; valid probes; values; wide cache: cord-103830-pu6v53oy.txt plain text: cord-103830-pu6v53oy.txt item: #269 of 647 id: cord-103892-v6gkubd4 author: Mäkinen, Janne J. title: The mechanism of the nucleo-sugar selection by multi-subunit RNA polymerases date: 2020-07-01 words: 8488 flesch: 45 summary: 6-MI allowed the monitoring of RNAP translocation along the DNA following nucleotide incorporation (Supplementary Fig. 1a) . In contrast, the interaction of the conserved Arg with the 3'OH of the 2'dNTP substrates shapes their deoxyribose moiety into the catalytically inert 2'-endo conformation where the 3'OH cannot promote closure of the active site and substrate incorporation is additionally inhibited by the unfavorable geometry of the triphosphate moiety. keywords: 2'dgmp; 2'dgmp incorporation; 2'dntps; 3'oh; active; active site; addition; analysis; assay; binding; closure; coli; concentration; conformation; conserved; contrast; data; deoxyribose; dna; docking; edta; effects; experiments; fast; fig; fitting; fold; fraction; gel; geometry; group; gtp; incorporation; kcat; moiety; multi; nucleotide; nucleotide incorporation; overall; phase; polymerases; quench; rates; ray; reaction; residue; rnaps; scheme; selectivity; sequence; series; single; site; slow; structures; study; substrate; subunit; sugar; supplementary data; supplementary fig; supplementary table; table; tec; time; transcription; translocation; type; variant; wild; β'arg425; β'gln929; β'q929; β'r425k cache: cord-103892-v6gkubd4.txt plain text: cord-103892-v6gkubd4.txt item: #270 of 647 id: cord-104030-eb29t38n author: Morales-Nebreda, Luisa title: Aging imparts cell-autonomous dysfunction to regulatory T cells during recovery from influenza pneumonia date: 2020-06-05 words: 3970 flesch: 26 summary: Gene expression profiling of lung Treg cells during the recovery phase of influenza infection showed that young Treg cells significantly upregulated genes (when compared with aged Treg cells) linked to biologic processes associated with a robust pro-repair signature, including extracellular matrix organization, alveologenesis and vasculogenesis. Interestingly, we found no difference when comparing the suppressive phenotype of young versus aged Treg cells, suggesting that following influenza-induced lung injury, the reparative program of Treg cells is separable and distinct from their suppressive program. keywords: acute; adoptive; aged; aging; alveolar; analysis; animals; autonomous; cells; cytometry; data; dna; epigenetic; epithelial; expression; figure; flow; foxp3; function; gene; group; hosts; immune; impaired; increased; infection; inflammatory; influenza; injury; key; loss; lung; maladaptive; mechanisms; methylation; mice; microenvironment; mortality; mouse; novel; phase; pneumonia; post; pro; processes; programs; recovery; regulatory; repair; reparative; resolution; respiratory; response; results; rna; severe; single; supplemental; susceptibility; tissue; transcriptional; transfer; treg; viral; virus; young cache: cord-104030-eb29t38n.txt plain text: cord-104030-eb29t38n.txt item: #271 of 647 id: cord-104272-lczm1z5z author: Yusifov, Taleh N. title: Tear lipocalin is the major endonuclease in tears date: 2008-01-29 words: 4130 flesch: 51 summary: Human tear endonucleases are active at physiologic pH. Effects of pH on nuclease activity for the minor endonuclease (■) and TL (▲).The standard deviations of all points varied between 10%-15%. Tear endonucleases have unique characteristics that differ from other known human endonucleases. keywords: acid; active; activity; assay; chromatography; cleavage; concentration; dependent; different; dna; dnase; effect; electrophoresis; endonuclease; endonuclease activity; ends; enzymes; epithelium; extracellular; figure; fractions; gel; gels; hcl; human; hydrolysis; infection; kinase; lactoferrin; lane; lipocalin; major; minor; minor endonuclease; mode; nacl; nucleases; patients; peak; physiologic; plasmid; polyacrylamide; products; protein; puc19; range; sequence; silver; single; sources; tears; tris; turnover; viral; virus cache: cord-104272-lczm1z5z.txt plain text: cord-104272-lczm1z5z.txt item: #272 of 647 id: cord-104321-fpoztmcl author: Almasi, Mohammad Amin title: Loop Mediated Isothermal Amplification (LAMP) for Embryo Sex Determination in Pregnant Women at Eight Weeks of Pregnancy date: 2017 words: 3455 flesch: 36 summary: This robust assay is quick, sensitive and specific enough to be applied for gene detection. In conclusion, sex determination using detection of SRY gene by LAMP method in fresh human blood shows the smear and/or ladder band only in male blood samples, but not in female samples. keywords: amplification; arm; assay; blood; box; bromide; chromosome; color; detection; determination; dna; dye; gel; gene; green; high; hmg; human; isothermal; isothermal amplification; lamp; loop; male; methods; negative; novel; pcr; plasma; positive; pregnant; primers; products; rapid; reaction; red; region; results; reverse; samples; sex; specific; sry; stability; study; sybr; time; transcription; virus; visual; women cache: cord-104321-fpoztmcl.txt plain text: cord-104321-fpoztmcl.txt item: #273 of 647 id: cord-189561-jhvwozsn author: Chechetkin, Vladimr R. title: Combining Detection and Reconstruction of Periodic Motifs in Genomic Sequences with Transitional Genome Mapping date: 2020-10-14 words: 4190 flesch: 49 summary: Development and use of molecular markers: past and present Practical applications of DNA genotyping in diagnostic pathology Short tandem repeat expansions and RNA-mediated pathogenesis in myotonic dystrophy Advanced topics in forensic DNA typing: methodology Forensic use of Y-chromosome DNA: a general overview Satellites in the prokaryote world Gene prediction based on DNA spectral analysis: a literature review 10-11 bp periodicities in complete genomes reflect protein structure and DNA folding Coexistence of different base periodicities in prokaryotic genomes as related to DNA curvature, supercoiling, and transcription The 14-fold periodicity in alpha-tropomyosin and the interaction with actin Search of hidden periodicities in DNA sequences Hierarchical structure of cascade of primary and secondary periodicities in Fourier power spectrum of alphoid higher order repeats Periodic power spectrum with applications in detection of latent periodicities in DNA sequences Identification of CpG islands in DNA sequences using short-time Fourier transform Large-scale chromosome folding versus genomic DNA sequences: A discrete double Fourier transform technique Detection of large-scale noisy multi-periodic patterns with discrete double Fourier transform Detection of large-scale noisy multi-periodic patterns with discrete double Fourier transform. The study of correlation structures of DNA sequences: a critical review Study of statistical correlations in DNA sequences Repeats and correlations in human DNA sequences Information decomposition method to analyze symbolical sequences Order and correlations in genomic DNA sequences. keywords: analysis; capsid; comparison; complete; counterpart; cov; cov-2; detection; distribution; dna; dna sequences; fig; genome; genomic; genomic sequences; hidden; icosahedral; indels; lengths; method; molecular; mosaic; motifs; nucleotides; packaging; patterns; periodic; protein; quasi; random; random sequences; repeating; repeats; rna; s =; sars; satellite; sequences; step; step s; structure; study; tamgi; tandem; tobacco; transform; virus; viruses; words cache: cord-189561-jhvwozsn.txt plain text: cord-189561-jhvwozsn.txt item: #274 of 647 id: cord-193910-7p3f3znj author: Zhang, Xiangxie title: Comparing Machine Learning Algorithms with or without Feature Extraction for DNA Classification date: 2020-11-01 words: 7746 flesch: 59 summary: In the experiments, the performances of feature extraction using primers and random DNA sequences will be compared to several other machine learning approaches. Since 37 primers of HCV were acquired, we generated three groups of random DNA sequences, and each contains 37 DNA sequences. keywords: accuracy; algorithms; amino; best; character; classification; classifier; cnn; convolution; data; data sets; dataset; decision; different; diseases; distance; dna; dna sequences; experiments; extraction; extraction method; feature; feature extraction; feature vectors; forest; function; gram; hcv; hiv; human; hyperparameters; influenza; kernel; layer; learning; length; levenshtein; machine; machine learning; method; model; neural; output; paper; primers; probabilistic; process; random; random dna; results; samples; sars; section; sequences; set; sets; similar; string; svm; table; terminal; testing; time; training; tree; vectors; virus; viruses cache: cord-193910-7p3f3znj.txt plain text: cord-193910-7p3f3znj.txt item: #275 of 647 id: cord-252147-bvtchcbt author: Domingo-Espín, Joan title: Engineered Biological Entities for Drug Delivery and Gene Therapy: Protein Nanoparticles date: 2011-11-15 words: 17227 flesch: 30 summary: The main biological production systems for protein drugs are described below. Finally, some successful examples of protein nanoparticles on the market will be described in addition to protein products currently in clinical trials and under preclinical research in order to envision which type of protein nanoparticles will be available soon on the market. keywords: able; acids; active; activity; addition; administration; albumin; amino; antibodies; antibody; anticancer; antigen; applications; approaches; arginine; assembling; assembly; associated; bacterial; barrier; bbb; binding; biological; blood; bmc; brain; breast; cancer; capsid; carboxysomes; cargo; carriers; cases; cationic; cell; cellular; chain; characterization; charge; chemical; chimeric; clinical; coli; combination; complex; complexes; condensation; conjugate; control; cpp; degradation; delivery; delivery system; dependent; design; development; different; directed; diseases; dna; domain; drug; drug delivery; effects; efficient; endosomal; endosomes; engineering; enterica; entities; entry; enzymes; escape; evolution; examples; experiments; expression; factor; final; form; formation; fragment; functions; fusion; fusion protein; gene; gene delivery; gene therapy; gene transfer; genetic; growth; hand; hepatitis; high; human; immune; important; inclusion; increase; infected; insulin; interactions; internalization; key; large; ligands; like; like particles; localization; low; main; mammalian; market; mechanism; membrane; methods; mice; models; modification; modified; modular; modules; molecular; molecules; mouse; multifunctional; nanocarriers; nanoparticles; natural; necessary; new; nls; non; nonviral; novel; nuclear; nucleic; nucleus; number; order; organelles; packaging; papillomavirus; particles; pathways; pdu; penetrating; peptides; plasmid; polyhedral; polyomavirus; possible; potential; preclinical; present; process; production; products; propanediol; properties; protective; protein; protein nanoparticles; receptor; recognition; recombinant; research; response; rich; role; salmonella; scaffold; scale; selective; self; sequences; shell; short; signal; single; size; small; species; specific; specificity; stability; stable; step; strategies; structure; studies; surface; synthesis; synthetic; system; systemic; targeted; targeting; tat; techniques; terminal; therapeutic; therapy; tissue; toxicity; toxin; transcription; transduction; transfer; transferrin; translocation; transport; treatment; trials; tropism; tumor; type; typhimurium; uptake; use; vaccination; vaccines; vector; vehicles; viral; viral gene; virus; viruses; vivo; vlps; vp1; years cache: cord-252147-bvtchcbt.txt plain text: cord-252147-bvtchcbt.txt item: #276 of 647 id: cord-252198-gs52k4lq author: Onions, David title: Validation of the safety of MDCK cells as a substrate for the production of a cell-derived influenza vaccine date: 2010-09-30 words: 6601 flesch: 38 summary: The use of cell based vaccines has the potential to transform the strategies for prophylaxis of seasonal and pandemic influenza, but demonstrating the safety of these vaccines is an essential prerequisite. Since these experiments were conducted, Khan and colleagues have formulated a specific algorithmic approach for the exclusion of retroviruses in vaccine cell substrates keywords: adenoviruses; agents; analysis; animal; approach; article; assay; atcc; bpl; bps; canine; capacity; case; cells; chemical; control; culture; day; days; degenerate; detection; dna; dose; egg; eggs; end; final; growth; herpesviruses; high; human; inactivate; inactivation; induced; induction; infectious; influenza; intact; levels; line; log; manufacturing; mdck cells; mdck-33016pf; mdck-33016pf cells; medium; methods; mice; multiple; negative; neonatal; number; oncogenic; optaflu; pcr; pcrs; polyomaviruses; positive; potential; presence; present; process; processes; production; products; range; reaction; removal; residual; results; retroviruses; risk; safety; samples; seasonal; sequences; size; specific; steps; studies; test; time; treatment; tumors; uninduced; vaccine; viral; virus; viruses; â10 cache: cord-252198-gs52k4lq.txt plain text: cord-252198-gs52k4lq.txt item: #277 of 647 id: cord-252302-qi9dtaow author: Dutse, Sabo Wada title: Microfluidics-Based Lab-on-Chip Systems in DNA-Based Biosensing: An Overview date: 2011-05-27 words: 4285 flesch: 30 summary: Because microfluidic devices contain sensitive detection systems, the infusion of any fluids must be performed with the utmost care to prevent bubble formation within the channels or chambers. The concept was used to measure pressure differences in the microchannels and enable the realisation of a low-pressure manometer in microfluidic devices. keywords: acid; agents; analysis; applications; bacterial; binding; biological; biosensor; bubbles; cell; challenges; channels; chip; continuous; control; design; detection; device; diagnostic; different; diffusion; digital; dimensionless; dna; droplet; effects; electric; electrochemical; electrode; elegans; environmental; extraction; field; figure; flow; fluids; formation; gene; high; hybridisation; identification; integrated; interface; interfacial; lab; loc; locs; mechanics; methods; microchannels; microfluidic; mixing; monitoring; nanolitre; nucleic; number; pathogens; phase; physics; polymers; pressure; probe; rapid; ratio; reaction; research; sample; scale; sensitive; sensors; sequence; signal; silicon; single; small; soil; specific; substrate; surface; systems; technology; throughput; time; velocity; volumes cache: cord-252302-qi9dtaow.txt plain text: cord-252302-qi9dtaow.txt item: #278 of 647 id: cord-252536-gfx4cq03 author: Bieniossek, Christoph title: MultiBac: expanding the research toolbox for multiprotein complexes date: 2011-12-07 words: 7133 flesch: 36 summary: Protein complexes composed of many subunits carry out most essential processes in cells and, therefore, have become the focus of intense research. Notwithstanding, our molecular understanding of the very large number of protein complexes in the cell remains limited to a handful of examples for which detailed nearatomic structures are known. keywords: acceptors; addition; apc; applications; approaches; assembly; attachment; baculovirus; biology; box; cassettes; cells; cellular; cloning; coatomer; coli; complexes; construct; control; cre; crucial; cultures; delivery; different; dna; donors; efficient; encoding; entire; enzyme; essential; eukaryotic; example; expression; figure; function; fusion; gene; genome; head; heterologous; host; human; important; independent; infected; insect; interactions; isoforms; large; leptin; library; ligation; loxp; mammalian; mediator; module; molecular; molecules; multibac; multigene; multiprotein; particles; pdb; plasmid; polyprotein; present; production; promoter; protein; protein complexes; purification; quality; raav; ray; reaction; recent; recombinant; recombineering; replication; restriction; review; sequences; silkworm; single; site; small; specific; step; structural; studies; study; subunits; system; tandem; technologies; technology; therapy; tn7; transcription; use; vector; viral cache: cord-252536-gfx4cq03.txt plain text: cord-252536-gfx4cq03.txt item: #279 of 647 id: cord-252586-fuaoelgb author: Phillips, Sandra title: Alisporivir Inhibition of Hepatocyte Cyclophilins Reduces HBV Replication and Hepatitis B Surface Antigen Production date: 2014-10-08 words: 5540 flesch: 38 summary: The level of intracellular HBV DNA also was reduced by approximately 60% after 72 hours of treatment with 5 and 20 mg/mL of alisporivir (P < .01). Importantly, the Southern blot analysis of intracellular DNA supports the quantitative real-time PCR results outlined earlier because alisporivir reduced intracellular HBV DNA in a dose-dependent manner ( Figure 1E ). keywords: activity; alisporivir; alv; antigen; antiviral; cells; combination; concentrations; culture; cycle; cyclophilin; cypa; cypb; cypc; cypd; dependent; dna; effect; experiments; expression; figure; hbsag; hbv; hbv dna; hbv replication; hcv; heparg; hepatitis; hepatocytes; hepg2215; hepg2215 cells; host; hours; human; infected; infection; inhibition; inhibitors; intracellular; levels; life; medium; mmol; nim811; nucleocapsid; pcr; polymerase; present; protein; real; reduction; replication; secretion; silencing; sirna; study; supernatants; supplementary; telbivudine; time; transfection; treatment; virus cache: cord-252586-fuaoelgb.txt plain text: cord-252586-fuaoelgb.txt item: #280 of 647 id: cord-252838-av7ducrk author: Lucchi, Naomi W. title: Real-Time Fluorescence Loop Mediated Isothermal Amplification for the Diagnosis of Malaria date: 2010-10-29 words: 4917 flesch: 49 summary: The sensitivity and specificity of RealAmp method was calculated using both microscopy and a nested PCR assay We compared DNA obtained by the standard Qiagen method of DNA isolation and that obtained by direct heating for their performance in RealAmp method. keywords: addition; amplification; assay; buffer; clinical; control; cost; countries; data; detection; diagnosis; dna; endemic; falciparum; field; fluorescence; genus; heat; hrp-2; human; isothermal; loop; malaria; method; microscopy; minutes; molecular; nested; parasitemia; parasites; pcr; plasmodium; positive; primers; programs; rapid; reaction; realamp; realamp method; results; samples; scanner; sensitivity; settings; simple; species; specificity; studies; study; table; test; time; tools; tube; use; utility; vivax cache: cord-252838-av7ducrk.txt plain text: cord-252838-av7ducrk.txt item: #281 of 647 id: cord-252871-qfrpuy3t author: Nasir, Arshan title: Investigating the Concept and Origin of Viruses date: 2020-11-03 words: 5157 flesch: 39 summary: First, the subset of virus genes for which reliable homologs can be found is extremely small [48] . We propose a new definition of viruses that is not restricted to the presence or absence of any genetic or physical feature, detail a scenario for how viruses likely originated from ancient cells, and explain technical and conceptual biases that limit our understanding of virus evolution. keywords: absence; abundance; alignment; ancestor; ancient; archaea; bacteria; better; biological; capsid; cells; cellular; common; concept; conserved; core; definitions; dna; domain; eukaryotes; evolution; evolutionary; example; existence; feature; folds; genes; genetic; genomes; giant; global; homologs; host; infected; infection; large; life; likely; lineages; luca; mimivirus; modern; molecular; nature; new; organisms; origin; parasitic; physical; presence; propagation; properties; protein; questions; recent; rna; scenario; sequence; size; specific; structures; studies; tree; vesicles; views; viral; virion; viruses; world cache: cord-252871-qfrpuy3t.txt plain text: cord-252871-qfrpuy3t.txt item: #282 of 647 id: cord-253115-ekgdsv4f author: Mehta, Meenu title: Oligonucleotide therapy: An emerging focus area for drug delivery in chronic inflammatory respiratory diseases date: 2019-08-01 words: 7331 flesch: 32 summary: III: effects of chitosan-glutamate and carbomer on epithelial tight junctions in vitro Respiratory syncytial virus infection in Fischer 344 rats is attenuated by short interfering RNA against the RSV-NS1 gene Inhibition of respiratory syncytial virus infection with intranasal siRNA nanoparticles targeting the viral NS1 gene Pulmonary delivery of chitosan-DNA nanoparticles enhances the immunogenicity of a DNA vaccine encoding HLA-A*0201-restricted T-cell epitopes of Mycobacterium tuberculosis Naked siLNA-mediated gene silencing of lung bronchoepithelium EGFP expression after intravenous administration Chitosan Related Compositions and Methods for Delivery of Nucleic Acids and Oligonucleotides into a Cell Nasal delivery of chitosan-DNA plasmid expressing epitopes of respiratory syncytial virus (RSV) induces protective CTL responses in BALB/c mice Intranasal IFNgamma gene transfer protects BALB/c mice against respiratory syncytial virus infection Chitosan-DNA nanoparticles as gene carriers: synthesis, characterization and transfection efficiency Dendritic cell targeted chitosan nanoparticles for nasal DNA immunization against SARS CoV nucleocapsid protein Biodegradable polymeric nanocarriers for pulmonary drug delivery Poly(lactic acid)-poly(ethylene glycol) nanoparticles as new carriers for the delivery of plasmid DNA Design and gene delivery activity of modified polyethylenimines Characterization of commercially available and synthesized polyethylenimines for gene delivery PLGA-PEI nanoparticles for gene delivery to pulmonary epithelium Poly(amidoamine) dendrimer nanocarriers and their aerosol formulations for siRNA delivery to the lung epithelium Application of dendrimers for the treatment of infectious diseases Dendrimer nanocarriers for transport modulation across models of the pulmonary epithelium Synthesis and influenza virus inhibitory activities of carbosilane dendrimers peripherally functionalized with hemagglutinin-binding Peptide Dendrimer-inspired nanomaterials for the in vivo delivery of siRNA to lung vasculature Nanocarriers as pulmonary drug delivery systems to treat and to diagnose respiratory and non respiratory diseases In vitro/in vivo investigation on the potential of Pluronic(R) mixed micelles for pulmonary drug delivery Microencapsulated chitosan nanoparticles for lung protein delivery Sustained delivery by leucinemodified chitosan spray-dried respirable powders Attenuation of fibrosis in vitro and in vivo with SPARC siRNA Self-assembled micelle interfering RNA for effective and safe targeting of dysregulated genes in pulmonary fibrosis Characterization of polymeric micelles for pulmonary delivery of beclomethasone dipropionate Use of oligonucleotide microarrays for rapid detection and serotyping of acute respiratory disease-associated adenoviruses Use of an oligonucleotide array for laboratory diagnosis of bacteria responsible for acute upper respiratory infections A review of antisense therapeutic interventions for molecular biological targets in asthma Silencing of microRNAs in vivo with antagomirs Cellular uptake and intracellular trafficking of oligonucleotides Mepolizumab for severe eosinophilic asthma (DREAM): a multicentre, double-blind, placebo-controlled trial Infusion-related and hypersensitivity reactions of monoclonal antibodies used to treat colorectal cancer-identification, prevention, and management A randomised, open-label, parallel group phase 2 study of antisense oligonucleotide therapy in acromegaly An overview of the clinical application of antisense oligonucleotides for RNA-targeting therapies FDA-approved oligonucleotide therapies in 2017 Antisense technologies. Particles with 1-100 nm size range are termed as nanoparticles which have been newly employed in targeted drug delivery [38] . keywords: acid; act; activity; administration; agents; airway; antisense; approaches; asthma; cancer; cationic; causes; cells; cellular; chemical; chitosan; chronic; clinical; complex; cpg; degradation; delivery; dendrimers; dendritic; development; diseases; disorders; dna; drug; drug delivery; effective; effects; efficiency; epithelium; expression; fibrosis; formulation; gene; human; immune; improved; increased; inflammatory; interference; interfering; intranasal; intratracheal; intravenous; like; lipid; liposomes; lung; major; management; method; mice; micelles; models; molecules; mrna; mucoadhesive; naked; nanocarriers; nanoparticles; new; niosomes; non; novel; nucleic; oligodeoxynucleotides; oligonucleotides; peptide; plasmid; pmm; polymeric; potential; protein; pulmonary; receptor; release; resistance; respiratory; respiratory diseases; response; responsible; rnai; short; silencing; single; sirna; small; specific; stability; study; syncytial; synthesized; systems; targeted; targeting; targets; therapeutic; therapies; therapy; translation; transport; treatment; type; uptake; vectors; viral; virus; vitro; vivo cache: cord-253115-ekgdsv4f.txt plain text: cord-253115-ekgdsv4f.txt item: #283 of 647 id: cord-253295-82ydczid author: Funkhouser, William K. title: Pathology: the clinical description of human disease date: 2020-07-24 words: 8869 flesch: 30 summary: The Pathologist is that physician or clinical scientist who specializes in the art and science of medical risk estimation and disease diagnosis, using observations at the clinical, gross, body fluid, light microscopic, immunophenotypic, ultrastructural, cytogenetic, and molecular levels. As the human genome is deciphered, and as the complex interactions of cellular biochemistry are refined, risk of disease in unaffected individuals will be calculable, disease diagnosis will be increasingly accurate and prognostic, and molecular subsets of morphologically defined disease entities will be used to guide customized therapy for individual patients. keywords: abnormalities; abundance; accuracy; accurate; acid; anatomy; antibodies; antigen; approaches; aristotle; assays; bacteria; bce; benefit; binding; biology; blood; carcinoma; cause; cell; cellular; century; changes; chemical; chemistry; circa; clear; clinical; clinical disease; community; concepts; correlate; criteria; critical; current; data; deficiency; demonstration; description; detection; development; diagnosis; differences; different; differential; disease; dna; dyes; emphysema; etiologic; etiology; examination; example; features; fever; findings; fluid; follow; function; galen; genetic; genome; greek; gross; h&e; high; history; hla; human; hybridization; immunohistochemistry; improved; individuals; initial; instance; laboratories; laboratory; light; likely; lineage; liver; lung; malignant; medical; method; modern; molecular; molecules; morphologic; mutations; natural; neoplasms; new; non; normal; nucleic; observations; organ; outcome; particular; pathogenesis; pathologist; pathology; patient; physicians; physiology; portion; possible; prediction; primary; prior; prognosis; proteins; puerperal; radiographic; recognition; response; risk; rna; role; scientific; screening; sections; self; sequence; sequencing; set; signs; similar; single; small; specific; stains; structure; study; symptoms; technologies; technology; theory; therapy; thought; tissue; treatment; tumors; unaffected; understanding; uses; variables; variation; work; workup cache: cord-253295-82ydczid.txt plain text: cord-253295-82ydczid.txt item: #284 of 647 id: cord-253466-7gpije5d author: Netherton, Christopher title: A Guide to Viral Inclusions, Membrane Rearrangements, Factories, and Viroplasm Produced During Virus Replication date: 2007-08-31 words: 26447 flesch: 32 summary: Ultrastructural studies and sequential development of virus isolated from normal and tumor tissue Acidic C terminus of vaccinia virus DNAbinding protein interacts with ribonucleotide reductase Formation of DNA replication structures in herpes virus-infected cells requires a viral DNA binding protein Comparison of the intranuclear distributions of herpes simplex virus proteins involved in various viral functions Origin-independent plasmid replication occurs in vaccinia virus cytoplasmic factories and requires all five known poxvirus replication factors MHC I-dependent antigen presentation is inhibited by poliovirus protein 3A Autophagy in innate and adaptive immunity Poliovirus 3A protein limits interleukin-6 (IL-6), IL-8, and beta interferon secretion during viral infection Inhibition of cellular protein secretion by poliovirus proteins 2B and 3A Inhibition of endoplasmic reticulum-to-Golgi traffic by poliovirus protein 3A: These initially appear close to the nuclear envelope, possibly at sites where the genome first enters the nucleus following capsid disassembly at nuclear pores (Everett and Murray, 2005) , and are then seen throughout the nucleus (Everett et al., 2004) . keywords: 2bc; 3a protein; 3ab; accumulation; actin; activity; adenovirus; african; aggresomes; alphavirus; amino; analysis; antibodies; apparatus; arf1; arrays; asfv; assembly; associated; association; autophagosomes; autophagy; belov et; bfa; binding; block; bodies; c virus; capsid; capsid protein; cells; cellular; center; changes; characterization; choe et; class; coat; compartments; complex; complexes; components; consistent; contain; contents; copi; core; coxsackievirus; cytomegalovirus; cytopathic; cytoplasmic; cytoskeleton; dales; dense; dependent; diameter; different; disease; distinct; distribution; dna; dna replication; domains; double; dsdna; early; effects; electron; encode; encoding; endoplasmic; envelope; envelopment; ergic; essential; et al; everett; everett et; evidence; example; expression; factories; factory; family; fever; fever virus; fig; filamentous; flavivirus; fmdv; foci; formation; forms; frog; function; fv3; gef; gefs; gene; genome; globular; golgi; gtp; hcv; heath et; helicase; hepatitis; herpes; herpes simplex; herpesvirus; high; host; human; hydrophobic; icp0; icp4; icp8; identification; immature; important; inclusions; increase; infected; infected cells; infection; inhibited; inhibition; inhibits; initial; interactions; intermediate; intracellular; intranuclear; kda; kinase; knipe; large; late; layer; levels; like; likely; localization; loss; major; markers; material; matrix; mature; membrane; membrane protein; mhc; mhv; microscopy; microtubules; mitochondria; mns; moffat; mosaic; motor; movement; multiple; nd10; necessary; negative; negri; netherton et; network; new; nonstructural; ns3; ns4a; ns4b; nsp2; nsp5; nsps; nuclear; nucleus; observation; organization; origin; orthoreovirus; particles; pathway; perinuclear; periphery; picornavirus; plasma; pml; poliovirus; poliovirus replication; polymerase; polyprotein; positive; possible; poxvirus; presence; product; production; protease; protein; rabies; rdrp; rearrangements; recruitment; region; regulated; release; reovirus; replicase; replicase proteins; replication; replication compartments; replication complex; response; results; reticulum; rna; rna replication; role; rotavirus; secretion; secretory; sensitive; similar; simplex; simplex virus; sites; size; small; sns; specific; spherules; stages; strain; structures; studies; study; subcellular; suggesting; surface; swine; synthesis; szajner et; target; tegument; terminal; terminus; tgn; transcription; transport; type; ubiquitin; ultrastructural; unclear; vaccinia; vaccinia virus; vacuoles; vesicles; vimentin; viral; viral dna; viral membranes; viral proteins; virions; viroplasm; virus; virus assembly; virus dna; virus factories; virus infection; virus protein; virus replication; virus type; viruses; vitro; wessels et; work cache: cord-253466-7gpije5d.txt plain text: cord-253466-7gpije5d.txt item: #285 of 647 id: cord-253826-63dgq551 author: Kim, Jisung title: State of diagnosing infectious pathogens using colloidal nanomaterials date: 2017-08-17 words: 10498 flesch: 34 summary: A novel dengue virus detection method that couples DNAzyme and gold nanoparticle approaches MNAzymes, a versatile new class of nucleic acid enzymes that can function as biosensors and molecular switches A plasmonic DNAzyme strategy for point-ofcare genetic detection of infectious pathogens Terrylenediimide-based intrinsic theranostic nanomedicines with high photothermal conversion efficiency for photoacoustic imaging-guided cancer therapy Size-dependent Ag 2S nanodots for second near-infrared fluorescence/photoacoustics imaging and simultaneous photothermal therapy Diverse applications of nanomedicine Tuning the drug loading and release of DNA-assembled gold-nanorod superstructures Generating heat with metal nanoparticles Significantly improved analytical sensitivity of lateral flow immunoassays by using thermal contrast Thermal contrast amplification reader yielding 8-fold analytical improvement for disease detection with lateral flow assays Integrated quantum dot barcode smartphone optical device for wireless multiplexed diagnosis of infected patients A smartphone dongle for diagnosis of infectious diseases at the point of care Colloidal stability of gold nanoparticles modified with thiol compounds: bioconjugation and application in cancer cell imaging Diagnostic point-of-care tests in resource-limited settings Cheap HIV Test Finds Success as First of its Kind Tested in the Field Microfluidics-based diagnostics of infectious diseases in the developing world Nanotechnology and molecular cytogenetics: the future has not yet arrived Microscopic and macroscopic manipulation of gold nanorod and its hybrid nanostructures Nanomaterialbased electrochemical biosensors formedical applications Sensing colorimetric approaches based on gold and silver nanoparticles aggregation: chemical creativity behind the assay. Nucleic acid based detection can also be problematic because it requires a complex sample preparation step. keywords: absorption; acid; aggregation; amplification; analysis; analyte; analytical; antibiotic; antibody; antigen; antimicrobial; applications; assay; bacteria; barcodes; binding; biological; biomarkers; biosensors; capture; care; cells; clinical; colorimetric; complex; contrast; conventional; countries; current; detection; development; device; diagnostic; different; diseases; dna; dot; dots; effect; electrical; electrochemical; electron; elisa; emission; energy; enzyme; example; excitation; field; fig; flow; fluorescence; format; global; gnps; gold; graphene; heat; high; hybridization; ids; imaging; immobilized; immunoassay; infectious; instance; large; lateral; lfa; light; lod; magnetic; malaria; metal; method; microbeads; microfluidic; microscopy; mnps; molecular; molecules; mortality; multiple; multiplexed; nanodiagnostics; nanomaterials; nanoparticles; nanotechnology; nucleic; optical; oxide; pathogens; patient; pcr; peak; plasmon; poc; point; positive; presence; probes; process; properties; proteins; qds; quantitative; quantum; quenching; raman; range; rapid; ratio; readout; red; reporter; resistance; resonance; results; review; rna; sample; sandwich; self; sensitive; sensitivity; sers; settings; signal; silver; single; size; solution; specific; state; step; surface; system; target; target dna; technique; test; testing; thermal; time; treatment; use; virus; viruses; visible; wavelength; world cache: cord-253826-63dgq551.txt plain text: cord-253826-63dgq551.txt item: #286 of 647 id: cord-253894-4u5yt7b7 author: Senkevich, Tatiana G. title: Vaccinia virus F16 protein, a predicted catalytically inactive member of the prokaryotic serine recombinase superfamily, is targeted to nucleoli date: 2011-09-01 words: 6261 flesch: 37 summary: key: cord-253894-4u5yt7b7 authors: Senkevich, Tatiana G.; Koonin, Eugene V.; Moss, Bernard title: Vaccinia virus F16 protein, a predicted catalytically inactive member of the prokaryotic serine recombinase superfamily, is targeted to nucleoli date: 2011-09-01 journal: Virology DOI: 10.1016/j.virol.2011.06.017 sha: doc_id: 253894 cord_uid: 4u5yt7b7 The F16L gene of vaccinia virus (VACV) is conserved in all chordopoxviruses except avipoxviruses. The region of sequence conservation between F16 proteins and Ser recombinases encompasses the entire catalytic domain of the latter that consists of approximately 140 amino acids (Fig. 1) . keywords: 3xflag; acid; alexafluor; amino; anti; antibodies; antibody; c-1; catalytic; cells; cellular; chordopoxviruses; cmv; confluent; conservation; conserved; control; crv; culture; cytoplasmic; dna; domain; early; essential; et al; expression; f16; f16 protein; f16l; fig; function; gene; genome; hela; host; infected; infection; interactions; late; localization; membrane; monoclonal; moss; mouse; mutant; non; nuclear; nucleolar; nucleoli; nucleolus; plasmid; polyclonal; poxvirus; primary; promoter; protein; purified; rabbit; recombinases; replication; residues; rna; secondary; sequences; ser; serine; similarity; site; specific; staining; structure; synthesis; tag; targeting; terminal; vaccinia; vacv; viral; virus; viruses; vδf16 cache: cord-253894-4u5yt7b7.txt plain text: cord-253894-4u5yt7b7.txt item: #287 of 647 id: cord-254115-hwy962a4 author: Reslova, Nikol title: xMAP Technology: Applications in Detection of Pathogens date: 2017-01-25 words: 11370 flesch: 34 summary: The need for rapid and correct identifications of fungal pathogens was addressed by development of xMAP technology based detection methods (Diaz and Fell, 2004; Page and Kurtzman, 2005; Das et al., 2006; Bovers et al., 2007; Babady et al., 2011; Balada-Llasat et al., 2012; Farooqi et al., 2012; Landlinger et al., 2009) . xMAP technology is applicable in numerous nucleic acid assay formats such as, e.g., gene expression analysis, microRNA analysis, single nucleotide polymorphism (SNP) analysis or specific sequence detection. keywords: ability; acid; acute; addition; agents; allele; amplification; analysis; analyte; antibodies; antibody; antigens; applications; array; aspe; assay; authors; available; bacterial; base; bead; candida; capture; clinical; coli; commercial; common; comparison; complementary; complex; contrast; conventional; data; ddh; detection; detection probes; determination; developed; development; diagnosis; different; direct; diseases; dna; dunbar; elisa; end; enteric; et al; extension; figure; flow; fluorescent; formats; fungal; gastroenteritis; gastrointestinal; genotyping; gpp; green; high; house; hpv; human; hybridization; identification; immunoassays; important; infections; influenza; isolates; ligation; like; line; luminex; magnetic; mbmi; mbmna; methods; microsphere; mol; molecular; multiplex; multiplex detection; multiplex pcr; nucleic; number; oligonucleotide; panel; parasites; parasitic; pathogens; pcr; positive; potential; primer; probes; protein; qpcr; quantitative; range; rapid; reaction; reliable; reporter; respiratory; results; risk; routine; rvp; salmonella; samples; sbce; screening; sensitive; sensitivity; sequence; serological; sets; similar; simultaneous; simultaneous detection; single; snp; species; specific; specificity; step; studies; surface; suspension; swine; system; target; technology; testing; tests; throughput; time; types; universal; viral; viruses; xmap; xmap technology; xtag; yersinia cache: cord-254115-hwy962a4.txt plain text: cord-254115-hwy962a4.txt item: #288 of 647 id: cord-254527-zddwajzg author: Junter, Guy-Alain title: Polysaccharide-based chromatographic adsorbents for virus purification and viral clearance date: 2020-01-13 words: 16956 flesch: 36 summary: Since then, CEL sulfate beads have been extensively implemented as packing material for pAFC in a number of virus purification processes. Therefore, a number of virus purification processes have associated the two chromatographic processes that are complementary. keywords: adenovirus; adsorbers; adsorption; aec; afc; affinity; affinity chromatography; amine; animal; anion; antibodies; antibody; antiviral; applications; area; associated; baculovirus; beads; bed; benzonase; binding; biopharmaceutical; blood; buffer; capacity; capto; capture; cc700; cec; cell; cell culture; cellufine; cellulose; characterization; chromatography; chromatography purification; cla; clearance; clinical; coagulation; column; commercial; concentration; conditions; contaminants; continuous; conventional; core; cross; culture; deae; delivery; design; detergent; development; dextran; different; dna; downstream; ebac; effective; efficiency; elimination; elution; encephalitis; et al; exchange; exclusion; factor; fever; fig; filters; final; flow; free; gene; groups; healthcare; hepatitis; hic; high; higher; hpv; human; hydrophobic; iac; iav; immunogenicity; improved; impurities; inactivated; inactivation; infectious; influenza; influenza virus; interaction; investigated; japanese; large; level; ligand; like; linked; lrv; mab; manufacture; manufacturing; mas; materials; matrix; mdck; media; medium; membrane; membrane chromatography; metal; method; mmc; mode; monoliths; mvm; negative; new; note; number; packed; pafc; papillomavirus; particles; particular; performance; phase; phenyl; plasma; polishing; polymer; potential; presence; present; primary; procedures; process; processes; processing; produced; product; production; protein; pseudo; purification; purification process; purification step; purified; purity; recent; recombinant; recovered; recovery; regenerated; removal; residual; resin; respiratory; review; safety; salt; samples; sart; scale; scma; sec; section; separation; seph; shell; single; size; spiked; stationary; step; stic; strong; studies; sulfate; superdex; surface; table; technology; therapeutic; total; treatment; type; vaccine; vectors; vero; viii; viral; viral clearance; viral particles; virus; virus purification; virus removal; viruses; vlps; weak; works; xmlv; years; yield cache: cord-254527-zddwajzg.txt plain text: cord-254527-zddwajzg.txt item: #289 of 647 id: cord-254646-psolkrom author: Matsui, Mary S. title: Vitamin D Update date: 2020-10-14 words: 5121 flesch: 38 summary: The Role of Vitamin D as a Possible Modulator of Susceptibility, Morbidity, and Mortality in SARS-CoV-2 (COVID- 19) That vitamin D should play a role in COVID-19 is not unexpected, since there has been believed to be a link between vitamin D deficiency and respiratory disease for over 100 years. World Health Organization Sunlight and dietary contributions to the seasonal vitamin D status of cohorts of healthy postmenopausal women living at northerly latitudes: a major cause for concern? Vitamin D microencapsulation and fortification: trends and technologies How to get vitamin D from sunlight Sunscreen photoprotection and vitamin D status An important discussion of study protocol variables and their influence on policy Sub-optimal application of a high SPF sunscreen prevents epidermal DNA damage in vivo Optimal sunscreen use, during a sun holiday with a very high ultraviolet index, allows vitamin D synthesis without sunburn Kinetics of UV light-induced cyclobutane pyrimidine dimers in human skin in vivo: an immunohistochemical analysis of both epidermis and dermis Children sustain high levels of skin DNA photodamage, with a modest increase of serum 25-hydroxyvitamin D3, after a summer holiday in Northern Europe Global consensus recommendations on prevention and management of nutritional rickets Vitamin D and death by sunshine Protective effects of 1,25 dihydroxyvitamin D3 and its analogs on ultraviolet radiation-induced oxidative stress: a review Photoprotective properties of vitamin D and lumisterol hydroxyderivatives A systematic review of the influence of skin pigmentation on changes in the concentrations of vitamin D and 25-hydroxyvitamin D in plasma/serum following experimental UV irradiation Impact of solar ultraviolet B radiation (290-320 nm) on vitamin D synthesis in children with type IV and V skin Association of serum 25-hydroxyvitamin D with race/ethnicity and constitutive skin color in urban schoolchildren Melanin has a small inhibitory effect on cutaneous vitamin D synthesis: a comparison of extreme phenotypes Vitamin D(3) Supplementation reduces the symptoms of upper respiratory tract infection during winter training in vitamin D-insufficient taekwondo athletes: a randomized controlled trial Vitamin D deficiency contributes directly to the acute respiratory distress syndrome (ARDS) Vitamin D supplementation to prevent acute respiratory tract infections: systematic review and meta-analysis of individual participant data Evidence that vitamin D supplementation could reduce risk of influenza and COVID-19 infections and deaths COVID-19 and vitamin D-is there a link and an opportunity for intervention? Letter: Covid-19, and vitamin D Publisher's Note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations keywords: 25(oh)d; active; acute; asthma; bone; calcium; cancer; cells; children; color; concentrations; conditions; covid-19; damage; deficiency; dietary; disease; dna; dose; effect; evidence; exposure; foods; fortification; function; guidelines; health; high; human; hydroxyvitamin; immune; immunity; important; increase; innate; levels; low; melanin; multiple; optimal; patients; pigmentation; prevention; protection; radiation; rda; recent; recommendations; respiratory; response; review; rickets; risk; role; serum; significant; skin; status; studies; study; sun; sunburn; sunscreen; supplementation; supplements; susceptibility; synthesis; tract; ultraviolet; use; uva; uvb; uvr; vdr; vitamin; vitamin d; years cache: cord-254646-psolkrom.txt plain text: cord-254646-psolkrom.txt item: #290 of 647 id: cord-254942-g51mjj2b author: Touati, Rabeb title: New methodology for repetitive sequences identification in human X and Y chromosomes date: 2020-10-19 words: 7718 flesch: 49 summary: Two-thirds of the human genome consists of repetitive DNA sequences The identification of repetitive DNA sequences is taking greater and greater importance these days. keywords: algorithm; analysis; approach; chromosomes; classes; classification; cnn; coding; convolutional; corresponding; database; detection; different; dna; dna sequences; edge; efficient; elements; equal; example; existence; exonic; features; fig; frequency; gene; genome; human; human genome; image; input; intronic; layer; learning; length; level; localization; location; method; model; modified; ncbi; network; neural; new; new repetitive; number; pairs; patterns; position; processing; reference; region; repeat; repeat sequence; repetitive; repetitive dna; repetitive patterns; repetitive sequences; representation; result; rna; rseq7; scalogram; second; sequences; signal; size; system; table; tandem; technique; time; tools; wavelet; work cache: cord-254942-g51mjj2b.txt plain text: cord-254942-g51mjj2b.txt item: #291 of 647 id: cord-255043-uxdsjr39 author: Bustin, Stephen A. title: RT-qPCR Testing of SARS-CoV-2: A Primer date: 2020-04-24 words: 4563 flesch: 40 summary: Samples for PCR testing for COVID-19 are usually taken from inside the nose, the mouth or the back of the throat, and careful sampling and nucleic acid preparation are important pre-test considerations. For now, the Coronavirus standards working group (https://jimb.stanford.edu/covid-19-standards), led by the Joint Initiative for Metrology in Biology, is developing a set of guidelines to ensure the availability of common, appropriate standards, controls, validation tests and protocols that are essential for the accuracy of test results. keywords: amplification; assays; available; capacity; clinical; cov-2; covid-19; current; cycle; day; detection; diagnostic; different; dna; emergency; extraction; false; figure; fluorescence; gene; high; important; instruments; laboratories; method; min; negative; number; polymerase; polymerisation; primers; probe; process; protocols; qpcr; quantification; reaction; reagents; research; results; reverse; rna; run; samples; sars; single; specific; standards; step; systems; table; target; testing; tests; throughput; times; transcription; typical; use; validation; viral cache: cord-255043-uxdsjr39.txt plain text: cord-255043-uxdsjr39.txt item: #292 of 647 id: cord-255499-31xmue1g author: Bujarski, J.J. title: Recombination date: 2008-07-30 words: 4858 flesch: 37 summary: The involvement of host cell genes in RNA virus recombination has begun to get elucidated in several RNA viruses. Biochemically, the processes of DNA and RNA recombination are different reflecting the specifics of DNA versus RNA replication as well as their use inside the cell. keywords: bmv; choice; copy; coronavirus; crosses; crossing; crossovers; defective; dna; double; enterobacteria; enzyme; events; factor; figure; formation; fragments; frequency; general; genes; genetic; genome; genomic; high; homologous; host; likely; marker; mechanisms; model; molecular; molecules; mosaic; mutants; mutations; nonhomologous; observed; parental; phage; plant; positive; processes; proteins; recombinants; recombination; region; replicase; replication; reverse; rna; rna recombination; rna viruses; rna2; rna3; rnas; role; sequences; similarity; single; site; strand; switching; synthesis; systems; template; transcription; viral; virus; viruses cache: cord-255499-31xmue1g.txt plain text: cord-255499-31xmue1g.txt item: #293 of 647 id: cord-255536-x1z2o9gs author: Artusi, Sara title: The Herpes Simplex Virus-1 genome contains multiple clusters of repeated G-quadruplex: Implications for the antiviral activity of a G-quadruplex ligand date: 2015-04-03 words: 4832 flesch: 46 summary: G-quadruplexes occur in functionally important regions of the genome (Huppert, 2008; Neidle, 2010) : they have been identified in the promoters of a wide range of genes that are important in cell signaling (Balasubramanian et al., 2010; Duquette et al., 2004) , suggesting the possibility that G-quadruplexes behave as structural switches of cellular processes, therefore providing a basis for therapeutic intervention (Neidle and Parkinson, 2002; Zhang et al., 2014) . The Cooperative Study Group on Herpetic Esophagitis in HIV Infection A G-quadruplex-interactive potent small-molecule inhibitor of telomerase exhibiting in vitro and in vivo antitumor activity Selective interactions of cationic porphyrins with G-quadruplex structures Trisubstituted acridine derivatives as potent and selective telomerase inhibitors Anatomy of herpes simplex virus DNA: evidence for four populations of molecules that differ in the relative orientations of their long and short components Glycoprotein C of herpes simplex virus type 1 plays a principal role in the adsorption of virus to cells and in infectivity Genomic distribution and functional analyses of potential G-quadruplexforming sequences in Saccharomyces cerevisiae Four-stranded nucleic acids: structure, function and targeting of G-quadruplexes Current and future therapies for herpes simplex virus infections: mechanism of action and drug resistance Bcl-2 promoter sequence G-quadruplex interactions with three planar and non-planar cationic porphyrins: TMPyP4, TMPyP3, and TMPyP2 Sequence variant (CTAGGG)n in the human telomere favors a G-quadruplex structure containing a G.C.G.C tetrad Characterization of a herpes simplex virus sequence which binds a cellular protein as either a single-stranded or double-stranded DNA or RNA Analysis of the UL36 open reading frame encoding the large tegument protein (ICP1/2) of herpes simplex virus type 1 G-quadruplexes regulate Epstein-Barr virus-encoded nuclear antigen 1 mRNA translation Human telomeric G-quadruplex: the current status of telomeric Gquadruplexes as therapeutic targets in human cancer Telomere maintenance as a target for anticancer drug discovery Role for G-quadruplex RNA binding by Epstein-Barr virus nuclear antigen 1 in DNA replication and metaphase chromosome attachment High GC content of simple sequence repeats in Herpes simplex virus type 1 genome Human telomere, oncogenic promoter and 5 0 -UTR G-quadruplexes: diverse higher order DNA and RNA targets for cancer therapeutics Potent and selective inhibition of HIV-1 replication in vitro by a novel series of TIBO derivatives A dynamic G-quadruplex region regulates the HIV-1 long terminal repeat promoter Formation of a unique cluster of G-quadruplex structures in the HIV-1 Nef coding region: implications for antiviral activity Anti-HIV-1 activity of the G-quadruplex ligand BRACO-19 Human telomeric G-quadruplex: structures of DNA and RNA sequences DNA architecture: from G to Z Genome-wide prediction of G4 DNA as regulatory motifs: role in Escherichia coli global regulation Structure-based design of selective and potent G quadruplex-mediated telomerase inhibitors The yeast Pif1 helicase prevents genomic instability caused by G-quadruplex-forming CEB1 sequences in vivo Herpes Simplex Viruses Cellular proteins specifically bind single-and double-stranded DNA and RNA from the initiation site of a transcript that crosses the origin of DNA replication of herpes simplex virus 1 Formation of parallel four-stranded complexes by guanine-rich motifs in DNA and its implications for meiosis G-quadruplex DNA structures-variations on a theme Microtubule-mediated transport of incoming herpes simplex virus 1 capsids to the nucleus The SARS-unique domain (SUD) of SARS coronavirus contains two macrodomains that bind G-quadruplexes Antiviral agents for herpes simplex virus Genome-wide computational and expression analyses reveal G-quadruplex DNA motifs as conserved cis-regulatory elements in human and related species Circular dichroism and guanine quadruplexes Investigation of mRNA quadruplex formation in Escherichia coli G-quadruplex structures and their interaction diversity with ligands Supplementary data associated with this article can be found, in the online version, at http://dx.doi.org/10.1016/j.antiviral.2015.03. keywords: absence; activity; acv; addition; antiviral; braco-19; cells; clusters; coding; contrast; control; data; different; dna; early; effect; et al; fig; fold; folding; formation; forming; genome; gp054; h.p.i; herpes; hsv-1; human; infected; infection; lanes; ligand; long; non; observed; oligonucleotides; polymerase; presence; processing; protein; putative; qgrs; quadruplex; regions; repeats; replication; rich; rna; sequences; simplex; stability; structures; table; time; tmpyp2; transcription; treatment; un2; un3; viral; virus; work cache: cord-255536-x1z2o9gs.txt plain text: cord-255536-x1z2o9gs.txt item: #294 of 647 id: cord-256130-zhlvvuj4 author: Nordén, Rickard title: Quantification of Torque Teno Virus and Epstein-Barr Virus Is of Limited Value for Predicting the Net State of Immunosuppression After Lung Transplantation date: 2018-03-06 words: 4856 flesch: 42 summary: When Tacrolimus was the main immunosuppressive treatment, TTV DNA levels were significantly elevated 6–24 months after transplantation as compared with Cyclosporine treatment. To compare results regarding TTV levels between different transplantation centers, it is vital to reliably quantify the concentrations of TTV-DNA in a standardized manner. keywords: acid; acute; analysis; association; bacterial; bal; barr; blood; cells; clinical; cmv; comparison; complications; cyclosporine; ddpcr; detection; dna; dna levels; ebv; epstein; events; figure; fungal; group; human; immune; immunosuppression; infection; levels; load; log10; ltx; lung; mean; months; net; nph; nucleic; patients; pcr; period; plasma; post; quantification; real; regression; rejection; replication; results; samples; serum; single; state; studies; study; system; table; teno; therapy; time; torque; total; transplantation; treatment; ttv; viral; viremia; virus; vrti cache: cord-256130-zhlvvuj4.txt plain text: cord-256130-zhlvvuj4.txt item: #295 of 647 id: cord-256201-vjzfzshh author: Pereira-Gómez, Marianoel title: Effect of mismatch repair on the mutation rate of bacteriophage ϕX174 date: 2015-09-10 words: 6131 flesch: 46 summary: For DNA viruses, mutation rates range from 10 -8 m/n/r in double-stranded (ds) DNA viruses such as herpes virus to 10 -6 m/n/r in single-stranded (ss) DNA viruses such as bacteriophage /X174, whereas these rates range from 10 -6 to 10 -4 m/n/r in RNA viruses (Sanjuá n et al. 2010) . However, fidelity variants that are not lethal typically alter mutation rates only slightly (Pfeiffer and Kirkegaard 2003; Arias et al. 2008; Mené ndez-Arias 2009; Coffey et al. 2011; Graci et al. 2012) . keywords: /x174; addition; avoidance; bacteriophage; base; cells; coli; conditions; cuevas; dam; different; dna; dpni; dsdna; effects; efficiency; error; escherichia; evolution; evolutionary; fidelity; fig; form; gatc; genome; growth; high; higher; host; intergenic; mboi; methylated; methylation; mismatch; mmr; motifs; mutagenesis; mutants; mutation; mutation rate; non; nucleotide; number; pereira; phage; polymerase; presence; prone; rate; reduction; regions; repair; replication; restriction; results; rna; sanjuá; sequence; single; sites; size; spontaneous; standard; stress; substitutions; table; term; test; viral; virus; viruses cache: cord-256201-vjzfzshh.txt plain text: cord-256201-vjzfzshh.txt item: #296 of 647 id: cord-256278-jvfjf7aw author: Feng, Jie title: New method for comparing DNA primary sequences based on a discrimination measure date: 2010-10-21 words: 2868 flesch: 42 summary: Analysis of genomic sequences by chaos game representation Universal sequence map (USM) of arbitrary discrete sequences Computing distribution of scale independent motifs in biological sequences Biological sequences as pictures: a generic two dimensional solution for iterated maps A measure of similarity of sets of sequences not requiring sequence alignment Effectiveness of measures requiring and not requiring prior sequence alignment for estimating the dissimilarities of natural sequences Conflict among individual mitochondrial proteins in resolving the phylogeny of eutherian orders Exploration of phylogenetic data using a global sequence analysis method Shared information and program plagiarism detection Algorithmic clustering of music based on string compression Markov model plus k-word distributions: a synergy that produces novel statistical measures for sequence comparison Genomic signature: characterization and classification of species assessed by chaos game representation of sequences Detection and characterization of horizontal transfers in prokaryotes using genomic signature H curves, a novel method of representation of nucleotides series especially suited for long DNA sequences Characteristic sequences for DNA primary sequence Metrics for comparing regulatory sequences on the basis of pattern counts Chaos game representation of gene structure Chaos game representation for comparison of whole genomes A statistical method for alignment free comparison of regulatory sequences Dinucleotide relative abundance extremes: a genomic signature Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances Directed graphs of DNA sequences and their numerical characterization 2-D graphical representation of protein sequences and its application to coronavirus phylogeny An information based sequence distance and its application to whole mitochondrial genome phylogeny A 2D graphical representation of DNA sequence A relative similarity measure for the similarity analysis of DNA sequences Characteristic distribution of L-tuple for DNA primary sequence An extension of the Burrows-Wheeler transform Distance measures for biological sequences: some recent approaches A new graphical representation and analysis of DNA sequence structure A new sequence distance measure for phylogenetic tree construction Improved tools for biological sequence comparison Spectral distortion measures for biological sequence comparisons and database searching A probabilistic measure for alignment-free sequence comparison Evolutionary implications of microbial genome tetranucleotide frequency biases Whole proteome prokaryote phylogeny without sequence alignment: a K-string composition approach New 3D graphical representation of DNA sequence based on dual nucleotides On the similarty of DNA primary sequences On the characterization of DNA primary sequences by triplet of nucleic acid bases Novel 2-D graphical representation of DNA sequences and their numerical characterization Analysis of similarity/ dissimilarity of DNA sequences based on novel 2-D graphical representation Quantifying the speciesspecificity in genomic signatures, synonymous codon choice, amino acid usage and G +C content Statistical analysis of L-tuple frequencies in eubacteria and organells Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human Integrated gene and species phylogenies from unaligned whole genome protein sequences Application of tetranucleotide frequencies for the assignment of genomic fragments Alignment-free sequence comparison-a review The spectrum of genomic signatures: from dinucleotides to chaos game representation A measure of DNA sequence dissimilarity based on Mahalanobis distance between frequencies of words Statistical measures of DNA dissimilarity under Markov chain models of base composition The Burrows-Wheeler similarity distribution between biological sequences based on Burrows-Wheeler transform TN curve: a novel 3D graphical representation of DNA sequence based on trinucleotides and its applications The Z curve database: a graphic representation of genome sequences Coronavirus phylogeny based on a geometric approach We thank all the anonymous referees for their valuable suggestions and support. In the first group, researchers represent DNA sequence by curves (Hamori and Ruskin, 1983; Nandy, 1994; Randic et al., 2003a; Zhang et al., 2003; Liao, 2005; Li et al., 2006; Qi et al., 2007; Yu et al., 2009) , numerical sequences (He and Wang, 2002) , or matrices (Randic, 2000; Randic et al., 2001) . keywords: algorithm; alignment; analysis; biological; bàglobin; chaos; comparison; coronavirus; discrimination; dissimilarity; distance; distinguishes; dmðx; dna; et al; evolutionary; free; game; genomes; genomic; graphical; group; inequality; information; matrix; measure; method; new; number; phylogenetic; phylogeny; primary; representation; sequences; similarity; species; table; tree cache: cord-256278-jvfjf7aw.txt plain text: cord-256278-jvfjf7aw.txt item: #297 of 647 id: cord-256320-zocunore author: Liao, Bo title: Coronavirus phylogeny based on triplets of nucleic acids bases date: 2006-04-15 words: 1974 flesch: 69 summary: There are three class methods for the analysis of DNA sequences: (i) Alignment (iii) Graphical representation: Graphical representation of DNA sequence provides a simple way of viewing, sorting and comparing various gene structures. keywords: acids; amino; bases; code; dna; ffiffi; graphical; nucleotide; number; protein; representation; sequence; stop; triplets cache: cord-256320-zocunore.txt plain text: cord-256320-zocunore.txt item: #298 of 647 id: cord-257046-er5orx8s author: Ladekjær-Mikkelsen, A.-S title: Reproduction of postweaning multisystemic wasting syndrome (PMWS) in immunostimulated and non-immunostimulated 3-week-old piglets experimentally infected with porcine circovirus type 2 (PCV2) date: 2002-10-22 words: 6817 flesch: 43 summary: At this point, there were no differences in the distribution of PCV2 DNA between tissues originating from immunostimulated pigs compared to non-immunostimulated pigs. Differences in immunological status among herds and age of pigs at the time of PCV2 infection might still be part of the answer. keywords: affected; allan; antibodies; antigen; cells; circovirus; clinical; control; development; differences; disease; distribution; dna; et al; euthanized; experimental; gnotobiotic; group; high; immunostimulated; infected; infection; inoculated; lesions; levels; liver; load; lymph; lymphoid; mild; multisystemic; nodes; non; number; old; pcr; pcv1; pcv2; period; pid; pids; piglets; pigs; pk-15; pmws; pools; porcine; ppv; present; results; samples; serum; severe; signs; speci; spf; spleen; study; swine; syndrome; template; tissue; type; viral; virus; wasting; week cache: cord-257046-er5orx8s.txt plain text: cord-257046-er5orx8s.txt item: #299 of 647 id: cord-257284-dash9udv author: Decaro, Nicola title: Development and validation of a real-time PCR assay for specific and sensitive detection of canid herpesvirus 1 date: 2010-07-30 words: 3166 flesch: 38 summary: In real-time PCR CHV-1 was detected in the vaginal swab of the dam of pups 257/01-N and 257/01-T and in all the tissues of the three infected pups. For construction of CHV-1 standard DNA, the 136-bp fragment generated by the primers used for real-time PCR was cloned into a pCR ® 4-TOPO ® vector (TOPO TA Cloning ® Kit for Sequencing, Invitrogen srl, Milan, Italy) and propagated in chemically competent Escherichia coli one-shot TOP10 cells, following the manufacturer's instructions. keywords: analysis; assay; canine; chv-1; copies; coronavirus; curve; decaro; decaro et; detection; diagnosis; dilutions; dna; dogs; et al; field; fold; gene; herpesvirus; infected; infection; italy; kidney; negative; parvovirus; pcr; pcr assay; plasmid; polymerase; probe; pups; quantitation; range; reaction; real; samples; specific; standard; strains; taqman; template; time; time pcr; tissues; type; viral; viruses cache: cord-257284-dash9udv.txt plain text: cord-257284-dash9udv.txt item: #300 of 647 id: cord-257318-jejgkcql author: Jain, K.K. title: Synthetic Biology and Personalized Medicine date: 2012-08-16 words: 6097 flesch: 31 summary: Engineering life through synthetic biology Emerging biomedical applications of synthetic biology Drug discovery and delivery in the 21st century Textbook of Personalized Medicine The role of nanobiotechnology in the development of personalized medicine Role of biological therapies in the development of personalized medicine Creation of a bacterial cell controlled by a chemically synthesized genome The changing economics of DNA synthesis Synthetic biology: applications come of age Breaking the code of DNA binding specificity of TAL-type III effectors De novo designed proteins from a library of artificial sequences function in Escherichia coli and enable cell growth Smart medication through combination of synthetic biology and cell microencapsulation Systems medicine and metabolic modelling Metabolic engineering for the production of clinically important molecules: omega-3 fatty acids, artemisinin, and taxol Sequence-specificity and energy landscapes of DNA-binding molecules Mammalian synthetic biology -from tools to therapies Synthetic biology moving into the clinic Resistance to dietinduced obesity in mice with synthetic glyoxylate shunt Rational design of a small molecule-responsive intramer controlling transgene expression in mammalian cells Anti-Borrelia burgdorferi antibody profile in post-Lyme disease syndrome Black WC 4th: Genetic elimination of dengue vector mosquitoes Engineering antibiotic production and overcoming bacterial resistance Screens, maps & networks: from genome sequences to personalized medicine Therapeutic synthetic gene networks Compartmentalized reactions as a case of softmatter biotechnology: synthesis of proteins and nucleic acids inside lipid vesicles Synthetic cells and organelles: compartmentalization strategies Highly efficient reprogramming to pluripotency and directed differentiation of human cells with synthetic modified mRNA Synthetic reversal of epigenetic silencing Bioinspired materials for controlling stem cell fate Synthetic biology: impact on the design of innovative vaccines Structure-based design of peptides that self-assemble into regular polyhedral nanoparticles A nonadjuvanted polypeptide nanoparticle vaccine confers long-lasting protection against rodent malaria Antigen-expressing immunostimulatory liposomes as a genetically programmable synthetic vaccine Antigen identification starting from the genome: a 'Reverse Vaccinology' approach applied to MenB Vaxign: the first web-based vaccine design program for reverse vaccinology and applications for vaccine development Genomics and the continuum of cancer care Future prospects for the cure of brain cancer Presidential Commission for the Study of Bioethical Issues: The Ethics of Synthetic Biology and Emerging Technologies. Synthetic cells could include essential components for a personalized therapy and would be a cheaper and more effective tool for treatment. keywords: applications; approach; aptamer; artificial; assembly; bacteria; biological; biology; biotechnology; cancer; cells; circuits; clinical; code; coli; complex; construction; control; delivery; design; development; devices; discovery; diseases; disorders; dna; drug; e.g.; efficient; engineering; environment; expression; field; function; future; genes; genetic; genome; high; host; human; immune; impact; important; individual; information; living; manner; mechanisms; medicine; metabolic; methods; molecular; molecules; natural; networks; new; novel; pathways; personalized; personalized medicine; potential; process; production; products; programmed; properties; proteins; research; response; rna; sequence; sequencing; specific; specificity; strategies; study; synthesis; synthetic; synthetic biology; systems; target; technologies; therapeutic; therapies; therapy; tools; treatment; understanding; use; vaccine; vaxign cache: cord-257318-jejgkcql.txt plain text: cord-257318-jejgkcql.txt item: #301 of 647 id: cord-257802-vgizgq2y author: Uttamchandani, Mahesh title: Applications of microarrays in pathogen detection and biodefence date: 2008-11-12 words: 6576 flesch: 32 summary: [48] also developed protein microarrays for simultaneous diagnostics using parasitic and viral antigens. [49] monitored the antibody profiles of SARS patients using protein microarrays containing 82 purified coronavirus proteins. keywords: ability; able; accuracy; agents; analysis; antibodies; antibody; antigens; applications; biodefence; biological; capabilities; category; causes; cdc; clinical; colleagues; coronavirus; days; detection; development; diagnostics; disease; dna; environmental; example; figure; future; genetic; genome; greater; health; high; host; human; hybridization; identification; immobilized; impact; infection; influenza; laboratory; low; major; microarrays; molecular; multiplexed; non; novel; oligonucleotide; organisms; pathogen; pcr; peptide; pestis; platforms; potential; presence; present; probes; profiling; protein; proteome; public; rapid; related; research; resequencing; respiratory; response; result; samples; sars; screening; sensitivity; sequence; sera; small; species; specific; specificity; strains; systems; target; technology; threat; throughput; tiling; time; tularensis; unique; use; vaccine; vaccinia; viral; virulence; virus; viruses; wide; yersinia cache: cord-257802-vgizgq2y.txt plain text: cord-257802-vgizgq2y.txt item: #302 of 647 id: cord-258014-lzzi4rnz author: Chorna, Nataliya title: A Protocol for the Multi-Omic Integration of Cervical Microbiota and Urine Metabolomics to Understand Human Papillomavirus (HPV)-Driven Dysbiosis date: 2020-04-08 words: 6069 flesch: 42 summary: This article discloses detailed materials, methods, sample processing, and data analyses. Inject 1 µL of each sample including quality control samples in the GC-MS. keywords: 16s; additional; analysis; approaches; article; assay; associated; bacterial; cancer; care; centrifuge; cervical; cervicovaginal; community; control; data; derivatization; development; differences; different; disease; diversity; dna; filter; fragment; genital; glass; groups; health; high; host; hpv; human; hybridization; infections; information; integration; intensity; low; mass; metabolic; metabolites; metabolome; metabolomics; methods; microbial; microbiome; mimosa2; min; mix; model; multi; new; non; note; number; outliers; papillomavirus; pcr; peak; pool; protocol; quality; risk; role; rpm; sample; scaling; second; sequencing; solution; spin; statistical; step; studies; study; supernatant; systemic; table; temperature; tests; total; urine; use; useful; vacuum; vaginal; values; vials; vortex; women; −20 cache: cord-258014-lzzi4rnz.txt plain text: cord-258014-lzzi4rnz.txt item: #303 of 647 id: cord-258035-2tk7maqk author: DeFilippis, Victor title: Functional genomics in virology and antiviral drug discovery date: 2003-10-31 words: 4774 flesch: 35 summary: A special case of virus modulation of host cell gene expression in which functional genomics will reveal novel targets and treatments is viral oncogenesis. In addition, non-hypothesisdriven global gene expression profiling can reveal host cell genes that promote viral growth. keywords: addition; analysis; antisense; antiviral; approach; associated; cell; cellular; changes; complete; complex; cytomegalovirus; degradation; different; discovery; dna; drosophila; drug; endothelial; essential; expression; functional; gene; genome; genomics; global; hcmv; herpesvirus; host; human; identification; infected; infection; inhibition; interference; kaposi; kit; knockdown; kshv; laboratory; large; methods; microarrays; mrna; mutant; new; novel; pathways; patterns; potential; products; recent; replication; research; response; results; rna; rnai; sarcoma; scale; sequence; silencing; sirna; small; specific; strains; studies; study; systems; targets; transcriptional; transformation; type; viral; virology; virus; viruses; wild cache: cord-258035-2tk7maqk.txt plain text: cord-258035-2tk7maqk.txt item: #304 of 647 id: cord-258363-gmgbus9i author: Kolla, Venkatadri title: Synthesis of a bacteriophage MB78 late protein by novel ribosomal frameshifting() date: 2000-08-22 words: 4584 flesch: 57 summary: key: cord-258363-gmgbus9i authors: Kolla, Venkatadri; Chakravorty, Maharani; Pandey, Bindu; Srinivasula, Srinivasa M; Mukherjee, Annapurna; Litwack, Gerald title: Synthesis of a bacteriophage MB78 late protein by novel ribosomal frameshifting() date: 2000-08-22 journal: Gene DOI: 10.1016/s0378-1119(00)00264-x sha: doc_id: 258363 cord_uid: gmgbus9i MB78 is a virulent phage of Salmonella typhimurium that possesses a number of interesting features, making it a suitable organism to study the regulation of gene expression. between the 3∞ end of 16S rRNA and the mRNA during elongation of protein synthesis in Escherichia coli Biochemical characterization of the bacterio The authors are thankful to the Department of Biotechnology, Government of India, the University Grants Commission and the National Institutes of Health (NIH ) (to V.K ) for financial assistance and Dr. Ravikumar Rallapalli for discussion. keywords: analysis; bacterial; bacteriophage; base; buffer; cells; chakravorty; cloned; codon; coli; deletion; dna; dnas; ecori; end; et al; expression; fig; fragment; frameshifting; gene; kda; kda proteins; lane; mb78; medium; methionine; min; minicells; minimal; molecular; nucleotide; pcr; pet28a; phage; plasmid; presence; present; proteins; pseudoknot; reading; ribosomal; rna; salmonella; sds; sequence; sequencing; single; site; slippery; structure; synthesis; terminal; translation; virus cache: cord-258363-gmgbus9i.txt plain text: cord-258363-gmgbus9i.txt item: #305 of 647 id: cord-258623-9evwcs32 author: Roembke, Benjamin T. title: Nucleic acid detection using G-quadruplex amplification methodologies date: 2013-12-15 words: 4221 flesch: 59 summary: Originally applied to molecular beacon systems, nicking endonuclease signal amplification (NESA) is an efficient way to improve sensitivity in DNA detection [59] . Endonuclease amplified DNA detection using gold-immobilized DNA sensor [60] . keywords: acids; active; amplification; analytes; aptamer; beacon; binding; blocker; circular; detection; dna; dnazyme; electrode; enzyme; fig; gold; group; hemin; method; molecular; nucleic; peroxidase; peroxidation; presence; probe; quadruplex; rich; rna; sensitive; sequence; signal; split; ssdna; strategy; target; thrombin; turn; use; willner; workers cache: cord-258623-9evwcs32.txt plain text: cord-258623-9evwcs32.txt item: #306 of 647 id: cord-258665-8q3tsggm author: Aydın, Hakan Berk title: Pixelated colorimetric nucleic acid assay date: 2020-03-01 words: 4065 flesch: 39 summary: nanotechnologies Recent advances in micro/nanotechnologies for global control of hepatitis B infection Point-of-care nucleic acid testing for infectious diseases Diagnostics for developing countries Nucleic acid testing-benefits and constraints 3D capillary-driven paper-based sequential microfluidic device for electrochemical sensing applications Diagnostics for the developing world: microfluidic paper-based analytical devices Equipment-free detection of K+ on microfluidic paper-based analytical devices based on exhaustive replacement with ionic dye in ion-selective capillary sensors A fully disposable and integrated paper-based device for nucleic acid extraction, amplification and detection Single-step recombinase polymerase amplification assay based on a paper chip for simultaneous detection of multiple foodborne pathogens Ultrasensitive paper based nucleic acid detection realized by three-dimensional DNA-AuNPs network amplification Conjugated polyelectrolytes: synthesis, photophysics, and applications Optical detection of DNA and proteins with cationic polythiophenes Recent advances in fluorescent and colorimetric conjugated polymer-based biosensors Twisting of conjugated oligomers and polymers: case study of oligo-and polythiophene Colorimetric detection of DNA, small molecules, proteins, and ions using unmodified gold nanoparticles and conjugated polyelectrolytes Naked eye detection of lung cancer associated miRNA by paper based biosensing platform Tailoring conformation-induced chromism of polythiophene copolymers for nucleic acid assay at resource limited settings Multiplex paper-based colorimetric DNA sensor using pyrrolidinyl peptide nucleic acid-induced AgNPs aggregation for detecting MERS-CoV, MTB, and HPV oligonucleotides Flow-through colorimetric assay for detection of nucleic acids in plasma Luminescent device for the detection of oxidative stress biomarkers in artificial urine Smart phone assisted detection and quantification of cyanide in drinking water by paper based sensing platform Smartphone instrument for portable enzymelinked immunosorbent assays Smartphone spectrometer for colorimetric biosensing Smartphone-based food diagnostic technologies: a review Detection of hepatitis B virus DNA with a paper electrochemical sensor Flow-through colorimetric assay for detection of nucleic acids in plasma Clinical evaluation of micro-scale chip-based PCR system for rapid detection of hepatitis B virus Ultrasensitive paper based nucleic acid detection realized by three-dimensional DNA-AuNPs network amplification Hepatitis B plasmonic biosensor for the analysis of clinical serum samples Colorimetric detection of hepatitis B virus (HBV) DNA based on DNA-templated copper nanoclusters Gold aggregating gold: a novel nanoparticle biosensor approach for the direct quantification of hepatitis C virus RNA in clinical samples This work has been supported by the The Scientific and Technological Research Council of Turkey TUBİTAK Project no:116Z547. The obtained results illustrate that a ubiquitous smartphone can be utilized for colorimetric nucleic acids assays in complex matrices via the developed application that perform point of care without requiring sophisticated software nor instrumentation. keywords: acid; algorithm; analysis; application; approach; assay; biorgb; care; cartridge; colorimetric; colorimetric responses; concentration; control; cpe; detection; diagnosis; digital; dna; droplet; eye; fig; hbv; hbv dna; hepatitis; image; individual; intensity; interest; interpretation; membrane; naked; nucleic; optical; paper; pattern; phone; pixelated; pixels; plasma; pna; point; processing; pvdf; quantification; rapid; red; responses; sample; sequence; smart; smartphone; software; spots; step; target; times; values; yield cache: cord-258665-8q3tsggm.txt plain text: cord-258665-8q3tsggm.txt item: #307 of 647 id: cord-259412-l8uta7du author: Mattossovich, Rosanna title: O(6)-alkylguanine-DNA Alkyltransferases in Microbes Living on the Edge: From Stability to Applicability date: 2020-04-20 words: 7480 flesch: 37 summary: In modern biotechnology, engineered variants of AGTs are developed to be used as protein tags for the attachment of chemical ligands. Table 1 shows a brief comparison between some examples of protein tags and the SNAP-tag in several application fields. keywords: -alkylguanine; -bg; -methylguanine; -mg; acid; active; activity; agents; agts; alkylated; alkylation; alkyltransferase; analysis; applications; asl; assay; binding; biotechnological; bonds; cancer; catalytic; cells; characterized; chemotherapy; coli; conditions; covalent; cysteine; damage; data; degradation; different; dna; dna repair; domain; effects; enzymes; escherichia; expression; figure; fluorescent; form; furiosus; fusion; green; group; helix; high; hmgmt; human; hyperthermophilic; immobilization; important; interactions; interest; labelling; like; living; loop; mechanism; methyltransferase; molecular; motif; new; novel; oligonucleotides; organisms; pairs; path; possible; presence; protein; protein tag; pyrococcus; reaction; recognition; related; repair; residue; rna; role; site; small; snap; solfataricus; specific; ssogt; stability; structure; studies; substrate; surface; system; tag; tags; temperatures; terminal; thermal; thermophilic; thermostable; thermotoga; turn; use; vivo cache: cord-259412-l8uta7du.txt plain text: cord-259412-l8uta7du.txt item: #308 of 647 id: cord-259738-yuqc6dk0 author: Tang, Mengjun title: Enhancement of the immunogenicity of an infectious bronchitis virus DNA vaccine by a bicistronic plasmid encoding nucleocapsid protein and interleukin-2 date: 2008-03-07 words: 3851 flesch: 43 summary: These results demonstrated that bicistronic DNA vaccine is an effective approach to increase IBV DNA vaccine immunogenicity. These results demonstrated that bicistronic DNA vaccine is an effective approach to increase IBV DNA vaccine immunogenicity. keywords: antibody; antigen; bicistronic; blood; bronchitis; cd3; cd8; cells; challenge; chickens; control; day; dna; dsred; encoding; expression; gene; group; ibv; il-2; il2; immune; immunity; immunization; immunized; increase; infectious; interleukin-2; kidney; lymphocytes; monocistronic; nucleocapsid; pbs; pcr; pires; plasmid; positive; primer; protection; protein; recombinant; responses; results; samples; specific; total; vaccinated; vaccination; vaccine; vector; vero; virus cache: cord-259738-yuqc6dk0.txt plain text: cord-259738-yuqc6dk0.txt item: #309 of 647 id: cord-259748-x7dq1sy4 author: Wan, Dongshan title: Research Advances in How the cGAS-STING Pathway Controls the Cellular Inflammatory Response date: 2020-04-28 words: 14188 flesch: 26 summary: As innate immune cells, DCs have essential roles in antigen presentation, cytokine secretion, and priming the adaptive response of immune cells (176) . Subsequently, it was found that some DNA sensors can facilitate STING activation, such as interferon gamma inducible protein 16 (IFI16) (7) . keywords: accumulation; acid; activation; activity; adaptive; adaptor; addition; aim2; anti; antitumor; antiviral; apoptosis; apoptotic; autoimmune; autophagy; bacteria; binding; brain; cancer; capsid; caspase-1; cdns; cells; cellular; cgamp; cgas; chromatin; chronic; clinical; cns; complex; control; cyclic; cytoplasm; cytosolic; cytosolic dna; damage; dcs; death; deficiency; degradation; dendritic; dependent; differentiation; dimerization; disease; dmxaa; dna; domain; double; downstream; drugs; dsdna; dysfunction; effects; erythematosus; essential; example; expression; factor; family; figure; formation; function; genes; gmp; golgi; help; herpes; hiv; host; human; ifi16; ifn; ifnα; immune; immune cells; immune response; immunity; induces; induction; infection; inflammasome; inflammation; inflammatory; inhibition; inhibits; injury; innate; innate immune; interaction; interferon; interferonopathies; intracellular; intrinsic; irf3; kappab; kinase; ligand; like; local; long; loss; lung; lupus; macrophages; manner; mechanisms; membrane; mice; mita; mitochondrial; molecules; monocytes; monophosphate; motif; mouse; mtdna; myeloid; non; novel; nuclear; nucleic; nucleus; p62; pathway; patients; phase; phosphorylation; priming; produce; production; protein; receptor; recognition; recruitment; regulation; regulatory; related; release; repair; replication; response; responsible; reverse; rna; role; samhd1; savi; self; senescence; sensing; sensor; signaling; signals; simplex; site; sle; small; specific; stimulator; sting; sting pathway; stress; structure; studies; suppressor; surveillance; survival; synthase; systemic; t cells; tail; target; tbk1; therapeutic; therapy; trafficking; transcription; transfer; trex1; triggers; tuberculosis; tumor; type; vesicles; viral; virus; viruses cache: cord-259748-x7dq1sy4.txt plain text: cord-259748-x7dq1sy4.txt item: #310 of 647 id: cord-259929-02765q5j author: Stanley, Philip M. title: Decoding DNA data storage for investment date: 2020-09-28 words: 5981 flesch: 42 summary: key: cord-259929-02765q5j authors: Stanley, Philip M.; Strittmatter, Lisa M.; Vickers, Alice M.; Lee, Kevin C.K. title: Decoding DNA data storage for investment date: 2020-09-28 journal: Biotechnol Adv DOI: 10.1016/j.biotechadv.2020.107639 sha: doc_id: 259929 cord_uid: 02765q5j While DNA's perpetual role in biology and life science is well documented, its burgeoning digital applications are beginning to garner significant interest. We anticipate a significant increase in available investment capital and continuous scientific progress, creating a ripe environment on which DNA data storage-enabling startups can capitalize to bring DNA data storage into daily life. keywords: access; acid; addition; analysis; applications; approaches; base; biological; biology; capital; code; commercial; companies; copies; correction; current; data; data storage; density; developed; development; different; digital; dna; dna data; efforts; end; error; et al; example; field; figure; funding; high; higher; image; increase; industry; information; interest; intrinsic; investment; key; large; life; liquid; long; longer; market; medium; molecular; molecules; need; new; novel; nucleic; nucleotide; number; oligonucleotides; pcr; physical; potential; principle; process; progress; public; rates; read; reading; researchers; scale; science; sequence; sequencing; significant; silicon; solutions; space; speed; storage; strands; structure; synthesis; system; technologies; technology; time; use; venture; way; workflow; years cache: cord-259929-02765q5j.txt plain text: cord-259929-02765q5j.txt item: #311 of 647 id: cord-260042-cs0wp99n author: Khan, Samiullah title: Genes involved in mitochondrial biogenesis and function may not show synchronised responses to mitochondria in shell gland of laying chickens under infectious bronchitis virus challenge date: 2019-04-01 words: 6940 flesch: 41 summary: Similarly, increases in mitochondrial DNA (mtDNA) have been observed during myogenesis in rats [17] and in brown adipocytes of various mammals in response to low temperature [18] . Infectious bronchitis virus; mtDNA: mitochondrial DNA; Na + -K keywords: acid; activity; affected; age; analysis; atpase; australia; avian; biogenesis; birds; bronchitis; bronchitis virus; cells; challenge; chickens; coactivator; control; copy; count; data; different; division; dna; drp1; egg; eggs; epithelial; expression; extraction; fission; formation; function; genes; gland; groups; hens; higher; ibv; ibv t; infectious; isthmus; kit; level; lower; magnum; manufacturer; mean; membrane; mitochondrial; mtdna; muscle; nuclear; number; oviduct; pcr; pgc-1α; plasmid; point; production; protein; protocol; qpcr; quantitative; reaction; real; receptor; recombinant; related; relative; rna; role; rox; samples; sdha; segments; shell; shell formation; shell gland; significant; step; strain; study; sybr; table; time; tissue; total; transport; viral; virus; volume cache: cord-260042-cs0wp99n.txt plain text: cord-260042-cs0wp99n.txt item: #312 of 647 id: cord-260050-9ex70e1k author: Zhang, Y. Q. title: Inhibition of herpes simplex virus type 1 by small interfering RNA date: 2007-11-02 words: 2125 flesch: 44 summary: We found that siRNA-1, targeting HSV-1 VP16, and siRNA-4, targeting DNA polymerase, significantly inhibited HSV-1 replication. Therefore, HSV-1 VP16 and DNA polymerase may be effective target genes for inhibition of HSV-1 replication by RNAi. keywords: antiviral; assay; cells; china; dna; duplexes; effect; effective; expression; fig; genes; herpes; hsv‐1; human; infection; inhibition; interference; level; mrna; polymerase; prophylactic; replication; rnai; simplex; sirna; sirna-1; small; specific; study; targeting; therapeutic; transcription; transfection; type; vero; viral; virus; vp16 cache: cord-260050-9ex70e1k.txt plain text: cord-260050-9ex70e1k.txt item: #313 of 647 id: cord-260345-ugd8kkor author: Giles, Ian G. title: A compendium of reviews in biochemistry and molecular biology published in the first half of 1992 date: 1992-12-31 words: 5346 flesch: 43 summary: Biomembrane 24, 99-110. anion channel; contact sites; selective channels; brain mitochondria; lot] channci; conductance; protein; Ca*'; mitoplasts;CatiOllS. L. and Herzfeld J. (1992) NMR studies of retinal proteins. position effect variegation; Drarophila; protein. keywords: acetyl; acid; acta; activity; acute; affinity; amino; analysis; anion; anonymous; antibodies; antibody; antigen; b&hem; bacteria; base; binding; biochem; biochemistry; bioenerg; biological; biology; biomembrane; biophys; blood; bone; bovine; brain; calcium; cancer; cases; cells; chain; channel; chromatography; chronic; clinical; coa; coli; colipase; colony; compendium; complex; conductance; cycle; d.a; deficiency; delta; density; dependent; dietary; different; disease; dna; dynamics; electron; endothelial; energy; enzyme; escherichia; evidence; exchange; experimental; expression; factor; family; fatty; fluid; formation; free; function; gamma; gel; gene; genetic; glucose; glycobiology; golgi; growth; heat; high; hormone; human; immune; immunoassay; interleukin-1; j.l; journal; kinase; leukemia; levels; ligands; light; lipid; liquid; literature; liver; low; lymphocytes; mass; med; membrane; messenger; metabolism; mice; microbial; mitochondria; molecular; murine; muscle; necrosis; new; nuclear; nucleotide; nutritional; oligosaccharide; oncogene; outer; overview; oxidation; performance; phase; phosphorylation; plasma; plasmid; prog; protein; rat; reaction; reactive; receptor; recognition; reference; region; regulation; resonance; response; reticulum; retinal; review; rna; role; schiff; sequence; shock; sialic; signal; sites; skin; spectrometry; spectroscopy; stress; structure; syndrome; synthesis; system; terminal; tissue; transcriptional; transduction; transfer; transition; transport; trends; tumor; tymsine; yeast cache: cord-260345-ugd8kkor.txt plain text: cord-260345-ugd8kkor.txt item: #314 of 647 id: cord-260422-z22t57ju author: Godet, Julien title: Comparative nucleic acid chaperone properties of the nucleocapsid protein NCp7 and Tat protein of HIV-1 date: 2012-06-26 words: 9194 flesch: 29 summary: Later, a similar chaperone activity was shown for the HIV-1 NC protein (Darlix et al., 1990; De Rocquigny et al., 1992; Barat et al., 1993; Dib-Hajj et al., 1993; Lapadat-Tapolsky et al., 1993) . In sharp contrast to NCp7, multimerization of Gag or Gag-related proteins dramatically compromises reverse transcription since the cooperative binding and the slow dissociation rate of the multimerized Gag proteins impaired RT processivity (Wu et al., 2010) . keywords: ability; able; acid; acid chaperone; activities; activity; amino; analysis; annealing; basic; binding; chaperone; chaperone activity; chaperoning; cleavage; complementary; complex; conformations; conserved; core; critical; cruceanu et; ctar; darlix; destabilization; destabilizing; different; dna; domain; dynamics; efficient; elongation; et al; fig; folding; formation; function; gag; genome; genomic; godet; hepatitis; hiv-1; human; immunodeficiency; immunodeficiency virus; initiation; interactions; kinetics; likely; local; loop; lys,3; mechanism; molecules; mutants; native; ncp7; nucleic; nucleic acid; nucleocapsid; nucleocapsid protein; pathway; pbs; peptides; plus; presence; primer; properties; protein; rate; reaction; rearrangements; region; replication; residues; reverse; reverse transcription; rich; rna; rna chaperone; role; secondary; sequences; site; specific; stable; stem; strand; structure; synthesis; tar; tat; tat protein; tat(44; template; terminal; transcriptase; transcription; transfer; trna; type; viral; viral rna; virus; vitro; zfs; zinc cache: cord-260422-z22t57ju.txt plain text: cord-260422-z22t57ju.txt item: #315 of 647 id: cord-260653-5qwtvm9x author: Chikhlikar, Priya title: DNA Encoding an HIV-1 Gag/Human Lysosome-Associated Membrane Protein-1 Chimera Elicits a Broad Cellular and Humoral Immune Response in Rhesus Macaques date: 2006-12-27 words: 6151 flesch: 45 summary: The longevity of the immunological memory of B cells and CD8 + cells is also increased in animals immunized with LAMP/chimeras. The larger fraction of CD8 + T cells expressing IFN-c (.20%) following inoculation with recombinant vaccinia virus encoding Gag, in comparison with the proportion of tetramer positive cells, is attributed to the massive in vivo expansion of Gag-activated CD8 + T cells reactive against several other Gag MHC I epitopes, besides the immunodominant H-2Kd-AMQMLKETI peptide-tetramer epitope complex. keywords: antibodies; antibody; antigen; assay; boost; buffer; cd4; cd8; cell responses; cells; cellular; chimera; class; compartment; complex; control; days; dendritic; dna; elispot; encoding; epitopes; figure; gag; hiv; human; humoral; ifn; iga; igg; il-6; immune; immunization; immunized; immunodeficiency; lamp; lysosomal; lysosome; macaques; major; medium; membrane; mhc; mice; monoclonal; mouse; nasal; number; pbmcs; pbs; peptides; plasmid; plates; pools; prime; protection; protein; recombinant; repertoire; responses; rhesus; samples; sequence; serum; specific; strong; studies; study; targeted; targeting; terminal; times; titers; type; usa; vaccine; virus; washes; week cache: cord-260653-5qwtvm9x.txt plain text: cord-260653-5qwtvm9x.txt item: #316 of 647 id: cord-260705-huyyw5z6 author: Moshe, Adi title: Virus-Induced Aggregates in Infected Cells date: 2012-10-17 words: 5070 flesch: 35 summary: The role of aggregation in the context of a specific virus is often poorly understood, especially in the case of plant viruses. The same statement could be applied for virus-induced aggregation even though analogy between virus aggregates, JUNQ and/or IPOD has not been demonstrated. keywords: aggregates; aggregation; aggresomes; assembly; bodies; camv; case; cells; cellular; complexes; components; curl; cytoplasmic; defense; degradation; dependent; development; different; dna; example; expression; factories; figure; formation; gene; granules; heat; host; human; important; inclusions; infected; infection; known; large; leaf; leukemia; like; mammalian; mechanisms; membrane; microtubule; mosaic; movement; mtoc; nd10; nuclear; nucleus; particles; pathway; pbs; plant; pml; proteins; rdr6; replication; resistant; response; rna; role; sgs3; silencing; sites; size; small; storage; stress; structures; tobacco; tomato; translation; tylcv; viral; virus; viruses; yellow cache: cord-260705-huyyw5z6.txt plain text: cord-260705-huyyw5z6.txt item: #317 of 647 id: cord-261028-sxux2ujo author: Vatner, Ralph E. title: STING, DCs and the link between innate and adaptive tumor immunity date: 2017-12-20 words: 10032 flesch: 30 summary: A recent study by this group explored the mechanistic underpinnings of why a single larger fraction of 20 Gy of radiation is not as effective as three fractions of 8 Gy, and found that both treatments resulted in transport of dsDNA to the cytosol of tumor cells where it was sensed by cGAS, which activated STING and type I IFN transcription (Vanpouille-Box et al., 2017) . Normally intracellular and out of the reach of DCs under physiological conditions, these DAMPs serve as a danger signal when released into the extracellular milieu by stressed or dying cancer cells. keywords: activation; adaptive; addition; agents; antigens; antitumor; associated; blockade; breast; cancer; capacity; cd103; cd11b; cd172; cd8; cdc1; cdc2; cells; cellular; cgamp; cgas; chemotherapy; clinical; complex; context; control; cross; cytokines; cytosolic; damage; damps; dcs; death; dendritic; dendritic cells; dependent; development; different; dna; dose; effective; effects; endogenous; endosomal; escape; essential; et al; expression; factor; family; function; genes; gmp; growth; human; ifn; ifns; immune; immune response; immunity; immunotherapy; important; induction; infection; inflammation; inflammatory; innate; interferon; intracellular; levels; like; link; local; lymphoid; maturation; mechanism; melanoma; membrane; metastatic; mhci; mice; microenvironment; models; molecules; mouse; myeloid; pathogen; pathway; patients; peptide; phenotype; plasmacytoid; populations; presentation; priming; process; processing; production; proteins; radiation; radiotherapy; receptors; recognition; regulatory; response; results; rna; role; sensing; sensors; signaling; signals; skin; specific; stimulatory; sting; studies; subsets; system; t cells; tidcs; tissue; tolerance; transcription; treatment; trials; tumor; tumor immunity; type; xcr1 cache: cord-261028-sxux2ujo.txt plain text: cord-261028-sxux2ujo.txt item: #318 of 647 id: cord-261134-zarq507s author: Pulford, David title: Amplification refractory mutation system PCR assays for the detection of variola and Orthopoxvirus date: 2004-02-13 words: 3803 flesch: 40 summary: When a variola virus specific primer was used with a consensus primer in an ARMS assay with different Orthopoxvirus genomes, a PCR product was only amplified from variola virus DNA. Incorporating a second consensus primer into the assay produced a multiplex PCR that provided Orthopoxvirus generic and variola-specific products with variola virus DNA. keywords: a13l; a36r; amplicons; amplification; analysis; arms; assays; base; camelpox; clinical; consensus; control; cowpox; dna; et al; fig; genes; genetic; genomes; genomic; identification; isolates; lane; minor; monkeypox; multiplex; mutation; orthopoxvirus; panel; pcr; polymerase; polymorphisms; prepared; primer; product; pulford; reaction; rflp; samples; sequence; shchelkunov; single; smallpox; species; specific; specificity; strains; table; vaccinia; variola; virus; viruses; world cache: cord-261134-zarq507s.txt plain text: cord-261134-zarq507s.txt item: #319 of 647 id: cord-261417-4pf5nsw2 author: Harwig, Alex title: The Battle of RNA Synthesis: Virus versus Host date: 2017-10-21 words: 7878 flesch: 47 summary: For this reason, RNA viruses have evolved capping mechanisms that are different from capping during cellular transcription. Genetic conflicts: The usual suspects and beyond Paleovirology-Modern consequences of ancient viruses Co-option of an endogenous retrovirus envelope for host defense in hominid ancestors Evolutionary genomics of nucleo-cytoplasmic large DNA viruses Viral-encoded enzymes that target host chromatin functions Retroviral micrornas Mechanisms of HIV-1 control Virus meets host microrna: The destroyer, the booster, the hijacker DNA-binding specificities of human transcription factors Sensing of RNA viruses: A review of innate immune receptors involved in recognizing RNA virus invasion Rna function. keywords: 7sk; active; activity; barr; base; binding; box; cap; capping; cells; cellular; complex; control; ctd; cyct1; degradation; dependent; different; dna; domain; eber2; ebv; elongation; end; epstein; essential; expression; factor; figure; flupol; form; gene; general; genome; herpesvirus; hexim1; host; human; immunodeficiency; influenza; initiation; mechanisms; mrna; nascent; nascent rna; negative; noncoding; nucleus; pathways; pause; pausing; pax5; polymerase; position; promoter; protein; proximal; rdrp; recruitment; region; regulation; release; repeat; replication; respiratory; rna; rna polymerase; rna synthesis; rnapii; rnas; sequence; ser5; shutoff; site; small; snrnp; ssrna; stage; start; strand; structure; subunit; syncytial; synthesis; tar; tat; tata; tefb; template; terminal; termination; tfiih; transcription; transcripts; type; viral; virus; viruses; vrna cache: cord-261417-4pf5nsw2.txt plain text: cord-261417-4pf5nsw2.txt item: #320 of 647 id: cord-262353-iips79vo author: Veltkamp, Henk-Willem title: Disposable DNA Amplification Chips with Integrated Low-Cost Heaters † date: 2020-02-25 words: 9619 flesch: 53 summary: Using amplification reactions which such low reaction temperatures could encounter problems at warmer locations. The integrated resistive heaters on the chips were characterized and showed a temperature stability of ±2 • C over a time period of 25 h, which is at least twelve-fold longer than the required operating times for DNA amplification reactions [6, [8] keywords: acid; amplification; amplification reaction; analysis; area; assured; bath; chamber; chip; coc; control; current; cyclic; denaturation; deposition; detection; device; different; diseases; dna; dna amplification; double; dye; early; equation; evagreen; example; fabrication; figure; film; fluorescence; foil; future; grade; heater; heating; hexamer; inlet; input; integrated; isothermal; lab; lamp; large; layer; linear; livestock; loop; low; material; mda; measured; measurements; metal; method; microfluidic; milling; min; mixture; optical; outlet; pcr; polymerase; possible; potential; power; present; principle; production; proof; range; reaction; reaction chamber; real; required; resistance; resistive; resistor; results; review; rna; roughness; sequence; shadow; specific; ssdna; stage; step; strain; structure; substrate; suitable; surface; system; table; tcr; technique; temperature; thermal; thermocouple; thin; time; transfer; usa; use; values; water; width; zoonoses cache: cord-262353-iips79vo.txt plain text: cord-262353-iips79vo.txt item: #321 of 647 id: cord-262660-t1ndfn2l author: Hass, Kenneth N. title: Integrated Micropillar Polydimethylsiloxane Accurate CRISPR Detection System for Viral DNA Sensing date: 2020-10-13 words: 5225 flesch: 46 summary: 32, 33 One of the main advantages of the IMPACT chip compared to traditional CRISPR assays is its ability to limit the background caused by dye-quencher probes, which is typically seen in CRISPR detection in the liquid state and needs to be designed around to lower the detection limit. Therefore, we used 3 h incubation to prepare the IMPACT chip for solid phase CRISPR detection. keywords: ability; accurate; acid; addition; african; amplification; aptes; asfv; aspect; assay; background; binding; capacity; care; cas12a; channel; chip; complex; coronavirus; crispr; crispr detection; crrna; detection; device; diagnostics; dna; dye; fever; figure; flat; fluorescence; high; impact; impact chip; increase; incubation; integrated; intensity; light; limit; low; microfluidic; micropillar; min; modification; nucleic; pathogen; pcr; pdms; phase; polydimethylsiloxane; probe; quencher; ratio; reaction; reporter; sample; signal; silicon; single; solid; solution; streptavidin; surface; swine; system; target; test; time; treatment; viral; virus; water cache: cord-262660-t1ndfn2l.txt plain text: cord-262660-t1ndfn2l.txt item: #322 of 647 id: cord-262733-icnkx1rx author: Daneluz, Larissa O. title: Efficiency and cell viability implications using tip type electroporation in zebrafish sperm cells date: 2020-07-13 words: 4973 flesch: 42 summary: Overall results indicate that tip type electroporation enhances the internalization of exogenous DNA into zebrafish sperm cells with minimal harmful effects to sperm cells. This technique is based on the ability of sperm cells to spontaneously bind exogenous DNA and transport it into an oocyte during fertilization [2] . keywords: bovine; capillary; cells; concentration; control; cuvette; cytometry; different; dna; effects; efficiency; electroporation; exogenous; field; fig; flow; fluorescence; functionality; gene; groups; high; higher; increase; integrity; ions; membrane; method; minimal; mitochondrial; motility; negative; number; parameters; percentage; plasma; present; progressive; rate; reactive; reduced; results; ros; samples; similar; smgt; species; sperm; sperm cells; spermatozoa; studies; study; system; tip; tip type; total; transfection; transfer; transgenic; type; type electroporation; uptake; usa; use; velocity; viability; voltages; zebrafish cache: cord-262733-icnkx1rx.txt plain text: cord-262733-icnkx1rx.txt item: #323 of 647 id: cord-262870-r3w44mg0 author: Duval, R.-E. title: Interest of designed cyclodextrin-tools in gene delivery date: 2012-11-30 words: 3770 flesch: 36 summary: In this account, we have summarized our recent achievements on chemical, analytical and biological strategies for designing cyclodextrin tools as efficient gene delivery systems. Finally, we present the different biological methods that can be used, in vitro, to study gene delivery, and more precisely ones we have performed to evaluate the capability of our original model bis-guanidinium-tetrakis-β-cyclodextrin dendrimeric tetrapod, to deliver efficiently DNA or siRNA in eukaryotic cells. keywords: account; assay; association; binding; biological; capillary; carriers; cationic; cells; cellular; complexation; complexes; concentration; constant; cyclodextrin; cyd; cyds; delivery; derivatives; design; determination; different; dna; efficient; electrophoresis; fig; fluorescence; gene; gene delivery; guest; high; interactions; methods; mobility; model; molecular; molecules; new; nonviral; odn; oligonucleotide; original; polymers; possible; present; rapid; recent; simple; sirna; strand; strategy; study; supramolecular; synthesis; systems; tetrapod; time; transfection; transfer; use; vector; viability cache: cord-262870-r3w44mg0.txt plain text: cord-262870-r3w44mg0.txt item: #324 of 647 id: cord-263134-0p4zy5t2 author: de Paz, Hector David title: Molecular isothermal techniques for combating infectious diseases: towards low-cost point-of-care diagnostics date: 2014-07-23 words: 6478 flesch: 30 summary: An integrated system combining RNA purification (previously extracted from bacteria), NASBA and amplification detection This review describes the state-ofthe-art and new directions in the development of isothermal amplification technologies for diagnosis of infectious diseases with particular focus on those susceptible to be integrated in inexpensive molecular POC tests. keywords: acid; addition; amplification; analytical; applications; assay; assured; available; care; chip; circle; complex; copies; cost; countries; denaturation; dependent; design; detection; development; device; diagnostic; different; diseases; diverse; dna; equipment; expensive; extraction; figure; flow; free; gonorrhoeae; hda; helicase; high; human; ican; infectious; integrated; integration; isothermal; isothermal amplification; kit; laboratories; lamp; loop; low; malaria; market; method; microfluidic; min; molecular; nasba; near; need; new; nicking; nucleic; nucleotide; pathogens; pcr; poc; point; polymerase; primers; process; products; rapid; raw; rca; reaction; real; recombinase; results; reverse; rna; rpa; salmonella; sample; sda; sensitive; sensitivity; sequence; single; smap2; specific; strand; system; table; target; techniques; technologies; technology; tests; time; transcription; use; virus; way cache: cord-263134-0p4zy5t2.txt plain text: cord-263134-0p4zy5t2.txt item: #325 of 647 id: cord-263282-a7emso89 author: Coghlan, Megan L. title: Egg forensics: An appraisal of DNA sequencing to assist in species identification of illegally smuggled eggs date: 2011-07-07 words: 4873 flesch: 43 summary: In wildlife forensics, DNA species identification is commonly carried out by amplifying and sequencing fragments of the mitochondrial DNA (mtDNA) genes cytochrome oxidase I (COI), cytochrome b (Cytb), or 12S ribosomal RNA (12S) This in itself presents a challenging task of sourcing adequate reference material, with provenance, for each species to build a comprehensive and robust DNA database in which to facilitate the process of DNA species identification. keywords: 12s; ability; accurate; analysis; australia; available; avian; barcoding; birds; bold; cockatoo; coi; concern; conservation; criteria; cut; cytb; cytochrome; database; difficult; disease; dna; eggs; eggshell; family; forensic; genbank; genes; genetic; identification; identity; illegal; international; intra; level; material; min; mitochondrial; mtdna; native; new; number; parrots; pcr; primer; psittaciformes; reference; review; samples; sequence; similarity; small; species; species identification; study; table; task; taxonomic; trade; trafficking; use; variation; wildlife cache: cord-263282-a7emso89.txt plain text: cord-263282-a7emso89.txt item: #326 of 647 id: cord-263570-6notzm6s author: Elia, Gabriella title: Detection of infectious canine parvovirus type 2 by mRNA real-time RT-PCR date: 2007-08-10 words: 3997 flesch: 45 summary: A sensitive one-step real-time PCR for detection of avian influenza viruses using a MGB probe and an internal positive control Antibody levels and protection to canine parvovirus type 2 Detection of canine distemper virus in dogs by real-time RT-PCR Different patterns of restriction to B19 parvovirus replication in human blast cell lines Comparison of isolates of canine parvovirus by monoclonal antibody and restriction-enzyme analysis Sensitive detection of canine parvovirus DNA by the nested polymerase chain reaction Defective viral genomes The natural host range shift and subsequent evolution of canine parvovirus resulted from virus-specific binding to the canine transferring receptor An enteric disease of dogs resembling feline panleukopenia Isolation and genetic characterization of two G3P5A[3] canine rotavirus strains in Italy Antigenic and genomic variabilities among recently prevalent parvoviruses of canine and feline origin in Japan Comparison of polymerase chain reaction with virus isolation and haemagglutination assays for the detection of canine parvoviruses in faecal specimens A novel antigenic variant of canine parvovirus from a Vietnamese dog Canine and feline parvoviruses can use human or feline transferrin receptors to bind, enter, and infect cells Antigenic relationships between canine parvovirus type 2, feline panleukopenia virus and mink enteritis virus using conventional antisera and monoclonal antibodies RNA extraction from mammalian tissues Molecular characterisation of canine parvovirus in Brazil by polymerase chain reaction assay Antigenic characterization of canine parvovirus strains isolated in Italy A simple touch-down polymerase chain reaction for the detection of canine parvovirus and feline panleukopenia virus in feces Detection by PCR of wild-type canine parvovirus which contaminates dog vaccines Persistence of human parvovirus B19 in human tissues A case report Identification of types of canine parvovirus circulating in Spain Maternally derived antibodies in pups and protection from canine parvovirus infection Virological and molecular characterization of a type 3 mammalian reovirus strain isolated from a dog with diarrhea in Italy A real-time PCR assay for rapid detection and quantitation of canine parvovirus type 2 DNA in the feces of dogs Genotyping-specific fluorogenic RT-PCR assays for the detection and quantitation of canine coronavirus type I and II RNA in faecal samples of dogs Infectious canine hepatitis: an old disease reemerging in Italy Characterisation of the canine parvovirus type 2 variants using minor groove binder probe technology First detection of canine parvovirus type 2c in pups with haemorrhagic enteritis in Spain Tissue distribution of the antigenic variants of canine parvovirus type 2 in dogs Canine parvovirus infection: which diagnostic test for virus? keywords: amplification; antigenic; assay; canine; cells; chain; copies; cpv-2b; decaro; decaro et; detection; different; distribution; dna; dogs; elia; et al; feline; high; human; infected; infection; italy; kit; linear; loads; milan; min; mrna; nervous; ns2; p.i; parvovirus; pcr; permissive; polymerase; primers; probe; range; reaction; real; replication; samples; sequence; specific; spliced; standard; study; system; table; taqman; template; time; tissues; titres; transcripts; type; viral cache: cord-263570-6notzm6s.txt plain text: cord-263570-6notzm6s.txt item: #327 of 647 id: cord-264456-wjpc6zgq author: Bütepage, Mareike title: Intracellular Mono-ADP-Ribosylation in Signaling and Disease date: 2015-09-25 words: 10352 flesch: 42 summary: The histone deacetylase SIRT6 is a tumor suppressor that controls cancer metabolism Sirt6 overexpression induces massive apoptosis in cancer cells but not in normal cells Liver cancer initiation is controlled by AP-1 through SIRT6-dependent inhibition of survivin Inhibition of SIRT6 in prostate cancer reduces cell viability and increases sensitivity to chemotherapeutics SIRT6 promotes COX-2 expression and acts as an oncogene in skin cancer Up-regulation of LRP16 mrna by 17beta-estradiol through activation of estrogen receptor alpha (eralpha), but not erbeta, and promotion of human breast cancer MCF-7 cell proliferation: A preliminary report Estrogenically regulated LRP16 interacts with estrogen receptor alpha and enhances the receptor's transcriptional activity The single-macro domain protein LRP16 is an essential cofactor of androgen receptor Clinicopathological significance of LRP16 protein in 336 gastric carcinoma patients Clinicopathological significance and prognostic value of LRP16 expression in colorectal carcinoma Macrod2 overexpression mediates estrogen independent growth and tamoxifen resistance in breast cancers Deficiency of terminal ADP-ribose protein glycohydrolase TARG1/C6orf130 in neurodegenerative disease Mouse sir2 homolog sirt6 is a nuclear ADPribosyltransferase Mammalian sirtuins: Biological insights and disease relevance NAD + and sirtuins in aging and disease Characterization of five human cdnas with homology to the yeast SIR2 gene: SIR2-like proteins (sirtuins) metabolize nad and may have protein adp-ribosyltransferase activity An enzymatic activity in the yeast SIR2 protein that is essential for gene silencing The promise of proteomics for the study of ADPribosylation Identification and analysis of ADP-ribosylated proteins Identification of ADP-ribosylated peptides and adp-ribose acceptor sites In silico characterization of the family of PARP-like poly(ADP-ribosyl)transferases (parts) Regulation of sirtuin function by posttranslational modifications Biology of poly(ADP-ribose) polymerases: The factotums of cell maintenance Macrodomain-containing proteins: Regulating new intracellular functions of mono(ADP-ribosyl)ation Recognition of mono-ADP-ribosylated ARTD10 substrates by ARTD8 macrodomains A family of macrodomain proteins reverses cellular mono-ADP-ribosylation Macrodomain-containing proteins are new mono-ADP-ribosylhydrolases B-aggressive lymphoma family proteins have unique domains that modulate transcription and exhibit poly(ADP-ribose) polymerase activity A. STAT6 and lung inflammation PARP-10, a novel myc-interacting protein with poly(ADP-ribose) polymerase activity, inhibits transformation Function and regulation of the mono-ADPribosyltransferase artd10 Gsk3: A multifaceted kinase in WNT signaling Innate and adaptive immune responses regulated by glycogen synthase kinase-3 (GSK3) Ubiquitination in signaling to and activation of ikk The complexity of NF-kappab signaling in inflammation and cancer Without ub i am nothing: Nemo as a multifunctional player in ubiquitin-mediated control of NF-kappab activation Endoplasmic reticulum stress sensing in the unfolded protein response Unfolded protein response signaling and metabolic diseases Dynamic interaction of BiP and ER stress transducers in the unfolded-protein response The unfolded protein response: Controlling cell fate decisions under ER stress and beyond PARP16/ Inflammation meets cancer, with NF-kappab as the matchmaker Increased susceptibility of vault poly(ADP-ribose) polymerase-deficient mice to carcinogen-induced tumorigenesis Sirtuin-4 (sirt4) is downregulated and associated with some clinicopathological features in gastric adenocarcinoma Tumour-suppressive function of SIRT4 in human colorectal cancer Bladder cancer outcome and subtype classification by gene expression Mechanism of transcriptional regulation of LRP16 gene expression by 17-beta estradiol in mcf-7 human breast cancer cells Estrogen and cancer Induction of the LRP16 gene by estrogen promotes the invasive growth of ishikawa human endometrial cancer cells through the downregulation of E-cadherin Cosmic: Exploring the world's knowledge of somatic mutations in human cancer Pathogen recognition and innate immunity The complex interplay between autophagy and NF-kappab signaling pathways in cancer cells Rapid evolution of PARP genes suggests a broad role for ADP-ribosylation in host-virus conflicts Expression of the zinc-finger antiviral protein inhibits alphavirus replication Inhibition of retroviral RNA production by ZAP, a CCCH-type zinc finger protein Inhibition of hepatitis B virus replication by the host zinc finger antiviral protein Inhibition of filovirus replication by the zinc finger antiviral protein Zinc-finger antiviral protein inhibits HIV-1 infection by selectively targeting multiply spliced viral mrnas for degradation Structure of N-terminal domain of ZAP indicates how a zinc-finger protein recognizes complex rna The zinc finger antiviral protein directly binds to specific viral mrnas through the CCCH zinc finger motifs Expression and RNA-binding of human zinc-finger antiviral protein The zinc-finger antiviral protein recruits the RNA processing exosome to degrade the target mrna The alternate triad motif of the poly(ADP-ribose) polymerase-like domain of the human zinc finger antiviral protein is essential for its antiviral activity Eukaryotic stress granules: The INS and outs of translation ADP-ribose) regulates post-transcriptional gene regulation in the cytoplasm P bodies, stress granules, and viral life cycles Antiviral innate immunity and stress granule responses Structural and functional basis for ADP-ribose and poly(ADP-ribose) binding by viral macro domains Differential activities of cellular and viral Macro domain proteins in binding of ADP-ribose metabolites Structural basis of severe acute respiratory syndrome coronavirus ADP-ribose-1′′-phosphate dephosphorylation by a conserved domain of NSP3 Mouse hepatitis virus liver pathology is dependent on ADP-ribose-1′′-phosphatase, a viral function conserved in the alpha-like supergroup keywords: able; activation; activity; acts; addition; adp; ahr; analysis; antiviral; apoptosis; artd10; artd8; binding; bip; breast; cancer; catalytic; cell; cellular; colorectal; component; control; damage; defense; dependent; development; different; disease; dna; domain; effects; enzymes; erα; expression; factor; family; finger; formation; functions; genes; glutamine; granules; growth; host; human; il-4; immune; important; inactive; induced; induction; inhibition; inhibits; interaction; intracellular; kinase; knockdown; like; lines; lrp16; lymphoma; macrod1; macrodomains; marylation; members; metabolism; modification; mono; nad; nuclear; overexpression; pathway; perk; poly(adp; polymerase; processes; proliferation; protein; ptm; recent; receptor; reduced; regulation; related; repair; replication; resistance; response; ribose; ribosylation; ribosyltransferase; rna; role; signaling; sirt6; sirtuins; sites; specific; stat6; stress; structural; studies; substrates; survival; targ1; target; terminal; th2; transcription; translation; treatment; tumor; ubiquitin; unfolded; vault; viral; virus; zinc cache: cord-264456-wjpc6zgq.txt plain text: cord-264456-wjpc6zgq.txt item: #328 of 647 id: cord-264746-gfn312aa author: Muse, Spencer title: GENOMICS AND BIOINFORMATICS date: 2012-03-29 words: 10983 flesch: 54 summary: In addition to providing storage and retrieval of gene sequences, several of these databases also offer advanced sequence analysis methods and powerful visualization tools. However, if two or more such distantly related organisms have gene sequences that are nearly identical, a strong argument can be made that the gene is critical in both organisms and that the same function has been maintained throughout evolutionary history. keywords: acid; algorithms; alignment; amino; analysis; approach; available; basic; best; bioinformatics; blast; cdna; chapter; class; clusters; collection; common; comparative; complete; computational; data; database; different; dna; dna sequences; example; exons; experiment; expression; fact; figure; final; finding; fragments; function; g+c; genbank; gene; gene expression; gene sequence; genetic; genome; genomic; hidden; high; higher; hmm; hmms; human; human genome; important; indels; individual; information; introns; known; large; levels; likely; match; matches; measurements; methods; microarray; molecular; multiple; ncbi; necessary; new; nucleotides; number; oligonucleotide; organisms; polymorphisms; possible; process; profiles; project; protein; query; regions; relative; result; rna; science; score; second; sequence; sequencing; set; short; similar; simple; single; slide; species; state; structure; systems; task; techniques; technologies; time; tissue; tools; transcription; type; use; variety cache: cord-264746-gfn312aa.txt plain text: cord-264746-gfn312aa.txt item: #329 of 647 id: cord-264814-v4wnmg03 author: Flanagan, Katie L. title: Progress and Pitfalls in the Quest for Effective SARS-CoV-2 (COVID-19) Vaccines date: 2020-10-02 words: 15157 flesch: 34 summary: Med Hypotheses Antibodies against trimeric S glycoprotein protect hamsters against SARS-CoV challenge despite their capacity to mediate FcgammaRII-dependent entry into B cells in vitro Early death after feline infectious peritonitis virus challenge due to recombinant vaccinia virus immunization Monoclonal antibody analysis of neutralization and antibody-dependent enhancement of feline infectious peritonitis virus Monoclonal antibodies to the spike protein of feline infectious peritonitis virus mediate antibody-dependent enhancement of infection of feline macrophages Evaluation of modified vaccinia virus ankara based recombinant SARS vaccine in ferrets Molecular mechanism for antibody-dependent enhancement of coronavirus entry Distinct systems serology features in children, elderly and COVID patients. The standardization of a range of assays to support vaccine studies, such as viral neutralization assays, to enable comparison of different vaccine candidates in different populations will be key to facilitating vaccine development, an issue which represents a current focus of the WHO (43). keywords: ace2; acid; activation; acute; ad5; adaptive; adenovirus; adjuvant; adults; adverse; analysis; animal; antibodies; antibody; antigen; antigenic; approaches; associated; available; bcg; binding; candidates; cd4; cd8; cell; cellular; cepi; chadox1; challenge; clinical; clinical trials; components; constructs; coronavirus; countries; cov-2; cov2373; covid-19; cross; current; data; delivery; dependent; design; development; disease; dna; domain; dose; early; effective; effects; efficacy; elderly; enhancement; entry; epitopes; example; figure; form; global; glycoprotein; groups; healthcare; healthy; high; host; human; immune; immunity; immunization; immunogenicity; immunological; inactivated; individuals; induction; infected; infection; inflammatory; influenza; innate; key; levels; licensed; likely; local; long; matrix; measles; memory; mers; mice; models; modified; molecular; mortality; mrna; mucosal; multiple; nabs; nanoparticle; natural; ncov-19; need; neutralization; neutralizing; non; novel; nucleic; number; nvx; original; outcomes; pandemic; patients; people; peptide; phase; plasma; potential; pre; preclinical; protection; protein; randomized; range; rbd; recent; receptor; recombinant; region; replicating; respiratory; response; results; review; risk; role; safety; sars; scale; severe; sex; single; specific; spike; state; strategies; studies; study; subunit; syndrome; t cell; table; target; targeted; th2; time; trials; type; use; vaccination; vaccine; vaccine development; vector; viral; virus; viruses; workers; world; worldwide; years cache: cord-264814-v4wnmg03.txt plain text: cord-264814-v4wnmg03.txt item: #330 of 647 id: cord-264880-0tmd9knh author: Li, Zhao title: Picoliter Well Array Chip-Based Digital Recombinase Polymerase Amplification for Absolute Quantification of Nucleic Acids date: 2016-04-13 words: 5361 flesch: 42 summary: The blade was held at a 40-60°angle relative to the chip carrier so that the edge of silica gel was placed at the end of PWA chip. Silanization of the PWA chip to avoid cross-contamination The manufactured finished PWA chip was 20.8 mm × 16 mm, with 27,000 closely packed microwells. keywords: absolute; acids; air; amplification; analysis; applications; array; blade; chamber; chip; concentration; contamination; contrast; control; copper; cross; detection; device; digital; dna; dpcr; droplet; drpa; end; expected; field; fig; flow; fluorescence; gdna; glass; high; images; imaging; incubation; intensity; isothermal; light; liquid; loading; method; methoxy; microfluidic; microwells; min; mineral; nucleic; number; oil; packaging; pcr; peg; picoliter; polymerase; positive; precise; process; pwa; pwa chip; quantification; reaction; reagents; real; recombinase; results; rpa; sample; scraping; serial; silane; silicon; single; solution; surface; techniques; temperature; time; water; wells cache: cord-264880-0tmd9knh.txt plain text: cord-264880-0tmd9knh.txt item: #331 of 647 id: cord-264884-ydkigome author: Villarreal, Luis P. title: The Widespread Evolutionary Significance of Viruses date: 2008-07-05 words: 23160 flesch: 41 summary: key: cord-264884-ydkigome authors: Villarreal, Luis P. title: The Widespread Evolutionary Significance of Viruses date: 2008-07-05 journal: Origin and Evolution of Viruses DOI: 10.1016/b978-0-12-374153-0.00021-7 sha: doc_id: 264884 cord_uid: ydkigome In the last 30 years, the study of virus evolution has undergone a transformation. Originally concerned with disease and its emergence, virus evolution had not been well integrated into the general study of evolution. keywords: accepted; acute; adaptability; adaptation; adapted; adaptive; addition; algae; analysis; ancient; apparent; asymptomatic; attention; avian; bacterial; bacteriophage; basic; bat; biological; biologists; biology; brain; broader; c virus; cance; capsid; cell; cellular; chapter; ciency; classical; clear; coli; colonization; colonized; colony; common; competition; complex; concept; congruence; consequences; conserved; consortia; contrast; cooperation; core; coronaviruses; crucial; culture; defective; defi; delity; development; different; disease; distinct; diverse; diversity; dna; dna viruses; domains; domingo; dsdna; dynamics; early; eld; elements; emergence; endogenous; error; et al; eukaryotic; events; evidence; evolution; evolutionary; example; exemplar; experimental; family; fi tness; foamy; forterre; free; function; fundamental; general; genes; genetic; genomes; genomic; group; growth; habitats; hcv; hepatitis; hepatitis virus; herpesvirus; high; higher; history; hiv-1; holmes; horizontal; host; host evolution; human; human evolution; identifi; immunity; immunodefi; important; individual; infected; infection; infl; information; integration; interactions; interest; interesting; involved; isolated; issue; koala; lack; large; life; like; likely; lineages; linear; link; long; lytic; major; mammalian; methods; mhc; mhv; mice; mimivirus; mixtures; models; molecular; mosaic; mouse; mutant; mutations; natural; nature; need; new; non; novelty; numbers; numerous; observed; origin; outcome; overall; past; patients; patterns; pbcv-1; persistence; perspective; phage; phycodnaviruses; phylogenetic; placental; plant; plaque; poliovirus; polymerase; pool; populations; possible; potential; poxviruses; prd1; presence; present; prevalent; primates; products; prokaryotes; prone; prophage; proposals; proteins; quasispecies; rates; recent; recombination; related; relationships; relative; replication; resistance; result; retroviral; retroviruses; rna; rna virus; rodents; role; sars; selection; selective; selfi; sequence; sheep; signifi; silent; similar; similarity; situation; small; source; specifi; specifi c; stability; stable; states; strain; strategy; structure; studies; study; survival; symbiosis; symbiotic; system; temperate; theory; time; tness; tools; transfer; tree; ttest; type; uenza; understanding; unique; variation; vast; view; villarreal; viral; virology; virus; virus evolution; viruses; vivo; ways; wild; world; years cache: cord-264884-ydkigome.txt plain text: cord-264884-ydkigome.txt item: #332 of 647 id: cord-265173-70wyecwj author: Trujillo-Uscanga, Adrian title: Host cell p53 associates with the feline calicivirus major viral capsid protein VP1, the protease-polymerase NS6/7, and the double-stranded RNA playing a role in virus replication date: 2020-08-27 words: 5702 flesch: 41 summary: Protein p53 (p53), a 393 amino acid protein expressed from the TP53 gene (Saha, Kar, & Sa, 2015) , also known as the guardian of the genome that functions as a DNA sequence-specific transcriptional regulator. Even though it is well known that all the members of the Caliciviridae family induce apoptosis, the role of p53 in this pathway or in other stages of viral replication has not been studied; therefore, the aim of this work was to determine if p53 host cell protein has a role in the replicative cycle of FCV, one of the best models to study the replication of this family. keywords: activity; anti; antibodies; apoptosis; assays; binding; blotting; calicivirus; capsid; cells; colocalization; crfk; cycle; cytoplasm; damage; degradation; dna; dsrna; effect; efficient; et al; expression; fcv; feline; fig; genome; green; grna; gst; host; hpi; hrs; human; infected; infected cells; infection; influenza; interaction; knockdown; levels; mdm2; milk; mock; non; ns6/7; p21; p53; polymerase; protease; protein; reduction; regulation; replication; response; rna; role; sirna; specific; stress; structural; supplementary; synthesis; transcriptional; viral; virus; viruses; vp1; western cache: cord-265173-70wyecwj.txt plain text: cord-265173-70wyecwj.txt item: #333 of 647 id: cord-265237-sxh2nqre author: Weile, Jan title: Current applications and future trends of molecular diagnostics in clinical bacteriology date: 2009-04-18 words: 4557 flesch: 35 summary: Furthermore, for other complex resistance problems such as detection of hundreds of different ESBL variants in tem, oxa, shv, and ctx-m genes, or MRSA and other clinical relevant resistances in Staphylococci, DNA microarray assays were published [103, 104] All these assays, although needing further optimization regarding implementation in routine clinical laboratories, are characterized by comparable short time requirements (4-5 h) compared to conventional methods. There are many different real-time PCR instruments and detection probe formats available. keywords: acid; aeruginosa; amplification; analysis; antibiotic; antigen; applications; assays; available; bacterial; bacteriology; bead; blood; clinical; complex; conventional; culture; detection; determinants; determination; development; diagnostics; different; direct; dna; early; fig; fluorescence; formats; future; genes; genetic; genotyping; germany; high; hybridization; identification; important; infection; introduction; laboratory; like; methods; microarrays; microbial; microbiology; molecular; molecules; nucleic; nucleotide; number; parallel; pathogens; pcr; point; present; probes; rapid; reaction; real; resistance; results; screening; sensitivity; sequencing; single; species; specific; specificity; specimen; susceptibility; systems; target; techniques; technologies; technology; testing; time; treatment; use cache: cord-265237-sxh2nqre.txt plain text: cord-265237-sxh2nqre.txt item: #334 of 647 id: cord-265764-h4zg0q8x author: Singh, Kamaljit title: Synthesis of 4-aminoquinoline–pyrimidine hybrids as potent antimalarials and their mode of action studies date: 2013-06-10 words: 4128 flesch: 42 summary: [27] and antimalarial activities Recently, antimalarial activities of some quinolineepyrimidine hybrids with activities in the micromolar to nanomolar range have been reported (Fig. 3) keywords: acid; activities; activity; addition; aminoquinoline; analysis; antimalarial; antimalarial activity; antiplasmodial; antiviral; appropriate; binding; c-4; cell; chloroquine; comparison; compounds; concentration; constants; cultures; decrease; design; dna; drugs; falciparum; feline; fig; heme; herpes; high; hybrids; inhibition; linker; mdck; mechanism; monomeric; new; nmr; parasite; phenyl; plasmodium; potent; pyrimidine; range; reaction; rich; samples; shift; solution; spacer; standard; starting; strains; studies; synthesis; table; tested; thermal; values; virus; vitro cache: cord-265764-h4zg0q8x.txt plain text: cord-265764-h4zg0q8x.txt item: #335 of 647 id: cord-266670-jxgywvwx author: Wong, Mark title: Chapter 13 Recent Advances and Future Needs in Environmental Virology date: 2007-09-06 words: 5843 flesch: 30 summary: A large waterborne viral hepatitis E epidemic in Kanpur DNA microarray technique for detection and identification of seven flaviviruses pathogenic for man Virulence signatures: microarray-based approaches to discovery and analysis Detection of adenovirus outbreak at a municipal swimming pool by nested PCR amplification Global illness and deaths caused by rotavirus disease in children Prevalence of vaccinederived polioviruses in sewage and river water in South Africa Light-generated oligonucleotide arrays for rapid DNA sequence analysis Rapid detection and identification of human adenovirus species by adenoplex, a multiplex PCR-enzyme hybridization assay Viral Pollution in the environment and in shellfish: human adenovirus detection by PCR as an index of human viruses Detection of adenoviruses and enteroviruses in polluted waters by nested PCR amplification Human-blind probes and primers for dengue virus identification Comparison of PCR, enzyme immunoassay and conventional culture for adenovirus detection in bone marrow transplant patients with hemorrhagic cystitis Detection of adenoviruses in shellfish by means of conventional-PCR, nested-PCR, and integrated cell culture PCR (ICC/PCR) A simple and rapid single-step multiplex RT-PCR to detect norovirus, astrovirus and adenovirus in clinical stool samples OligoArray 2.0: design of oligonucleotide probes for DNA microarrays using a thermodynamic approach Microarray assay for detection and discrimination of orthopoxvirus species Comprehensive detection and serotyping of human adenoviruses by PCR and sequencing Quantitative monitoring of gene expression patterns with a complementary DNA microarray Molecular detection and identification of influenza viruses by oligonucleotide microarray hybridization Nested and multiplex PCR, which are variations of the conventional PCR, have also been applied to virus detection in water samples. keywords: ability; acid; adenoviruses; advances; amplification; analysis; applied; arrays; assay; associated; cell; clinical; community; control; conventional; cpes; culture; detection; development; discovery; disease; dna; drinking; enteric; enteroviruses; environmental; environmental samples; et al; exposure; form; future; health; human; hybridization; identification; infectious; infectivity; influenza; integrated; methods; microarray; microbial; molecular; mrna; multiplex; need; nested; new; nucleic; oligonucleotide; outbreak; pathogens; pcr; poliovirus; presence; primers; probes; processing; public; quality; quantification; quantitative; real; research; respiratory; reverse; risk; river; rna; samples; sensitivity; sewage; specific; standard; swimming; system; target; techniques; technology; time; transcription; transmission; type; urban; viral; virology; viruses; wastewater; water; waterborne; world cache: cord-266670-jxgywvwx.txt plain text: cord-266670-jxgywvwx.txt item: #336 of 647 id: cord-267671-ys43n672 author: Whary, Mark T. title: Biology and Diseases of Mice date: 2015-07-10 words: 63704 flesch: 37 summary: If an endogenous retrovirus is still infectious to other mouse cell targets, it is termed ecotropic, whereas if it is no longer infectious for mouse cells, but can infect cells of other species, it is termed xenotropic. Recombinant viruses have recently been discovered that can infect mouse cells and heterologous cells and are associated with spontaneous leukemia development in high leukemia strains such as AKR mice. keywords: 16s; ability; abscesses; acid; activation; active; activity; acute; acute infection; adaptive; addition; adequate; adult mice; adults; aeruginosa; affected; agar; age; aged mice; agents; akr; allele; alopecia; altered; alveolar; amyloidosis; analysis; animal; anterior; antibiotic; antibodies; antibody; antigen; apparent; approach; arthritis; asf; assays; associated; athymic mice; available; b6c3f1 mice; bacillus; background; bacterial; bacterial infection; bacterium; balb; barrier; barthold; bedding; behavioral; bilis; biological; biology; black mice; bladder; blood; bone; bovis; bowel; brain; breeding; breeding mice; c3h; c3h mice; c57bl/6 mice; c57bl/6j; cage; caging; cancer; carcinomas; care; carinii; carrier mice; cases; cause; cba; cd4; cecum; cells; cellular; certain; cesarean; changes; chapter; characteristic; chemical; chromosome; chronic; chronic infection; clinical; clinical disease; clinical signs; clostridium; coat; coccoides; colitis; colonic; colonies; colony; combined; commercial; common; communication; comparison; complete; complex; complications; conditions; congenic; conjunctivitis; consists; contact; contaminated; contamination; contemporary; contrast; control; corning et; coronavirus; cost; course; culture; current; cycle; cysts; cytokine; dams; data; days; dba/2 mice; death; decrease; deficiency; dependent; deposition; dermatitis; detection; development; diagnosis; diagnosis diagnosis; diagnosis infection; diarrhea; dietary; diets; differences; differential; differential diagnosis; differentiated; difficile; difficile infection; difficult; direct; disease; dissemination; distinct; distribution; dna; domesticus; dominant; drinking; dysfunction; early; ectromelia; ectv; edema; edim; effective; effector; effects; eggs; elisa; embryo; endogenous; enteritis; enterotropic; entry; environmental; enzyme; epithelium; epizootiology; equipment; eradication; essential; established; estrus; et al; etiology; europe; evidence; examination; example; excreted; excretion; experimental; experimental infection; exposure; expression; factors; failure; family; fancy mice; fatal; features; fecal; feces; feed; female; fever; fig; flora; foci; food; form; formation; fox; fox et; free; function; fur; gastrointestinal; generation; genes; genetic; genome; genotype; germfree mice; glands; gram; granulomatous; gross; group; growth; hair; hamsters; head; health; heart; helicobacter; helicobacter infection; hematopoietic; hemorrhage; hepaticus; hepaticus infection; hepatitis; high; higher; histological; homologous; host; housing; humans; humoral; husbandry; hybridization; hyperplasia; ibd; identification; igg; iii; illness; immune; immunity; immunocompetent mice; immunocompromised; immunodeficient mice; immunohistochemistry; immunological; immunosuppression; impact; important; incidence; inclusions; increase; individual; individual mice; induced; induction; infant mice; infected mice; infection; infestation; inflammation; inflammatory; influence; ingestion; initial; innate; inoculated; inoculation; interest; international; interstitial; intestinal; intranuclear; introduction; isogenic; isolated; isolation; ivermectin; j mice; jacoby; jcr mice; kidney; knockout; knockout mice; known; kutscheri; laboratory animal; laboratory mice; lactation; lamina; large; lcmv; lcmv infection; ldv; lesions; lethal; lethal infection; leukemia; levels; life; light; like; likely; limited; limiting; lines; liver; livingston; loci; long; loss; low; lower; lung; lymph; lymphocytes; lymphoid; m.m; macrophages; maintenance; major; male mice; males; mammalian; mammals; mammary; marrow; material; mating; mcmv; means; medicine; members; mesenteric; methods; mhc; mhv; mice; mice deficient; mice genetic; mice mouse; mice results; microbial; microbiota; mild; milk; mineralization; mixed; mlv; mmtv; mnv; model; modern; molecular; monitoring; mononuclear; months; morbidity; mortality; mouse; mouse colonies; mouse genome; mouse hepatitis; mouse parvovirus; mouse strains; mousepox; mpv; mucosa; multiple; murine; muris; musculus; mutagenesis; mutant; mutant mice; mutations; mvm; mycoplasma; myobia; nasal; natural; natural infection; necrosis; necrotic; necrotizing; negative; neonatal mice; neonates; neoplasia; new; nodes; nodules; nomenclature; non; nonpathogenic; normal; normal mice; norovirus; novel; nude mice; null mice; number; numerous; nursing; obvelata; occurring; older mice; olfactory; onset; opportunistic; order; organisms; organs; origin; original; outbreak; outbred; outbred mice; ovarian; ovulation; oxytoca; paralysis; parental; parvovirus; pasteurella; pathogenesis; pathogenic; pathology; patterns; pcr; percy; perfringens; peripheral; persistent infection; phase; pheromones; piliforme; pinworm; pneumocystis; pneumonia; pneumotropica; polytropic; populations; positive; possible; potential; pregnancy; presence; present; prevalence; prevention; primary; pritchett; procedures; produce; production; products; progeny; programs; progressive; proliferative; prolonged; prominent; propria; proteins; pulmonary; pulmonis; pulmonis infection; pvm; pyv; quality; quarantine; random; range; rapid; rare; rats; recent; receptors; recognition; recombinant; recombination; recovery; rederivation; regional; related; renal; reovirus; replication; reproductive; research; research mice; resistant; resistant mice; respiratory; respiratory infection; responses; results; retinal; retroelements; riley; risk; rna; rodentium; rodents; role; route; rrna; ruffled; salivary; salmonella; salmonellosis; sanitation; schaedler; scid mice; screening; secondary; secretion; sections; self; sensitive; sentinel mice; sequence; seroconversion; serological; serology; serum; severe; severe infection; shedding; short; signals; significant; signs; signs mice; silver; similar; single; sites; size; sjl; skin; small; social; source; species; specific; spleen; spontaneous; spores; spp; spread; states; stocks; stomach; strains; studies; study; subclinical; subclinical infection; subsequent; substrains; suckling; suppurative; surface; surveillance; susceptibility; susceptible; susceptible mice; sv infection; syncytia; syndrome; syphacia; system; systemic; t cells; table; tail; target; targeted; temperature; term; testing; tests; therapy; thymus; time; tissues; tmev; tract; transfer; transgene; transgenic mice; transient; transmissible; transmission; transplantable; treatment; tropism; tubular; tumors; type; typhlocolitis; tyzzer; ubiquitous; ulcerative; unique; united; upper; urinary; useful; utero; variable; variants; variation; variety; vascular; vessels; viral; virulence; virus; virus infection; virus strain; viruses; vitamin; vitro; vivo; ward et; wasting; water; weaning; weeks; weight; white; widespread; wild mice; young mice; zoonotic; −/− cache: cord-267671-ys43n672.txt plain text: cord-267671-ys43n672.txt item: #337 of 647 id: cord-267714-ji88tvsl author: JAKUPCIAK, JOHN P. title: Biological agent detection technologies date: 2009-04-21 words: 3528 flesch: 29 summary: Despite these advances, extension of sequencing technology should include the capacity to distinguish naturally occurring micro-organisms from intentionally distributed pathogens. New opportunities to develop faster and less expensive methods for sequencing DNA are pushing genome sequencing technology to include answers to: • information on the nature and source of a sample • effective data collection for comparison of samples (from known and probable locations) keywords: accurate; acid; agent; analysis; antibody; approaches; biological; bioterrorism; capability; cell; challenge; comparison; culture; current; data; detection; disease; diversity; dna; effective; environmental; et al; example; foundation; genetic; genome; genomic; health; high; human; identification; information; lack; limited; methods; microarrays; microbial; molecular; need; nucleic; organisms; pathogens; pcr; public; quality; rapid; reference; research; response; sample; sanger; sars; sensitive; sequence; sequencing; single; soil; species; strain; systems; techniques; technologies; technology; throughput; unknown; use; variation; variety; years cache: cord-267714-ji88tvsl.txt plain text: cord-267714-ji88tvsl.txt item: #338 of 647 id: cord-267733-fuz8r3vj author: Al Ali, Sally title: Use of Reporter Genes in the Generation of Vaccinia Virus-Derived Vectors date: 2016-05-21 words: 7989 flesch: 38 summary: Viruses Poxvirus host cell entry Comparative analysis of viral gene expression programs during poxvirus infection: A transcriptional map of the vaccinia and monkeypox genomes Vaccinia virus morphogenesis and dissemination Vaccinia virus infection & temporal analysis of virus gene expression: Part 1 Exploring vaccinia virus as a tool for large-scale recombinant protein expression Evaluation of production parameters with the vaccinia virus expression system using microcarrier attached HeLa cells Cis-and trans-acting elements involved in reactivation of vaccinia virus early transcription Recombinant vaccines and the development of new vaccine strategies. This reporter gene system has been widely used in transgenic plants, and it has also been successfully used in mammalian cells for VACV recombinant virus selection keywords: activity; antigens; applications; assays; bacteria; beta; biological; biology; cancer; cas9; cell; coli; crispr; design; development; different; dna; expression; factor; figure; fluorescent; foreign; galactosidase; gene; gene expression; generation; genetic; genome; gfp; glycoprotein; herpes; high; homologous; host; human; immune; important; infected; infection; influenza; insertion; interest; lacz; large; lines; luciferase; main; mammalian; marker; method; mice; molecular; new; non; oncolytic; poxvirus; presence; production; promoter; protein; recombinant; recombinant vaccinia; recombinant vacv; recombinant viruses; recombination; replication; reporter; reporter gene; response; selection; simplex; site; smallpox; specific; strains; strategies; study; system; therapy; thymidine; transcription; transgene; type; vaccines; vaccinia; vaccinia virus; vacv; vacv genome; vectors; viral; virulence; virus; viruses; vivo cache: cord-267733-fuz8r3vj.txt plain text: cord-267733-fuz8r3vj.txt item: #339 of 647 id: cord-267928-dflkggjt author: Kantola, Kalle title: Merkel cell polyomavirus DNA in tumor-free tonsillar tissues and upper respiratory tract samples: Implications for respiratory transmission and latency date: 2009-05-22 words: 2735 flesch: 46 summary: MCPyV DNA was detected in 14 samples altogether; 8 of 229 (3.5%) tonsillar tissues, 3 of 140 (2.1%) NPAs, 2 of 106 (1.9%) nasal swabs and 1 of 840 (0.1%) sera. MCPyV DNA occurs in tonsils more frequently in adults than in children. keywords: adults; blood; cell; children; detection; dna; fecal; human; immunocompetent; immunocompromised; individuals; infection; kipyv; lt3; mcpyv; median; merkel; nasal; negative; nested; npas; occurrence; patients; pcr; polyomavirus; positive; primers; respiratory; samples; sera; study; swabs; tissues; tonsillar; tonsils; tract; viral; viruses; wheezing; wupyv; years cache: cord-267928-dflkggjt.txt plain text: cord-267928-dflkggjt.txt item: #340 of 647 id: cord-268122-74nj66vb author: Xie, Na title: NAD(+) metabolism: pathophysiologic mechanisms and therapeutic potential date: 2020-10-07 words: 32145 flesch: 32 summary: Alzheimer disease Nicotinamide restores cognition in Alzheimer's disease transgenic mice via a mechanism involving sirtuin inhibition and selective reduction of Thr231-phosphotau Nicotinamide mononucleotide adenylyltransferase uses its NAD(+) substrate-binding site to chaperone phosphorylated Tau Parkinson's disease psychosis: presentation, diagnosis and management Decreased sirtuin deacetylase activity in LRRK2 G2019S iPSCderived dopaminergic neurons Mitochondrial metabolism regulates microtubule acetylome and autophagy trough sirtuin-2: impact for Parkinson's disease The NAD+ precursor nicotinamide riboside rescues mitochondrial defects and neuronal loss in iPSC and fly models of Parkinson's disease Enhancing NAD(+) salvage metabolism is neuroprotective in a PINK1 model of Parkinson's disease Parp mutations protect against mitochondrial dysfunction and neurodegeneration in a PARKIN model of Parkinson's disease Phenothiazine normalizes the NADH/ NAD(+) ratio, maintains mitochondrial integrity and protects the nigrostriatal dopamine system in a chronic rotenone model of Parkinson's disease A novel treatment target for Parkinson's disease c-Jun N-terminal kinase (JNK)-mediated phosphorylation of SARM1 regulates NAD(+) cleavage activity to inhibit mitochondrial respiration SARM1 and TRAF6 bind to and stabilize PINK1 on depolarized mitochondria High doses of nicotinamide prevent oxidative mitochondrial dysfunction in a cellular model and improve motor deficit in a Drosophila model of Parkinson's disease Implications of NAD metabolism in pathophysiology and therapeutics for neurodegenerative diseases Clinical features of Huntington's disease Huntington's disease-update on treatments Huntington's disease: a clinical review The neuropsychology of Huntington's disease PGC-1α, sirtuins and PARPs in Huntington's disease and other neurodegenerative conditions: NAD+ to rule them all trans-(-)-ε-Viniferin increases mitochondrial sirtuin 3 (SIRT3), activates AMP-activated protein kinase (AMPK), and protects cells in models of Huntington disease Thermoregulatory and metabolic defects in Huntington's disease transgenic mice implicate PGC-1alpha in Huntington's disease neurodegeneration Impaired PGC-1alpha function in muscle in Huntington's disease PGC-1α rescues Huntington's disease proteotoxicity by preventing oxidative stress and promoting TFEB function Nicotinamide improves motor deficits and upregulates PGC-1α and BDNF gene expression in a mouse model of Huntington's disease Inhibition of mTOR induces autophagy and reduces toxicity of polyglutamine expansions in fly and mouse models of Huntington disease The kynurenine pathway modulates neurodegeneration in a Drosophila model of Huntington's disease Kynurenine pathway measurements in Huntington's disease striatum: evidence for reduced formation of kynurenic acid Antioxidant alternatives in the treatment of amyotrophic lateral sclerosis: a comprehensive review Evaluation of the NAD(+) biosynthetic pathway in ALS patients and effect of modulating NAD(+) levels in hSOD1-linked ALS mouse models ALS genes in the genomic era and their implications for FTD Is SOD1 loss of function involved in amyotrophic lateral sclerosis Oxidative stress in neurodegenerative diseases Mutations in Cu/Zn superoxide dismutase gene are associated with familial amyotrophic lateral sclerosis Differential effects of mutant SOD1 on protein structure of skeletal muscle and spinal cord of familial amyotrophic lateral sclerosis: role of chaperone network The genetics and neuropathology of amyotrophic lateral sclerosis Astrocytes expressing ALS-linked mutated SOD1 release factors selectively toxic to motor neurons Increased glutathione biosynthesis by Nrf2 activation in astrocytes prevents p75NTR-dependent motor neuron apoptosis A role for astrocytes in motor neuron loss in amyotrophic lateral sclerosis Enhancing NAD+ salvage pathway reverts the toxicity of primary astrocytes expressing amyotrophic lateral sclerosis-linked mutant superoxide dismutase 1 and~90 μM for mitochondrial NAD + , respectively. keywords: accumulation; acid; acmsd; activation; activities; activity; acts; acute; addition; adenine; adipocytes; adipose; administration; aged; aging; aki; als; alzheimer; amino; amyotrophic; analysis; antioxidant; approach; aspartate; associated; astrocytes; atp; autophagy; axon; bacterial; based; beta; binding; biological; biosynthesis; bmal1; body; brain; breast; cancer; cancer cells; capacity; capping; cardiac; catalyzed; causes; cd38; cells; cellular; cellular nad; changes; chromatin; chronic; circadian; clinical; clock; coa; complex; concentration; conditions; consumption; content; contribute; control; cord; core; critical; crucial; cycle; cytokines; cytosolic; damage; deacetylase; deacetylation; death; decline; decrease; defense; deficiency; degeneration; degradation; dehydrogenase; dependent; depletion; development; diabetes; diet; different; dinucleotide; disease; disorders; dna; dna damage; dna repair; donor; dysfunction; effects; electrons; elevated; endogenous; energy; enhanced; enzymatic; enzymes; epigenetic; essential; etc; evidence; exercise; exhibit; expression; factors; failure; fao; fatty; fibrosis; fig; fluorescent; form; free; function; gapdh; gene; gene expression; genome; genomic; glucose; glutathione; glycolysis; group; growth; gsh; healthy; heart; hepatic; hepatitis; hfd; high; higher; highly; histone; homeostasis; human; huntington; hyperacetylation; identification; immune; immunity; impaired; important; increased; induced; infection; inflammation; inflammatory; inhibition; inhibitors; injury; insulin; intracellular nad; ischemia; kidney; kinase; kynurenine; lactate; lateral; leads; levels; lifespan; ligation; like; lipid; liver; long; loss; low; lysine; macrophages; maintenance; major; malate; mammalian; mechanisms; mediates; membrane; metabolism; metabolites; methylation; mice; mitochondrial; mitochondrial function; mitochondrial metabolism; mitochondrial nad; model; modification; modulates; modulation; molecular; molecules; mononucleotide; motor; mouse; mrna; multiple; muscle; mutant; mutations; nad +; nad biosynthesis; nad metabolism; nad salvage; nad(p)h; nadph; nafld; nampt; naprt; neurodegenerative; neuronal; neurons; new; nicotinamide; nmn; nnmt; non; normal; novel; novo; noxs; nuclear; nuclear nad; nutrient; obese; obesity; oral; oscillation; overexpression; oxidase; oxidation; oxidative; oxidative damage; oxidative metabolism; oxidative stress; oxphos; oxygen; pancreatic; parkinson; parp-1; parps; pathogenesis; pathological; pathologies; pathway; patients; pgc-1α; pharmacological; phosphate; phosphoribosyltransferase; phosphorylation; physiological; plasma; pool; potential; ppp; precursors; processes; processing; produce; production; progression; proliferation; promote; protein; pyruvate; range; rate; reactions; reactive; receptor; recruitment; redox; reduced; regulate; regulation; regulatory; related; renal; repair; reperfusion; replication; reported; reprogramming; resistance; respiration; response; responsible; restriction; rhythmic; ribose; riboside; ribosylation; rna; rnas; role; ros; salvage; sarm1; sclerosis; secretion; sensitive; sensitivity; sensors; serum; shuttle; signaling; sirt1; sirtuins; skeletal; small; sod1; species; specific; spinal; stability; state; status; stress; structure; studies; subcellular; substrate; superoxide; supplementation; survival; syndrome; synthase; system; systemic; target; tau; tca; term; therapeutic; thioredoxin; tissue; transcription; transgenic; treatment; tryptophan; tumor; tumorigenesis; turn; type; upregulated; variety; viral; virus; visfatin; vivo cache: cord-268122-74nj66vb.txt plain text: cord-268122-74nj66vb.txt item: #341 of 647 id: cord-268549-2lg8i9r1 author: Dai, Qi title: Sequence comparison via polar coordinates representation and curve tree date: 2012-01-07 words: 4368 flesch: 49 summary: At the same time, if the value of o is too large, the curvature difference on the small-scale will be covered that is not good for sequence representation either. The curve tree was then constructed to numerically characterize the closed curve of biological sequences, and further compared biological sequences by evaluating the distance of the curve tree of the query sequence matching against a corresponding curve tree of the template sequence. keywords: alignment; analysis; bases; biological; characterization; closed; comparison; coordinates; curve; ding; distance; distribution; dna; dna sequences; dual; et al; fig; graphical; graphical representation; huang; huang et; human; liao; line; maaty; matrix; method; new; novel; nucleotides; phylogenetic; polar; randic; randic et; representation; results; sequences; similarity; tree; wang; yao; zhang cache: cord-268549-2lg8i9r1.txt plain text: cord-268549-2lg8i9r1.txt item: #342 of 647 id: cord-269124-oreg7rnj author: Spyrou, Maria A. title: Ancient pathogen genomics as an emerging tool for infectious disease research date: 2019-04-05 words: 11937 flesch: 32 summary: In this Review, we discuss methodological advancements, persistent challenges and novel revelations gained through the study of ancient pathogen genomes. In the absence of ancient pathogen genomes, the tim ings of infectious disease emergence and early spread are inferred mainly through comparative genomics of modern pathogen diversity 92, 93 , palaeopathological eval uation of ancient skeletal remains 94 or analysis of his torical records 95, 96 . keywords: 18th; active; addition; adna; age; agent; analysis; ancient; ancient dna; ancient human; ancient pathogen; approaches; archaeological; assessment; authentication; authenticity; bacterial; bacterium; bayesian; best; black; bone; branch; bronze; bubonic; capture; cases; causative; century; certain; challenges; clock; common; comparative; complete; data; database; date; dating; day; death; detection; determined; different; direct; disease; divergence; diversity; dna; early; emergence; enrichment; environmental; epidemic; eurasia; europe; european; evaluation; events; evidence; evolutionary; example; fast; fig; flea; foci; frequency; genes; genome; genomic; hbv; health; high; historical; history; hosts; human; identification; important; infectious; inference; information; initial; insights; large; leprae; leprosy; likely; limited; lineages; long; low; mapping; medieval; metagenomic; methods; microbial; model; modern; molecular; neolithic; ngs; nucleotide; number; old; organism; pallidum; pandemic; past; pathogen; pathogen dna; pathogen genomes; patterns; pcr; period; pestis; phylogenetic; phylogeny; plague; population; possible; potential; presence; present; program; pseudotuberculosis; rate; reads; recent; recombination; recovery; reference; region; relationships; remains; research; result; retrieval; robust; rodent; sample; sampling; screening; second; sequence; sequencing; set; sets; shotgun; single; size; skeletal; snp; source; species; specific; specimens; spread; strains; studies; study; subsp; target; targeted; techniques; teeth; temporal; term; time; today; tool; transmission; tree; tuberculosis; unique; use; virulence; virus; wide; world; y. pestis; years; yersinia; yersinia pestis cache: cord-269124-oreg7rnj.txt plain text: cord-269124-oreg7rnj.txt item: #343 of 647 id: cord-269352-0o3mryu1 author: Dhama, K. title: DNA vaccines and their applications in veterinary practice: current perspectives date: 2008-04-19 words: 6863 flesch: 29 summary: Salient features of DNA vaccines and strategies to improve vaccine efficacy DNA vaccines, generated using plasmids, include a gene encoding target antigen under the transcriptional control of an effective viral/eukaryotic promoter, along with a polyadenylation signal sequence (poly-A) and a bacterial origin of replication ( Fig. 1 ) (Gurunathan et al. 2000) . Sichuan Da Xue Xue Bao Yi Xue Ban Use of attenuated bacteria as delivery vectors for DNA vaccines Immunization of bovines using a DNA vaccine prepared from the Jaboticabal strain of Anaplasma marginale Bm86 antigen induces a protective immune response against Boophilus microplus following DNA and protein vaccination in sheep Immunity and disease resistance strategies in poultry: current and future prospects DNA vaccines and prevention of infectious diseases in bovines: A Review In ovo vaccination with the Eimeria tenella EtMIC2 gene induces protective immunity against coccidiosis Construction of recombinant plasmid with VP1 genes against Asia I FMDV and elementary analysis of its immunological activity CpG motif in ATCGAT hexamer improves DNA-vaccine efficiency against lethal Pseudorabies virus infection in pigs Humoral immune responses to DNA vaccines expressing secreted, membrane bound and non-secreted forms of the Taenia ovis 45W antigen The application of nucleic acid vaccines in veterinary medicine Priming of cytotoxic T lymphocytes by DNA vaccines: requirement for professional antigen-presenting cells and evidence for antigen transfer from myocytes Prime-boost immunization with DNA followed by a recombinant vaccinia virus expressing P50 induced protective immunity against Babesia gibsoni infection in dogs Potency of an experimental DNA vaccine against Aujeszky's disease in pigs Stable and long-lasting immune response in horses after DNA vaccination against equine arteritis virus Development of novel strategies to control foot-and-mouth disease: marker vaccines and antivirals Induction of protection against porcine cysticercosis in growing pigs by DNA vaccination Induction of immune responses in cattle with a DNA vaccine encoding glycoprotein C of bovine herpesvirus-1 Cloning of canine parvovirus VP2 gene and its use as DNA vaccine in dogs Immunogenicity of a recombinant plasmid DNA containing glycoprotein gene of rabies virus CVS A DNA vaccine that encodes rabies virus glycoprotein lacking transmembrane domain enhances antibody response but not protection Induction of immune response in mice with a DNA vaccine encoding outer membrane protein (omp31) of Brucella melitensis 16M DNA vaccines: immunology, application, and optimization Comparison of the immunological memory after DNA vaccination and protein vaccination against anthrax in sheep West Nile virus vaccines On the use of DNA vaccines for the prophylaxis of mycobacterial diseases A tumor reducing factor extracted by phenol from papillomatous tissue of cotton tail rabbits Hemagglutinin (H) gene of canine distemper virus cloned in pTargeT mammalian expression vector induces neutralizing antibody response in dogs Nucleic acid immunization protects dogs against challenge with virulent canine parvovirus Novel chitosan derivative nanoparticles enhance the immunogenicity of a DNA vaccine encoding hepatitis B virus core antigen in mice DNA prime followed by protein boost enhances neutralization and Th1 type immunity against FMDV Strategies for inducing protection against avian influenza A virus subtypes with DNA vaccines CpG motifs in bacterial DNA and their immune effects Nucleic acid vaccination of Brucella abortus ribosomal L7/L12 gene elicits immune response Generation of reassortant influenza vaccines by reverse genetics that allows utilization of a DIVA (Differentiating Infected from Vaccinated Animals) strategy for the control of avian influenza Oral DNA vaccination with polyprotein gene of IBDV delivered by attenuated Salmonella elicits protective immune response in chickens A Semliki Forest virus replicon vectored DNA vaccine expressing the E2 glycoprotein of classical swine fever virus protects pigs from lethal challenge Priming with DNA encoding E2 and boosting with E2 protein formulated with CpG oligodeoxynucleotides induces strong immune responses and protection from Bovine viral diarrhea virus in cattle DNA vaccines: a review DNA vaccines: recent developments and future possibilities Suppository-mediated DNA immunization induces mucosal immunity against bovine herpesvirus-1 in cattle Improved protection from velogenic Newcastle disease virus challenge following multiple immunizations with plasmid DNA encoding for F and HN genes Antibody responses to DNA vaccination of horses using the influenza virus hemagglutinin gene Approaches to enhance the efficacy of DNA vaccines Modulation of immune responses to bovine herpesvirus-1 in cattle by immunization with a DNA vaccine encoding glycoprotein D as a fusion protein with bovine CD154 Adjuvant effects of ILl beta, IL-2, IL-8, 1L-15, IFN-alpha, IFN-gamma TGF-beta and lymphotactin in DNA vaccination against Eimeria acervulina Use of DNA and recombinant canarypox viral vectors for equine herpes virus vaccination Efficacy of particle-based DNA delivery for vaccination of sheep against FMDV DNA vaccination against bovine viral diarrhoea virus induces humoral and cellular responses in cattle with evidence for protection against viral challenge DNA immunization of dairy cows with the clumping factor A of Staphylococcus aureus DNA vaccination against influenza viruses: a review with emphasis on equine and swine influenza DNA vaccination in avian Virus neutralizing antibody response in mice and dogs with a bicistronic DNA vaccine encoding rabies virus glycoprotein and canine parvovirus VP2 Electric pulses applied prior to intramuscular DNA vaccination greatly improve the vaccine immunogenicity Development of rabies DNA vaccine using a recombinant plasmid Brucella abortus: immunity, vaccines and prevention strategies based on nucleic acids Immune response in mice and cattle after immunization with a B. microplus DNA vaccine containing bm86 gene Protection of kids against C. parvum infection after immunization of dams with CP15-DNA Immunization with DNA vaccines encoding different mycobacterial antigens elicits a Th1 type immune response in lambs and protects against Mycobacterium avium subspecies paratuberculosis infection Development of DNA vaccine against chicken anemia virus simultaneously using it's VP1 and VP2 proteins The carboxyl-terminal 120-residue polypeptide of IB virus nucleocapsid induces CTLs and protects chickens from acute infection Recent developments in veterinary vaccinology DNA Fragment Encoding Human IL-1β 163-171 Peptide Enhances the Immune Responses Elicited in Mice by DNA Vaccine against Foot-and-Mouth Disease DNA vaccines: future strategies and relevance to intracellular pathogens Laboratory and field evaluation of Schistosoma japonicum DNA vaccines in sheep and water buffalo in China CD virus DNA vaccination induces humoral and cellular immunity and protects against a lethal intracerebral challenge DNA vaccines and adjuvants DNA immunization with a bovine rotavirus VP4 gene induces a Th1-like immune response in mice DNA vaccine using M. bovis Ag85B antigen induces partial protection against experimental infection in BALB/c mice Enhancing DNA vaccine potency by modifying the properties of antigen-presenting cells DNA vaccines: recent technological and clinical advances Effect of vaccination route and composition of DNA vaccine on the induction of protective immunity against psuedorabies infection in pigs Immune response to vaccines based upon the VapA protein of the horse pathogen, Rhodococcus equi, in a murine model Protection of turkeys against C. psittaci challenge by parenteral and mucosal inoculations and the effect of turkey interferon-gamma on genetic immunization Enhanced immunogenicity of microparticulated multiepitope DNA vaccine encoding T and B cell epitopes of foot and mouth disease virus in mice Immunomodulatory effect of plasmids co-expressing cytokines in classical swine fever virus subunit gp55/E2-DNA vaccination Direct gene transfer into mouse muscle in vivo A DNA vaccine against FMD elicits an immune response in swine which is enhanced by co-administration with interleukin-2. keywords: acid; animals; antibodies; antibody; antigen; avian; babiuk; bacterial; boost; bovine; brucella; canine; cattle; cells; cellular; challenge; classical; clinical; cpg; cytotoxic; delivery; dendritic; development; disease; distemper; dna; dna vaccines; dogs; dunham; effective; efficacy; encoding; envelope; equine; et al; expression; fever; fmd; foot; formulation; gene; generation; glycoprotein; gun; gupta; herpes; higher; host; humoral; immune; immunity; immunization; immunogenic; improved; induction; infection; influenza; like; liu; major; membrane; mice; mouth; mucosal; new; novel; nucleic; pigs; plasmid; potential; poultry; prevention; prime; protection; protein; rabies; recombinant; research; responses; sheep; significant; strategies; strategy; successful; swine; th1; transfection; trials; use; utility; vaccination; vaccines; vector; veterinary; viral; virus; vivo; vp1; vp2 cache: cord-269352-0o3mryu1.txt plain text: cord-269352-0o3mryu1.txt item: #344 of 647 id: cord-269426-82g5eiyg author: Holman, David H. title: Viral Vectors date: 2009-01-30 words: 8741 flesch: 24 summary: As a result, much work has focused on the use of recombinant virus vectors as a means for vaccination against human pathogens. This chapter describes the use of virus vectors in the context of vaccination against human pathogens. keywords: aav; ad vectors; ad5; adenovirus; administration; alphavirus; animal; antibodies; antigens; attenuated; avian; boost; capacity; cells; cellular; challenge; chapter; clinical; defective; dengue; development; disease; dna; early; ebola; effective; efficacy; encephalitis; envelope; equine; et al; evaluation; example; existing; exogenous; expression; family; foreign; fowlpox; gag; gene; generation; genetic; genome; glycoprotein; helper; hepatitis; herpes; high; hiv; host; human; immune; immunity; immunization; immunodeficiency; immunogenicity; infection; influenza; known; length; levels; live; marburg; measles; mice; models; modified; ndv; neutralizing; newcastle; packaging; particles; pathogens; phase; platforms; pre; primates; protective; protein; rabies; recombinant; replication; replicon; responses; rna; safety; sendai; serotypes; significant; simian; simplex; single; size; smallpox; stomatitis; strains; studies; system; therapy; transgene; trials; type; vaccination; vaccine; vaccine vectors; vaccinia; vaccinia virus; vectors; vesicular; viral; virus; virus vectors; viruses; vsv; zoonotic cache: cord-269426-82g5eiyg.txt plain text: cord-269426-82g5eiyg.txt item: #345 of 647 id: cord-269839-jxqs51o5 author: Bitome-Essono, Paul-Yannick title: Tracking zoonotic pathogens using blood-sucking flies as 'flying syringes' date: 2017-03-28 words: 5877 flesch: 49 summary: The omnipresence of hematophagous flies in certain habitats and their opportunistic blood-feeding behaviour (Muturi et al., 2011; Muzari et al., 2010; Späth, 2000) make of them compelling candidates to obtain blood meals from different vertebrate hosts for pathogen detection. Specifically, blood meals were from 20 vertebrate species, including 12 families and 8 orders (Figure 1b and Tables 2 and 3). keywords: africa; amplification; analysis; animals; birds; blood; blood meals; capture; collected; cytb; des; detection; difficult; diseases; diversity; dna; early; emergence; engorged; et al; extant; feeding; figure; flies; fly; fragment; gabon; gene; glossina; group; haemosporidian; hematophagous; hematophagous flies; high; hosts; human; identification; infectious; large; malaria; mammals; meals; methods; min; monitoring; mosquitoes; new; number; origin; palpalis; parasites; pathogens; pcr; plasmodium; range; reptiles; samples; sampling; sensitivity; sequences; shorter; species; stomoxids; study; syringes; system; tabanids; table; tool; trap; tsetse; unknown; use; vertebrate; viruses; wild; wildlife; zoonotic cache: cord-269839-jxqs51o5.txt plain text: cord-269839-jxqs51o5.txt item: #346 of 647 id: cord-270082-byxd4o4m author: Doheny, Kimberly Floy title: Identification of essential components of the S. cerevisiae kinetochore date: 1993-05-21 words: 9945 flesch: 50 summary: In control experiments, we examined the stability of dicentric chromosome fragments containing either a nearly wild-type (ACDEI) or a highly defective (CDEIII-15C) secondary conditional CfN ( Figures 3A and 38 ). Yeast Strains and Media The c/f and wild-type parental strains containing chromosome fragments that can be monitored by a visual assay have been previously described (Spencer et al., 1990; Shero et al., 1991) . keywords: acid; actin; activity; addition; amino; analysis; antibodies; arrest; assay; binding; biol; block; carbon; cbf3; cdeiii; cell; cen dna; centromere; cerevisiae; cff73; chromosome; chromosome fragment; collection; colony; color; complex; component; control; ctf13; ctfl4; cti73; cycle; data; defective; dicentric; dicentric chromosome; diploid; dna; epitope; essential; et al; events; exhibit; experimental; extracts; figure; fragment; function; fusion; gene; hieter; his3; identical; identification; increase; independent; kinetochore; lanes; lechner; levels; like; locus; loss; medium; microtubule; missegregation; mitotic; molecular; morphology; mutants; mutation; nonpermissive; observed; orf; phenotype; plasmid; present; probe; procedures; promoter; protein; putative; rates; readthrough; reporter; result; saccharomyces; screen; secondary; sectoring; segregation; sensitivity; sequence; single; site; spencer; spindle; stability; stabilization; strains; structure; table; temperature; test; transcriptional; transformants; type; vitro; vivo; wild; yeast cache: cord-270082-byxd4o4m.txt plain text: cord-270082-byxd4o4m.txt item: #347 of 647 id: cord-270637-4zphlpks author: Van Rompay, An R title: Substrate specificity and phosphorylation of antiviral and anticancer nucleoside analogues by human deoxyribonucleoside kinases and ribonucleoside kinases date: 2003-11-04 words: 11695 flesch: 34 summary: dGK can use several phosphate donors, but in vitro UTP is the preferred phosphate donor (Zhu et al., 1998a) . Zhu et al. (1998a) showed in vitro that dGK is important for AraG and dFdG phosphorylation, whereas dCK is the most important enzyme for activation of CdA and dFdC (Zhu et al., 1998a) . keywords: 3tc; accumulation; acid; action; activation; active; activity; acute; adenosine; adk; analogs; analogues; anticancer; antiviral; apoptosis; araa; arac; arag; ascites; azt; brain; cda; cdna; cells; cellular; chain; characterization; chromosome; chronic; clinical; cloning; compounds; concentrations; cycle; cytosol; cytosolic; cytotoxicity; dck; ddc; death; deoxycytidine; deoxyguanosine; deoxyribonucleoside; depletion; dfdc; dgk; different; dna; dnks; drug; dutpase; effects; enzyme; eriksson; et al; exons; expression; fiau; fig; form; galmarini; gene; genomic; gfp; high; hiv; human; immunodeficiency; important; incorporated; incorporation; inhibition; inhibitors; intracellular; kinase; leukemia; levels; like; lines; liver; low; lymphocytic; mammalian; mechanisms; membrane; metabolism; mitochondrial; molecular; monophosphate; mouse; mrna; mtdna; muscle; mutations; novel; nuclear; nucleoside; nucleus; pathway; pharmacological; phase; phosphorylation; polymerase; pools; potent; properties; protein; purine; pyrimidine; reductase; region; regulation; repair; replication; resistance; responsible; results; review; ribonucleoside; rna; rnks; role; rompay; salvage; sequence; small; specificity; step; structure; studies; substrate; synthesis; table; therapy; thymidine; thymidine kinase; tissues; tk1; tk2; toxicity; treatment; triphosphate; tumor; uck1; uck2; uracil; uridine; use; van; virus; zhu cache: cord-270637-4zphlpks.txt plain text: cord-270637-4zphlpks.txt item: #348 of 647 id: cord-271241-w1q46y63 author: Ruggiero, Emanuela title: Viral G-quadruplexes: New frontiers in virus pathogenesis and antiviral therapy date: 2020-05-18 words: 8942 flesch: 39 summary: In this chapter, we present the state of the art on the structural and functional characterization of viral G4s in RNA viruses, DNA viruses and retroviruses. 51 HCV was also used as the reference RNA virus to develop a fluorescence light-up probe, a thioflavine T derivative (ThT-NE), for the direct visualization of the native HCV RNA genome in living cells. keywords: ability; activity; agents; analysis; antiviral; associated; available; binding; braco-19; cancers; cells; cellular; characterized; chromatin; compounds; conserved; core; crucial; current; cycle; data; dependent; development; different; diseases; dna; drugs; early; ebna1; ebv; effect; expression; family; fig; fold; formation; forming; g4 ligands; g4s; gene; genome; hbv; hcv; hepatitis; hhvs; high; host; hpv; human; iii; immune; infected; infection; interaction; key; known; kshv; latency; latent; levels; life; ligands; long; loop; ltr; machinery; mechanism; mrna; new; non; nuclear; nucleolin; observed; people; pharmacological; polymerase; possibility; pqss; presence; progression; promoter; protein; quadruplex; rates; recombination; reduction; region; regulation; regulatory; related; repeat; replication; research; response; rna; role; sars; sequences; specific; stabilization; strand; structures; studies; synthesis; target; targeting; terminal; therapy; tmpyp4; transcription; translation; treatment; unique; viral; viral g4s; viral replication; virus; viruses; worldwide cache: cord-271241-w1q46y63.txt plain text: cord-271241-w1q46y63.txt item: #349 of 647 id: cord-271504-t3y1w9ef author: Luo, Zichao title: Combating the Coronavirus Pandemic: Early Detection, Medical Treatment, and a Concerted Effort by the Global Community date: 2020-06-16 words: 14501 flesch: 38 summary: Structural basis of influenza virus fusion inhibition by the antiviral drug Arbidol New small-molecule drug design strategies for fighting resistant influenza A Characteristics of arbidol-resistant mutants of influenza virus: implications for the mechanism of anti-influenza action of arbidol Mechanism of inhibition of enveloped virus membrane fusion by the antiviral drug arbidol Membranotropic effects of arbidol, a broad antiviral molecule, on phospholipid model membranes Clinical characteristics and therapeutic procedure for four cases with 2019 novel coronavirus pneumonia receiving combined Chinese and Western medicine treatment Discovering drugs to treat coronavirus disease 2019 (COVID-19) Effects of chloroquine on viral infections: an old drug against today's diseases Effect of weak bases on the intralysosomal pH in mouse peritoneal macrophages Mechanisms of action of hydroxychloroquine and chloroquine: implications for rheumatology Chloroquine inhibits autophagic flux by decreasing autophagosomelysosome fusion New insights into the antiviral effects of chloroquine Anti-HIV effects of chloroquine: inhibition of viral particle glycosylation and synergism with protease inhibitors Hydroxychloroquine, a less toxic derivative of chloroquine, is effective in inhibiting SARS-CoV-2 infection in vitro Chloroquine is a potent inhibitor of SARS coronavirus infection and spread In vitro inhibition of severe acute respiratory syndrome coronavirus by chloroquine Remdesivir and chloroquine effectively inhibit the recently emerged novel coronavirus (2019-nCoV) in vitro Breakthrough: chloroquine phosphate has shown apparent efficacy in treatment of COVID-19 associated pneumonia in clinical studies Chloroquine and hydroxychloroquine as available weapons to fight COVID-19 In vitro antiviral activity and projection of optimized dosing design of hydroxychloroquine for the treatment of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Effects of chronic exposure to hydroxychloroquine or chloroquine on inner retinal structures Animal toxicity and pharmacokinetics of hydroxychloroquine sulfate Retroviral proteases and their roles in virion maturation Host cell proteases: critical determinants of coronavirus tropism and pathogenesis Influenza and SARS-coronavirus activating proteases TMPRSS2 and HAT are expressed at multiple sites in human respiratory and gastrointestinal tracts Research and development on therapeutic agents and vaccines for COVID-19 and related human coronavirus diseases Virusencoded proteinases and proteolytic processing in the Nidovirales The SARS-coronavirus papain-like protease: structure, function and inhibition by designed antiviral compounds Crystal Structures of the Main Peptidase from the SARS Coronavirus Inhibited by a Substrate-like Aza-peptide Epoxide Simultaneous treatment of human bronchial epithelial cells with serine and cysteine protease inhibitors prevents severe acute respiratory syndrome coronavirus entry Protease inhibitors targeting coronavirus and filovirus entry Efficacy of camostat mesilate compared with famotidine for treatment of functional dyspepsia: is camostat mesilate effective? Camostat mesilate attenuates pancreatic fibrosis via inhibition of monocytes and pancreatic stellate cells activity Recent research by Hoffmann et al. showed a promising in vitro inhibitory effect of this serine protease inhibitor in SARS-CoV and 2019-nCoV on human lung cells, showing potential as a viable option for COVID-19 treatment [113] . keywords: accurate; ace2; acid; action; activity; acute; amplification; analysis; angiotensin; antibodies; antibody; antiviral; approach; arbidol; assay; associated; binding; blood; broad; camostat; care; carolacton; cas12a; cases; cells; cellular; characteristics; chemical; china; chinese; chip; chloroquine; clinical; control; copies; coronavirus; cov-2; covid-19; covid-19 patients; covs; crispr; critical; darunavir; data; days; design; detection; development; devices; diagnosis; digital; disease; dna; drug; early; east; effect; effective; efficacy; elisa; entry; enzyme; essential; favipiravir; figure; flow; fusion; genes; genome; group; hand; hcov; health; high; higher; hiv; hiv-1; host; human; hydroxychloroquine; igg; igm; ill; imaging; infected; infection; influenza; inhibition; inhibitors; isothermal; ivermectin; lamp; like; long; loop; lopinavir; lung; mechanism; medical; medicine; membrane; mers; mesylate; method; microfluidic; middle; model; molecular; molecule; mortality; nanoparticles; ncov; ncov detection; need; negative; new; novel; nucleic; orf1ab; outbreak; pandemic; pathogen; patients; pcr; people; person; platform; pneumonia; point; polymerase; positive; potential; present; prevention; primers; production; promising; protease; protein; rapid; rate; rdrp; reaction; real; recent; receptor; recombinase; remdesivir; replication; research; respiratory; results; reverse; review; ribavirin; risk; ritonavir; rna; rpa; safety; samples; sars; sensitivity; sequence; sequencing; severe; significant; single; specific; specificity; spike; spread; standard; step; strand; strategy; structure; studies; study; surface; symptoms; syndrome; system; target; targeted; tcm; technologies; technology; test; testing; therapeutic; therapy; time; traditional; transcription; transmission; treatment; trials; umifenovir; vaccine; viral; viruses; years cache: cord-271504-t3y1w9ef.txt plain text: cord-271504-t3y1w9ef.txt item: #350 of 647 id: cord-271635-tydlyc1q author: Abdel-Hamid, Nabil M. title: Herbal management of hepatocellular carcinoma through cutting the pathways of the common risk factors date: 2018-11-30 words: 10071 flesch: 30 summary: Inflammation and cancer STATs in cancer inflammation and immunity: a leading role for STAT3 Infections as a major preventable cause of human cancer New functions for the matrix metalloproteinases in cancer progression Role of nonresolving inflammation in hepatocellular carcinoma development and progression, Npj Precis Suppressive effect of natural sesquiterpenoids on inducible cyclooxygenase (COX-2) and nitric oxide synthase (iNOS) activity in mouse macrophage cells Xanthorrhizol inhibits 12-O-tetradecanoylphorbol-13-acetate-induced acute inflammation and two-stage mouse skin carcinogenesis by blocking the expression of ornithine decarboxylase, cyclooxygenase-2 and inducible nitric oxide synthase through mitogen-activated protein kinases and/or the nuclear factor-kappa B Evaluation of the antinociceptive activity and acute oral toxicity of standardized ethanolic extract of the rhizome of Curcuma xanthorrhiza Roxb Xanthorrhizol: a review of its pharmacological activities and anticancer properties Antiproliferative property and apoptotic effect of xanthorrhizol on MDA-MB-231 breast cancer cells Xanthorrhizol induced DNA fragmentation in HepG2 cells involving Bcl-2 family proteins Advances in the study of berberine and its derivatives: a focus on anti-inflammatory and anti-tumor effects in the digestive system Berberine suppresses proinflammatory responses through AMPK activation in macrophages Berberine mitigates cyclophosphamide-induced hepatotoxicity by modulating antioxidant status and inflammatory cytokines Berberine inhibits inflammatory response and ameliorates insulin resistance in hepatocytes Berberine induces autophagic cell death and mitochondrial apoptosis in liver cancer cells: the cellular mechanism Berberine induces cell death in human hepatoma cells in vitro by downregulating CD147 Berberine induces selective apoptosis through the AMPKmediated mitochondrial/caspase pathway in hepatocellular carcinoma Andrographolide sensitizes cancer cells to TRAIL-induced apoptosis via p53-mediated death receptor 4 upregulation Hepatoprotective and antiviral functions of silymarin components in HCV infection Inhibition of T-cell inflammatory cytokines, hepatocyte NF-kappaB signaling, and HCV infection by standardized Silymarin Identification of hepatoprotective flavonolignans from silymarin Anticancer potential of silymarin: from bench to bed side Silymarin inhibits in vitro T-cell proliferation and cytokine production in hepatitis C virus infection Differential in vitro effects of intravenous versus oral formulations of silibinin on the HCV life cycle and inflammation Silibinin is a potent antiviral agent in patients with chronic hepatitis C not responding to pegylated interferon/ribavirin therapy Silymarin inhibited proliferation and induced apoptosis in hepatic cancer cells Synergistic anti-cancer effect of baicalein and silymarin on human hepatoma HepG2 Cells Suppression of N-nitrosodiethylamine induced hepatocarcinogenesis by silymarin in rats Chemopreventive effect of silymarin on liver pathology in HBV X protein transgenic mice RUNX3 directly interacts with intracellular domain of Notch1 and suppresses Notch signaling in hepatocellular carcinoma cells Studies on mechanism of action of glycyrrhizin against hepatitis A virus replication in vitro Therapeutic basis of glycyrrhizin on chronic hepatitis B Review of pharmacological effects of Glycyrrhiza sp. keywords: ability; action; activation; active; activities; activity; administration; alcoholic; alpinia; andrographolide; anti; anticancer; antioxidant; antiviral; apoptosis; apoptotic; barbarum; berberine; broccoli; cancer; cancer cells; carcinoma; causes; cells; china; chronic; cirrhosis; cisplatin; compounds; content; countries; cox-2; cytokines; cytotoxic; damage; death; decrease; dependent; development; different; disease; dna; effect; enzymes; expression; extract; factors; family; fatty; fibrosis; free; genes; ginger; glabra; glycyrrhizin; green; growth; hbv; hcc; hcv; hepatic; hepatitis; hepatocellular; hepatocellular carcinoma; hepatoma; hepg2; herbal; high; human; il-6; important; increase; individuals; induced; induction; infection; inflammation; inflammatory; inhibition; inhibits; injury; insulin; kinase; level; like; lipid; liver; lpp; lycium; mechanisms; mice; mitochondrial; model; nafld; natural; nigella; non; nonalcoholic; numerous; obesity; officinarum; oxidative; oxidative stress; p53; pathway; patients; pharmacological; potential; prevention; products; progression; proliferation; properties; protein; rats; recent; reduction; regulation; related; resistance; review; rhizome; risk; role; ros; rsv; sativa; significant; silymarin; stress; studies; study; sulforaphane; tea; therapeutic; tissue; tnf; treatment; tumor; verum; viral; virus; vitamin; vivo cache: cord-271635-tydlyc1q.txt plain text: cord-271635-tydlyc1q.txt item: #351 of 647 id: cord-272357-fxe49zen author: Campolongo, Michael J. title: DNA nanomedicine: Engineering DNA as a polymer for therapeutic and diagnostic applications() date: 2010-04-30 words: 7374 flesch: 37 summary: For the purposes of our discussion, we make a distinction between 'DNA-based hydrogels' and 'DNA hydrogels'. As discussed previously, we define DNA hydrogels as swollen networks in which DNA either is the primary structural component or is cross-linked through physical or chemical interactions with other materials. keywords: acid; addition; affinity; amplification; antisense; applications; aptamers; architectures; arm; arrays; assay; assembly; aunp; binding; biological; biology; branched; cancer; cells; cellular; chemical; colorimetric; complementary; complex; complexes; conditions; conjugates; control; cross; crossover; delivery; dendrimer; design; detection; development; diagnostics; different; dna; double; drug; early; ends; fig; films; fluorescent; formation; free; functional; gene; gold; group; high; hybridisation; hydrogels; induced; interactions; junctions; ligands; ligation; linear; materials; method; mirkin; molecular; molecules; monomers; multiplexed; nanomedicine; nanoparticle; nanoscale; nanostructures; nanotechnology; networks; novel; nucleic; oligonucleotide; particular; polymer; polymeric; potential; presence; probes; production; properties; protein; recognition; reference; responsive; reversible; self; sensitive; sequences; single; specific; ssdna; stable; sticky; strands; structures; subunits; synthetic; systems; target; therapeutic; thrombin; time; topologies; unique; use; variety; workers cache: cord-272357-fxe49zen.txt plain text: cord-272357-fxe49zen.txt item: #352 of 647 id: cord-272579-aenuyht0 author: Emmett, Stevan R. title: The Cell Cycle and Virus Infection date: 2005 words: 6470 flesch: 56 summary: Increasingly we have found that proteomic approaches allow the rapid analysis of a whole plethora of cell cycle proteins that may be affected by virus infection. The supernatant is removed, and the cells are processed for flow cytometry to detect either incorporated BrdU or cell cycle marker proteins. keywords: agarose; analysis; antibody; avian; bio; blotting; buffer; cell; cell cycle; control; coronavirus; cover; cycle; cyclin; cytometry; dependent; different; dilution; dna; example; expression; fig; flow; free; function; gel; gels; host; human; ibv; ief; infected; infection; ipg; media; membrane; min; note; nucleolar; nucleoli; nucleolus; number; nylon; page; paper; particular; pbs; pcna; pellet; phase; positive; proteins; rad; replication; rna; sample; sds; solution; species; stage; step; strip; sufficient; transfer; tray; vero; viral; virus; viruses; volume; water; ° c cache: cord-272579-aenuyht0.txt plain text: cord-272579-aenuyht0.txt item: #353 of 647 id: cord-272943-q09i8fqu author: Dalhoff, A. title: Antiviral, antifungal, and antiparasitic activities of fluoroquinolones optimized for treatment of bacterial infections: a puzzling paradox or a logical consequence of their mode of action? date: 2014-12-17 words: 4721 flesch: 33 summary: Although the complexity and diversity of prokaryotic and eukaryotic topoisomerases is remarkable and little or no sequence homology of amino acids exists, type I and type II topoisomerases share certain structural elements mediating identical functions like DNA relaxation or DNA transport in bacteria, DNA viruses, yeasts, and parasites; the DNA helicase coordinates the directionality of topoisomerase activity; RNA helicases as present, e.g., in hepatitis C virus (HCV) directly interact with double-stranded DNA or RNA and assembles complexes with type II topoisomerases [49] [69] inhibited viral topoisomerase activity of vaccinia virus but not of herpes simplex virus and influenza virus keywords: acid; action; active; activities; activity; agents; albicans; amphotericin; antibacterial; antifungal; antiparasitic; antiviral; apicoplast; b.i.d; bacterial; broad; candida; cells; chloroquine; ciprofloxacin; clinical; combination; concentrations; days; dependent; derivatives; dna; drug; effects; efficacy; eukaryotic; falciparum; fluoroquinolones; gatifloxacin; hcv; helicase; human; immunomodulatory; infections; infective; inhibited; inhibition; kidney; levofloxacin; malaria; mode; moxifloxacin; nalidixic; new; norfloxacin; parasites; patients; plasmodium; polyomavirus; range; replication; rna; spp; structural; studies; study; target; topoisomerases; toxoplasma; transplantation; treatment; trovafloxacin; type; use; virus; vitro; vivo; yeast cache: cord-272943-q09i8fqu.txt plain text: cord-272943-q09i8fqu.txt item: #354 of 647 id: cord-273347-eyxc4rt0 author: Mohammadinejad, Reza title: In vivo gene delivery mediated by non-viral vectors for cancer therapy date: 2020-07-04 words: 7799 flesch: 18 summary: There are J o u r n a l P r e -p r o o f several studies demonstrating that the p53 mediated gene therapy for breast cancer treatment is an efficient approach in cancer gene therapy (204, 205) . Moreover, gene delivery is accounted as a hopeful strategy for brain cancer treatment. keywords: acid; action; advances; anticancer; antisense; apoptosis; applications; approaches; barrier; biodegradable; brain; breast; breast cancer; calcium; cancer; cancer therapy; carcinoma; carriers; cas9; cationic; cells; chemotherapy; clinical; coated; colon; colorectal; combination; complex; crispr; delivery; delivery systems; dendrimers; dependent; design; development; diagnosis; different; dna; drug; drug delivery; dual; editing; effect; effective; efficacy; efficient; encoding; evaluation; expression; gastric; gene; gene delivery; gene therapy; genetic; glioblastoma; glioma; growth; hcc; hepatocellular; higher; human; imaging; lipid; liposome; loaded; lung; lung cancer; major; materials; mechanism; mice; model; molecular; mrna; multifunctional; nanocomplexes; nanoparticles; new; non; nonviral; novel; nps; nuclear; nucleic; p53; pegylated; pei; peptide; plasmid; polyethylenimine; polymer; polymeric; potential; preparation; primary; production; properties; prostate; protein; receptor; regulation; release; resistance; self; silencing; silica; sirna; site; small; specific; strategies; study; suicide; suppressor; survival; systemic; systems; targeted; targeting; therapeutic; therapy; toxicity; trail; transfection; transfer; transferrin; treatment; triple; tumor; ultrasound; vectors; vehicles; viral; vivo cache: cord-273347-eyxc4rt0.txt plain text: cord-273347-eyxc4rt0.txt item: #355 of 647 id: cord-273716-vv3pyft4 author: Khosravi-Darani, Kianoush title: The role of high-resolution imaging in the evaluation of nanosystems for bioactive encapsulation and targeted nanotherapy date: 2007-07-03 words: 10235 flesch: 25 summary: Scanning tunneling microscopy study of cytochrome P450 2B4 incorporated in proteoliposomes Porous silicon as drug carrier for controlled delivery of doxorubicin anticancer agent Targeted drug delivery in cancer therapy Nanosystems in drug targeting: opportunities and challenges Characterization of a novel costimulatory molecule: a 155-160 kD B cell surface protein provides accessory help to CD 4+ T cells to proliferate and differentiate Targeting liposomes with protein drugs to the blood-brain barrier in vitro The emerging nanomedicine landscape Nanotechnology applications in medicine Nanotechnology: a new look Penetration enhancers Magnetic nanoparticles of Fe and Nd-Fe-B alloy encapsulated in carbon shells for drug delivery systems: study of the structure and interaction with the living cells PLGA/mesoporous silica hybrid structure for controlled drug release Recent advances in micro-and nanoencapsulation of food ingredients Ab initio study of pristine and Si-doped capped carbon nanotubes interacting with nimesulide molecules Scanning tunnelling microscopy investigation of liposome-DNA-Ca 2+ complexes Cochleates: new lipidbased drug delivery system Cochleates: lipid-based vehicles for gene delivery -concept, achievements and future development Nanocochleate cylinders for oral and parenteral delivery of drugs Organspecific gene expression in the rhesus monkey eye following intravenous nonviral gene transfer Lipid spin labeling and n.m.r. study of the interaction between polyadenylic acid:-polyuridilic acid duplex and egg phosphatidylcholine vesicles. An ideal dendrimer as bioactive delivery system, however, must also be nontoxic, nonimmunogenic and biodegradable (for a review, see Aulenta et al., 2003) . keywords: 2005a; acid; addition; afm; agents; anionic; applications; aqueous; archaeosomes; atomic; barrier; bilayer; bioactive; bioactive delivery; biodegradable; biological; blood; body; brain; cancer; carbon; case; cationic; cells; characteristics; characterization; chemical; circulation; clinical; cochleates; compounds; conditions; delivery; delivery systems; dendrimers; development; different; distribution; dna; drug; drug delivery; effect; efficient; electron; encapsulation; et al; evaluation; field; fig; force; gene; health; high; hughes; human; hydrophobic; imaging; important; information; interaction; large; ligands; light; lipid; liposomes; low; magnetic; material; mechanisms; mesoporous; method; microscopy; molecular; molecules; morphology; mortazavi; mozafari; mozafari et; nanocarriers; nanoliposomes; nanomedicine; nanoparticles; nanoscale; nanosystems; nanotechnology; nanotherapy; nanotubes; new; niosomes; novel; nucleic; oral; order; particular; pharmaceutical; physical; polymer; polynucleotides; porous; possible; potential; preparation; present; promising; properties; protection; proteins; pulmonary; range; recent; release; resolution; review; role; sample; scanning; silicon; site; size; skin; small; soluble; specific; spm; stability; structure; studies; study; surface; systems; targeted; targeting; techniques; technologies; temperature; therapeutic; therapy; tissues; toxicity; transfer; treatment; tumors; tunneling; unique; use; useful; vectors; vesicles; viral; vitro; vivo cache: cord-273716-vv3pyft4.txt plain text: cord-273716-vv3pyft4.txt item: #356 of 647 id: cord-273993-rkqijcxn author: Menchaca, A. title: CRISPR in livestock: From editing to printing date: 2020-01-29 words: 6887 flesch: 38 summary: The increasing availability of CRISPR large animal models for human diseases and xenotransplantation will help to develop global therapies and personalized medicine to improve human health. Standard microinjection protocols originally developed to obtain genome-edited mice have been adapted to livestock zygotes, since CRISPR system can be easily injected into the dark cytoplasm of livestock species with no need to visualize the pronucleus. keywords: acceptable; addition; animals; application; approach; available; cas9; cattle; cell; control; crispr; design; development; different; direct; diseases; dna; donor; double; drive; edited; editing; effects; efficiency; electroporation; embryos; farm; food; gene; generation; genetic; genome; genome editing; global; goats; hdr; health; high; human; infection; interesting; knockout; laboratory; lambs; large; livestock; low; main; male; meat; methods; mice; microinjection; minimum; models; mstn; mutation; new; nhej; novel; nuclease; offspring; opportunities; pests; pigs; population; porcine; possible; potential; production; projects; quality; rate; repair; reproductive; research; resistance; results; scnt; sequences; sgrna; sheep; single; site; species; strategy; survival; system; target; technical; technology; traits; transfer; use; virus; vitrification; vivo; volume; welfare; years; zygotes cache: cord-273993-rkqijcxn.txt plain text: cord-273993-rkqijcxn.txt item: #357 of 647 id: cord-274049-3gw65kpu author: Zhang, Han title: CRISPR Editing in Biological and Biomedical Investigation date: 2017-05-31 words: 6629 flesch: 30 summary: CRISPR/Casmediated genome engineering Multiple gene repression in cyanobacteria using CRISPRi Genome editing using CRISPR-Cas9 to create the HPFH genotype in HSPCs: An approach for treating sickle cell disease and beta-thalassemia Therapeutic genome editing by combined viral and non-viral delivery of CRISPR system components in vivo Genome editing with Cas9 in adult mice corrects a disease mutation and phenotype Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds Cpf1 is a single RNA-guided endonuclease of a class 2 CRISPR-Cas system TG2 and NF-kappaB signaling coordinates the survival of mantle cell lymphoma cells via IL6-mediated autophagy Hedgehog inhibitors selectively target cell migration and adhesion of mantle cell lymphoma in bone marrow microenvironment CRISPR-Cas9 technology and its application in haematological disorders Tampering with cancer chemoresistance by targeting the TGM2-IL6-autophagy regulatory network Painting a specific chromosome with CRISPR/Cas9 for live-cell imaging High-throughput screening of a CRISPR/Cas9 library for functional genomics in human cells Generation of gene-target dogs using CRISPR/Cas9 system This work is supported by R01 (R01CA181319) and R21 (R21CA202212) given to NM. Of the three types of CRISPR systems, the type II CRISPR nuclease system is the simplest for genome editing technology, which requires only a Cas9 protein and two RNAs: CRISPR RNAs (crRNA) and transactivating crRNAs (tracrRNA) keywords: activation; activators; addition; animal; applications; approach; associated; biomedical; cancer; cas9; cas9 system; cells; chromosome; cleavage; complex; control; correction; crispr; crrna; delivery; design; development; disease; disorders; dmd; dna; edited; editing; efficient; embryonic; endonuclease; engineering; essential; et al; expression; fig; functional; gene; generation; genetic; genome; genomic; group; guide; hdr; high; homologous; human; imaging; induced; inducible; knockout; later; leukemia; live; loci; loss; lung; method; mice; modeling; models; mouse; multiple; mutations; nhej; non; novel; pathway; platform; potential; programmable; protein; regulation; regulatory; repair; researchers; rna; rnai; robust; scientists; screening; screens; sequence; sgrna; single; somatic; specific; strategies; strategy; studies; study; system; target; targeted; targeting; team; technology; therapeutic; tool; tracrrna; transcription; viral; vivo; wang; year; zebrafish; zhang; zygotes cache: cord-274049-3gw65kpu.txt plain text: cord-274049-3gw65kpu.txt item: #358 of 647 id: cord-274080-884x48on author: Rumlová, Michaela title: In vitro methods for testing antiviral drugs date: 2018-06-30 words: 18015 flesch: 26 summary: Virus-encoded methyltransferases have been identified and characterized in flaviviruses such as Zika virus Coutard et al., 2017; Duan et al., 2017; Munjal et al., 2017; Zhao et al., 2017) , West Nile virus, and dengue virus (Dong et al., 2012) ; rhabdoviruses such as vesicular stomatitis virus (VSV) (Rahmeh et al., 2009 ); coronaviruses such as SARS (Wang et al., 2015b) ; and roniviruses (Zeng et al., 2016) . Alternatively, cleavage products may be monitored by analysis of proteolytic products by mass spectrometric methods (Hu et al., 2015; Joshi et al., 2017; Lathia et al., 2011; Rumlová et al., 2003) , analytical HPLC (Teruya et al., 2016) , or electrochemical methods based on the difference in penetration of substrate and cleavage products through the membrane of a polyionselective sensor (Gemene and Meyerhoff, 2011; Han et al., 1996) . keywords: acid; activation; activities; activity; adenoviruses; adp; analysis; antibodies; antibody; antiviral; approach; assay; assembly; atpase; available; binding; biochemical; budding; c virus; capsid; ccr5; cell; cellular; changes; characterization; cleavage; clercq; clinical; common; complex; complexes; components; compounds; conditions; contrast; core; coronavirus; cov; cycle; cytoplasm; cytosol; dengue; dependent; design; detection; determination; development; different; direct; disassembly; discovery; dna; domain; drug; dsdna; early; east; ebola; encode; endocytosis; endosomal; endosomes; entry; envelope; enveloped viruses; enzymes; escape; escrt; et al; example; expression; factors; fields; fig; flaviviruses; fluorescence; formation; furin; fusion; gag; genetic; genome; genomic; glycoproteins; golgi; gp41; grna; hbv; hcv; helenius; helicase; hepatitis; herpesviruses; high; highthroughput; hiv-1; host; host cell; hts; human; icosahedral; identification; immunodeficiency; infected; infection; influenza; influenza virus; inhibition; inhibitors; insights; integrase; integration; interactions; intracellular; kinase; knipe; large; late; layer; leukemia; life; like; lipid; luciferase; machinery; majority; mass; material; matrix; maturation; mechanism; membrane; mers; method; methylation; methyltransferase; middle; modified; molecular; molecule; monitoring; mrna; multiple; murine; nanoparticles; new; novel; npc; ns3; nuclear; nucleic; nucleocapsid; nucleus; numerous; packaging; particles; pathways; peptide; phase; phosphorylation; plasma; polarization; poliovirus; polymerase; pore; positive; potential; poxviruses; presence; primary; process; processing; production; products; protease; protein; proteolytic; purified; pyrophosphate; quantitative; reaction; real; receptor; recombinant; release; replication; reporter; resistant; respiratory; retroviral; retroviruses; reverse; review; rna; rna polymerase; rna viruses; role; sars; screening; selective; sensitive; shell; signaling; simplex; single; sites; size; small; specific; stages; steps; stomatitis; strand; structural; study; substrate; surface; syndrome; synthesis; system; target; targeting; techniques; terminal; throughput; time; tqon; transcribed; transcriptase; transcription; translation; transport; type; tyrosine; uncoating; unique; vaccinia; vesicles; vesicular; viral; viral proteins; viral rna; virions; virus; virus entry; virus replication; virus type; viruses; vivo; wang; wang et; zika cache: cord-274080-884x48on.txt plain text: cord-274080-884x48on.txt item: #359 of 647 id: cord-274128-kgtr77e7 author: Hochstetter, Axel title: Lab-on-a-Chip Technologies for the Single Cell Level: Separation, Analysis, and Diagnostics date: 2020-04-29 words: 14659 flesch: 45 summary: For an overview of the pros and cons of DEP in the context of single cell separation and diagnostics, refer to Table 2 . For an overview of the pros and cons of DEP in the context of single cell separation and diagnostics, refer to Table 2 . keywords: acid; acoustic; additional; amplification; analysis; applicable; applications; approaches; array; assays; beam; binding; blood; blood cells; cancer; care; cavity; cell; cell diagnostic; cell separation; cellular; center; channel; chip; combination; combined; concentration; cons; contents; context; continuous; cov-2; culture; curved; dean; deformability; density; dep; detection; deterministic; devices; diagnostics; diameter; different; dipole; diseases; displacement; dld; dna; drag; droplet; drug; e.g.; effective; electric; enrichment; example; falciparum; field; figure; flow; force; free; gradient; high; higher; holographic; human; hydrodynamic; index; individual; induced; inertial; infected; intensity; isothermal; lab; lamp; laser; lateral; level; life; lift; light; like; loop; magnetic; malaria; manipulation; mass; measurement; medium; microchannel; microfluidic; microscopy; model; molecular; motility; non; nucleic; optical; overview; paper; parasites; particle; particle separation; parts; pcr; phase; photons; pillars; plasmodium; pmf; point; portable; position; possible; potential; primers; pros; radius; rbcs; reaction; real; red; refractive; research; results; review; sample; sars; saw; scale; separate; separation; setup; shape; single; single cell; size; sorting; sphere; ssaw; steps; surface; system; table; target; techniques; technologies; tests; throughput; time; traps; trypanosomes; tumor; tweezers; types; usage; volume; water; waves; years cache: cord-274128-kgtr77e7.txt plain text: cord-274128-kgtr77e7.txt item: #360 of 647 id: cord-274644-gr1eaj6k author: Chen, Zhao-Chi title: Thermally stable and uniform DNA amplification with picosecond laser ablated graphene rapid thermal cycling device date: 2019-12-15 words: 5170 flesch: 54 summary: Moreover, surface property of MLG PCR device with hydrophilic pattern sites here was required to be the use of forensic DNA evidence. The fabrication process of a hole-array rapid thermal cycling (HA-RTC) PCR device is illustrated in Fig. keywords: ablated; ablation; amplification; applied; array; band; bkv; chang; characteristics; chip; co.; control; copies; cycles; cycling; detection; device; distribution; dna; electrodes; et al; fig; film; fluence; genomic; glass; graphene; heating; high; hole; lag; laser; limit; low; ltd; material; method; min; mlg; mlg thin; model; pcr; pcr device; picosecond; power; process; pulse; range; rapid; reaction; rtc; rtc pcr; stable; step; structures; substrate; surface; taiwan; technique; temperature; thermal; thin; thin film; uniform; usa; use; vessel; virus; voltage; water cache: cord-274644-gr1eaj6k.txt plain text: cord-274644-gr1eaj6k.txt item: #361 of 647 id: cord-274707-mxh38hwd author: Laureano, Ana Flávia Santarine title: The different tests for the diagnosis of COVID-19 - A review in Brazil so far date: 2020 words: 3741 flesch: 42 summary: Most rapid tests use colloidal gold particles in a technique known as immunochromatography, also called lateral flow immunoassay, a type of sandwich assay that relies on a pair of antibodies used to recognize two independent epitopes of a protein, and therefore it can achieve high specificity (Zhou et al., 2012) . This kind of test is being used for pregnancy (Puertas et al., 2010) , HIV (Granade et al., 2010) , bacterial infections (Huang, 2007) , drugs of abuse (Gonzalez et al., 2011) , food contaminants and dengue virus (Cuzzubbo et al., 2001) , and many tests are commercially available (Zhou et al., 2012) . keywords: antibodies; antibody; antigen; assays; available; blood; brazilian; capture; cases; china; clinical; colour; control; coronavirus; cov-2; covid-19; current; dab; detection; development; diagnosis; different; disease; dna; enzyme; et al; flow; gold; health; igg; igm; immunoassay; infection; lateral; line; novel; outbreak; pad; pandemic; patients; pcr; plasma; positive; presence; present; primers; products; rapid; reaction; regions; respiratory; result; sample; sars; specific; symptoms; testing; tests; time; transmission; use cache: cord-274707-mxh38hwd.txt plain text: cord-274707-mxh38hwd.txt item: #362 of 647 id: cord-275232-0sg0hv9w author: Yeung, Siu-Wai title: A DNA biochip for on-the-spot multiplexed pathogen identification date: 2006-09-25 words: 3243 flesch: 36 summary: Miniaturised nucleic acid analysis Microfabricated systems for nucleic acid analysis DNA-based bioanalytical microsystems for handheld device applications Electrochemical DNA sensors Electrochemical nucleic acid biosensors Nanomaterial-based electrochemical biosensors Self-contained, fully integrated biochip for sample preparation, polymerase chain reaction amplification, and DNA microarray detection Microfabricated PCR-electrochemical device for simultaneous DNA amplification and detection An integrated nanoliter DNA analysis device Effects of gold nanoparticle and electrode surface properties on electrocatalytic silver deposition for electrochemical DNA hybridization detection Preparation of a DNA matrix via an electrochemically directed copolymerization of pyrrole and oligonucleotides bearing a pyrrole group Gold nanoparticle-catalyzed silver electrodeposition on an indium tin oxide electrode and its application in DNA hybridization transduction Results of the two different types of electrodes (functionalized with E.coli and B.subtilis detection capture probe) when subjected to different sample solutions. (7) successfully demonstrated a fully integrated biochip for cell isolation and lysis, target amplification, as well as electrochemical amplicon detection. keywords: amplicons; amplification; analysis; assay; b.subtilis; background; buffer; capture; cells; chip; design; detection; device; different; dna; e.coli; electrochemical; electrodes; figure; genome; glass; gold; heater; immobilization; immobilized; isolation; lysis; magnetic; microchamber; nanoparticles; oligonucleotide; particles; pcr; preparation; probe; process; pyrrole; sample; sequence; signal; silicon; silver; single; solution; specific; ssc; steps; target; temperature; thermal; usa; work cache: cord-275232-0sg0hv9w.txt plain text: cord-275232-0sg0hv9w.txt item: #363 of 647 id: cord-275886-502es8qm author: Chailapakul, Orawon title: Paper-based sensors for the application of biological compound detection date: 2020-06-05 words: 7057 flesch: 37 summary: 1. Blocking effect of 4-nitrophenyl and 4-carboxyphenyl groups Paper-based microfluidic analytical devices for colorimetric detection of toxic ions: a review Simple silver nanoparticle colorimetric sensing for copper by paper-based devices Facile colorimetric detection of Hg2 + based on anti-aggregation of silver nanoparticles Highly selective and sensitive paper-based colorimetric sensor using thiosulfate catalytic etching of silver nanoplates for trace determination of copper ions Quantitative colorimetric paper analytical devices based on radial distance measurements for aqueous metal determination Microfluidic paper-based analytical device for the determination of nitrite and nitrate Electrochemical determination of homocysteine at a gold nanoparticlemodified electrode Simple telemedicine for developing regions: camera phones and paper-based microfluidic devices for real-time, off-site diagnosis Electrochemical detection for paper-based microfluidics A low-cost, simple, and rapid fabrication method for paper-based microfluidics using wax screen-printing Synthesis of PANI/hematite/PB hybrid nanocomposites and fabrication as screen printed paper based sensors for cholesterol detection Development of electrochemical paper-based glucose sensor using Cellulose-4-aminophenylboronic acid-modified screen-printed carbon electrode Novel paper-based cholesterol biosensor using graphene/polyvinylpyrrolidone/polyaniline nanocomposite Use of multiple colorimetric indicators for paper-based microfluidic devices Novel, simple and low-cost alternative method for fabrication of paper-based microfluidics by wax dipping Label-free paper-based electrochemical impedance immunosensor for human interferon gamma detection An origami paper-based electrochemical immunoassay for the C-reactive protein using a screen-printed carbon electrode modified with graphene and gold nanoparticles 3D capillary-driven paper-based sequential microfluidic device for electrochemical sensing applications A folding affinity paper-based electrochemical impedance device for cardiovascular risk assessment A multiplexed three-dimensional paper-based electrochemical impedance device for simultaneous label-free affinity sensing of total and glycated haemoglobin: the potential of using a specific single-frequency value for analysis Wax-assisted one-step enzyme-linked Immunosorbent assay on lateral flow test devices Development of an automated wax-printed paper-based lateral flow device for alpha-fetoprotein enzyme-linked immunosorbent assay Development of automated paper-based devices for sequential multistep sandwich enzyme-linked immunosorbent assays using inkjet printing Blood separation on microfluidic paper-based analytical devices Detection of hepatitis B virus DNA with a paper electrochemical sensor PNA hybridizes to complementary oligonucleotides obeying the Watson-Crick hydrogen-bonding rules Sequence-selective recognition of DNA by strand displacement with a thymine-substituted polyamide Peptide nucleic acid probes for sequence-specific DNA biosensors Electrochemical DNA hybridization detection using peptide nucleic acids and Fluorescence in situ hybridization with peptide nucleic acid probes for rapid identification of Candida albicans directly from blood culture bottles Conformationally constrained PNA analogues: structural evolution toward DNA/RNA binding selectivity Electrochemical paper-based peptide nucleic acid biosensor for detecting human papillomavirus Electrochemical impedance-based DNA sensor using pyrrolidinyl peptide nucleic acids for tuberculosis detection Multiplex paper-based colorimetric DNA sensor using pyrrolidinyl peptide nucleic acid-induced AgNPs aggregation for detecting MERS-CoV, MTB, and HPV oligonucleotides A copper oxide-ionic liquid/reduced graphene oxide composite sensor enabled by digital dispensing: non-enzymatic paper-based microfluidic determination of creatinine in human blood serum Non-enzymatic electrochemical detection of glucose with a disposable paper-based sensor using a cobalt phthalocyanine-ionic liquid-graphene composite Disposable paper-based electrochemical sensor using thiolterminated poly(2-methacryloyloxyethyl phosphorylcholine) for the label-free detection of C-reactive protein Boron doped diamond paste electrodes for microfluidic paperbased analytical devices Janus electrochemistry: simultaneous electrochemical detection at multiple working conditions in a paper-based analytical device A novel paper-based colorimetry device for the determination of the albumin to creatinine ratio Determination of aerosol oxidative activity using silver nanoparticle aggregation on paper-based analytical devices In 2009, our group reported for the first time an enzymatic electrochemical method based on paper based analytical device (PADs) for the simultaneous determination of uric acid, glucose and lactate in biological fluids. keywords: acid; acpcpna; agnps; analysis; analytes; analytical; applications; assay; bdd; biological; biosensors; blood; carbon; change; cholesterol; colorimetric; colour; compounds; concentration; conditions; cost; crp; detection; determination; development; device; diagnosis; different; disposable; dna; electrochemical; electrochemistry; electrode; enzymatic; enzyme; epad; excellent; fabrication; fig; flow; free; glucose; graphene; green; human; immunoassay; indicators; label; measurement; method; microfluidic; modification; multiple; nanoparticles; nucleic; pads; paper; paste; peptide; platform; point; portable; probe; protein; rapid; reaction; reagents; recognition; sample; screen; selectivity; sensing; sensitivity; sensor; separation; signal; silver; single; solution; specific; step; surface; system; target; techniques; time; use; wax; working; zone; μpad cache: cord-275886-502es8qm.txt plain text: cord-275886-502es8qm.txt item: #364 of 647 id: cord-276101-quis0c6e author: Hamula, Camille L.A. title: Selection and analytical applications of aptamers binding microbial pathogens date: 2011-09-09 words: 4746 flesch: 52 summary: As many as 20 rounds of selection are carried out until a pool of aptamer sequences with high target affinity is obtained. The reiterated rounds of selection are carried out to generate a pool of aptamer sequences that have high affinity for the target molecule. keywords: acid; affinity; analytical; antibodies; antibody; applications; aptamers; aptasensors; assay; bacterial; beads; binding; biosensors; biotinylated; capture; cells; cfu; coli; complexes; cytometry; detection; different; dna; flow; fluorescent; group; hcv; high; interaction; library; live; magnetic; mammalian; modified; molecules; need; nts; nucleic; pathogen; pcr; pool; potential; protein; purified; quencher; range; recent; rounds; samples; sandwich; selection; selex; sensor; sequences; signal; slow; somamers; specific; spores; surface; target; technology; use; variety; virus cache: cord-276101-quis0c6e.txt plain text: cord-276101-quis0c6e.txt item: #365 of 647 id: cord-276271-3nz3169p author: Deborggraeve, Stijn title: T. cruzi OligoC-TesT: A Simplified and Standardized Polymerase Chain Reaction Format for Diagnosis of Chagas Disease date: 2009-06-02 words: 4736 flesch: 48 summary: key: cord-276271-3nz3169p authors: Deborggraeve, Stijn; Coronado, Ximena; Solari, Aldo; Zulantay, Ines; Apt, Werner; Mertens, Pascal; Laurent, Thierry; Leclipteux, Thierry; Stessens, Tim; Dujardin, Jean-Claude; Herdewijn, Piet; Büscher, Philippe title: T. cruzi OligoC-TesT: A Simplified and Standardized Polymerase Chain Reaction Format for Diagnosis of Chagas Disease date: 2009-06-02 journal: PLoS Negl Trop Dis DOI: 10.1371/journal.pntd.0000450 sha: doc_id: 276271 cord_uid: 3nz3169p BACKGROUND: PCR has evolved into one of the most promising tools for T. cruzi detection in the diagnosis and control of Chagas disease. We here present the development and phase I evaluation of the T. cruzi OligoC-TesT, a simple and standardized dipstick format for detection of PCR amplified T. cruzi DNA. keywords: amplification; animals; assay; biological; blood; chagas; chain; children; chile; chronic; control; cruzi; cruzi oligoc; detection; diagnosis; different; dipstick; disease; dna; endemic; format; high; human; infected; infections; isolates; lineage; lower; migration; molecular; negative; non; oligoc; parasite; patients; pcr; persons; polymerase; positive; primers; probes; rangeli; reaction; reservoir; results; samples; satellite; sensitivity; sequence; specificity; standardization; standardized; step; t. cruzi; t. rangeli; technique; test; transmission; treatment; trypanosoma; use; vectors cache: cord-276271-3nz3169p.txt plain text: cord-276271-3nz3169p.txt item: #366 of 647 id: cord-276335-e1xlwcvc author: Poh, W.P. title: Characterization of cytotoxic T‐lymphocyte epitopes and immune responses to SARS coronavirus spike DNA vaccine expressing the RGD‐integrin‐binding motif date: 2009-05-27 words: 6081 flesch: 46 summary: key: cord-276335-e1xlwcvc authors: Poh, W.P.; Narasaraju, T.; Pereira, N.A.; Zhong, F.; Phoon, M.C.; Macary, P.A.; Wong, S.H.; Lu, J.; Koh, D.R.; Chow, Vincent T.K. title: Characterization of cytotoxic T‐lymphocyte epitopes and immune responses to SARS coronavirus spike DNA vaccine expressing the RGD‐integrin‐binding motif date: 2009-05-27 journal: J Med Virol DOI: 10.1002/jmv.21571 sha: doc_id: 276335 cord_uid: e1xlwcvc Integrins are critical for initiating T‐cell activation events. Hence, the S2 subunit is complementary to the S1 domain, which has been demonstrated to be crucial for the development of immunogenic vaccines against SARS-CoV. Amino acids 270 to 510 of the severe acute respiratory syndrome coronavirus spike protein are required for interaction with receptor The JHM strain of mouse hepatitis virus induces a spike protein-specific Db-restricted cytotoxic T cell response Severe acute respiratory syndrome coronavirus spike protein expressed by attenuated vaccinia virus protectively immunizes mice Contributions of the structural proteins of severe acute respiratory syndrome coronavirus to protective immunity CD8þ T-cell epitopes within the surface glycoprotein of a neurotropic coronavirus and correlation with pathogenicity Response of memory CD8þ T cells to severe acute respiratory syndrome (SARS) coronavirus in recovered SARS patients and healthy individuals Recombinant modified vaccinia virus Ankara expressing the spike glycoprotein of severe acute respiratory syndrome coronavirus induces protective neutralizing antibodies primarily targeting the receptor binding region Severe acute respiratory syndrome coronavirus induces differential host gene expression responses associated with pathogenesis DNA-based immunization induces continuous secretion of hepatitis B surface antigen and high levels of circulating antibody The secret life of ACE2 as a receptor for the SARS virus DNA vaccines: Protective immunizations by parenteral, mucosal, and gene-gun inoculations An RGD-oligolysine peptide: A prototype construct for integrin-mediated gene delivery Receptor-binding domain of severe acute respiratory syndrome coronavirus spike protein contains multiple conformation-dependent epitopes that induce highly potent neutralizing antibodies Immunization with SARS-CoV S DNA vaccine generates memory CD4þ and CD8þ T cell immune responses SARS-CoV spike protein-expressing recombinant vaccinia virus efficiently induces neutralizing antibodies in rabbits preimmunized with vaccinia virus Immune responses to plasmid DNA encoding the hepatitis C virus core protein Microarray and real-time RT-PCR analyses of differential human gene expression patterns induced by severe acute respiratory syndrome (SARS) coronavirus infection of Vero cells The SARS coronavirus spike glycoprotein is selectively recognized by lung surfactant protein D and activates macrophages Angiotensin-converting enzyme 2 is a functional receptor for the SARS coronavirus Laminin-10 is crucial for hair morphogenesis DNA vaccines: Recent developments and future possibilities Immunological characterization of the spike protein of the severe acute respiratory syndrome coronavirus Laminins and human disease Immunological capabilities of skeletal muscle cells Sequence analysis reveals extensive polymorphism and evidence of deletions within the E2 glycoprotein gene of several strains of murine hepatitis virus A model of the ACE2 structure and function as a SARS-CoV receptor Integrins and T cell-mediated immunity RGD and other recognition sequences for integrins Targeted recombination demonstrates that the spike gene of transmissible gastroenteritis coronavirus is a determinant of its enteric tropism and virulence Rapid response research-SARS coronavirus vaccines and application of processes to other emerging infectious diseases The nucleocapsid protein of severe acute respiratory syndrome-coronavirus inhibits the activity of cyclin-cyclin-dependent kinase complex and blocks S phase progression in mammalian cells Immunological properties of the thymopentin-like fragments of HLA-DQ Characterization of viral proteins encoded by the SARS-coronavirus genome Human monoclonal antibody combination against SARS coronavirus: Synergy and coverage of escape mutants HLA-A*0201 T-cell epitopes in severe acute respiratory syndrome (SARS) coronavirus nucleocapsid and spike proteins Gene inoculation generates immune responses against human immunodeficiency virus type 1 Identification of an HLA-A*0201-restricted CD8þ T-cell epitope Ssp-1 of SARS-CoV spike protein Identification of two neutralizing regions on the severe acute respiratory syndrome coronavirus spike glycoprotein produced from the mammalian expression system A 193-amino acid fragment of the SARS coronavirus S protein efficiently binds angiotensin-converting enzyme 2 Vaccination with a plasmid vector carrying the rabies virus glycoprotein gene induces protective immunity against rabies virus A DNA vaccine induces SARS coronavirus neutralization and protective immunity in mice Identification of murine CD8 T cell epitopes in codon-optimized SARS-associated coronavirus spike protein High expression level of soluble SARS spike protein mediated by adenovirus in HEK293 cells An exposed domain in the severe acute respiratory syndrome coronavirus spike protein induces neutralizing antibodies We are grateful to Dr. Y.H. Chan for statistical analyses, N.P. Ramachandran, and Kelly Lau for technical assistance. keywords: acute; amino; antibody; antigen; assay; binding; c57bl/6; cells; coronavirus; cov; cytotoxicity; data; dna; domain; effector; elispot; epitopes; et al; expression; extracellular; fig; fragment; fusion; gene; glycoprotein; human; ifn; immune; immunity; immunized; mean; mfi; mhc; mice; mouse; pbs; peptide; plasmid; plates; protein; pulsed; ratio; receptor; release; respiratory; responses; restimulated; rgd; rma; room; s1116; s436; s497; s525; s884; sars; sera; severe; specific; spike; splenocytes; statistical; stimulators; subunit; syndrome; tag; target; temperature; vaccination; vaccines; vector cache: cord-276335-e1xlwcvc.txt plain text: cord-276335-e1xlwcvc.txt item: #367 of 647 id: cord-277054-eq4obbte author: Kaur, Manpreet title: Rabies DNA vaccine: No impact of MHC Class I and Class II targeting sequences on immune response and protection against lethal challenge date: 2009-03-26 words: 6916 flesch: 40 summary: key: cord-277054-eq4obbte authors: Kaur, Manpreet; Rai, Anant; Bhatnagar, Rakesh title: Rabies DNA vaccine: No impact of MHC Class I and Class II targeting sequences on immune response and protection against lethal challenge date: 2009-03-26 journal: Vaccine DOI: 10.1016/j.vaccine.2009.01.128 sha: doc_id: 277054 cord_uid: eq4obbte Rabies is progressive fatal encephalitis. Rabies DNA vaccine has also been found to be highly efficient in large size mammals [21] . keywords: analysis; antibodies; antibody; antigen; cd4; cells; cellular; challenge; class; comparison; constructs; control; culture; cytokines; data; different; dna; dna vaccine; exogenous; exposure; expression; fig; gene; glycoprotein; group; human; humoral; igg1; il-2; immune; immunity; immunization; immunized; inactivated; induction; infection; lamp-1; levels; lysate; lysosomal; membrane; mhc; mice; modified; mouse; observed; pathway; pbs; peptides; pgp.l; plasmid; plate; post; presence; presentation; priming; processing; protection; proteins; pt.gp.l; pu.gp; rabies; rabies virus; recombinant; response; rvna; sequences; sera; serum; signal; significant; specific; strategies; system; targeting; th1; th2; tissue; titers; total; tpa; trafficking; type; vaccination; vaccine; value; vector; viral; virus cache: cord-277054-eq4obbte.txt plain text: cord-277054-eq4obbte.txt item: #368 of 647 id: cord-277293-eo3bei9x author: Fondong, Vincent N. title: Geminivirus protein structure and function date: 2013-04-25 words: 10149 flesch: 28 summary: Except for a recent identification of mastreviruses in sweet potato in Peru (Kreuze et al., 2009) and in dragonflies (suborder Anisoptera) in Puerto Rico (Rosario et al., 2013) , these viruses have been found only in the Old World, where they infect a range of monocotyledonous plants (reviewed in Brown et al., 2012) and, from recent reports, dicotyledonous plants (Hadfield et al., 2012; Liu et al., 1999; Nahid et al., 2008) . The replication-associated protein A (RepA), the protein product of ORF C1, and Rep are the two complementary-sense proteins of the mastreviruses (Collin et al., 1996; Gutierrez et al., 2004; Hofer et al., 1992; Liu et al., 1997) , and are both required for virus replication. keywords: ac1; ac2; ac3; ac4; acmv; activity; african; al2; analysis; arabidopsis; av2; bc1; bctv; bean; beet; begomoviruses; binding; bipartite; bowdoin; briddon; bv1; cassava; cell; coat; complementary; complex; conserved; cps; curl; curl virus; cycle; cytoplasm; development; dna; dna replication; domain; dwarf; et al; evidence; export; expression; factor; family; fig; findings; fontes; function; geminivirus; geminivirus replication; gene; genome; hanley; host; important; infected; infection; interaction; kinase; lazarowitz; leaf; like; liu et; localization; maize; mastreviruses; mechanism; molecular; monopartite; mosaic; mosaic virus; motif; movement; movement protein; mps; multifunctional; new; novel; nsp; nuclear; nucleus; orf; orfs; origin; padidam et; plant; promoter; protein; rbr; rcr; recent; region; regulation; ren; repa; replication; replication protein; response; retinoblastoma; rna; rojas et; role; sense; sequence; shuttle; silencing; single; site; small; ssdna; strand; streak; sunter; suppression; systemic; terminal; tgmv; tomato; transcription; trap; tylcv; vein; viral; viral dna; virion; virus; yellow; zhang cache: cord-277293-eo3bei9x.txt plain text: cord-277293-eo3bei9x.txt item: #369 of 647 id: cord-277318-cwuls6xs author: Visscher, Koen title: −1 Programmed Ribosomal Frameshifting as a Force-Dependent Process date: 2016-02-02 words: 8572 flesch: 40 summary: The elasticity of a single supercoiled DNA molecule Magnetic tweezers: micromanipulation and force measurement at the molecular level Recent advances in magnetic tweezers Atomic force microscope Reversible unfolding of individual titin immunoglobulin domains by AFM Bead movement by single kinesin molecules studied with optical tweezers Direct observation of kinesin stepping by optical trapping interferometry Direct mechanical measurements of the elasticity of single DNA molecules by using magnetic beads Single kinesin molecules studied with a molecular force clamp Single-molecule studies of DNA mechanics Double-stranded RNA under force and torque: similarities to and striking differences from double-stranded DNA Dynamics of equilibrium folding and unfolding transitions of titin immunoglobulin domain under constant forces Direct observation of chaperoneinduced changes in a protein folding pathway Chaperone action at the singlemolecule level Unusual mechanical stability of a minimal RNA kissing complex Mechanical unfolding of two DIS RNA kissing complexes from HIV-1 Optical trapping and manipulation of neutral particles using lasers Biological applications of optical forces Optical trapping Versatile optical traps with feedback control Single-molecule force spectroscopy: optical tweezers, magnetic tweezers and atomic force microscopy Passive all-optical force clamp for high-resolution laser trapping Reversible unfolding of single RNA molecules by mechanical force Direct observation of the three-state folding of a single protein molecule Stretching DNA with optical tweezers Versatile optical traps with feedback control Interference model for back-focal-plane displacement detection in optical tweezers Three-dimensional position detection of optically trapped dielectric particles Å ngström-precision optical traps and applications Ultrastable measurement platform: sub-nm drift over hours in 3D at room temperature Overstretching B-DNA: the elastic response of individual double-stranded and single-stranded DNA molecules Direct observation of base-pair stepping by RNA polymerase Differential detection of dual traps improves the spatial resolution of optical tweezers Limitations of constant-forcefeedback experiments Shape-induced force fields in optical trapping Direct measurement of the full, sequence-dependent folding landscape of a nucleic acid Counter-propagating dual-trap optical tweezers based on linear momentum conservation Free-energy inference from partial work measurements in small systems −1 Programmed Ribosomal Frameshifting as a Force-Dependent Process Measuring the folding landscape of a harmonically constrained biopolymer Elongation-competent pauses govern the fidelity of a viral RNA-dependent RNA polymerase Massively parallel single-molecule manipulation using centrifugal force Cantilever springconstant calibration in atomic force microscopy Ultrastable atomic force microscopy: improved force and positional stability Stepwise unfolding of ankyrin repeats in a single protein revealed by atomic force microscopy Order statistics theory of unfolding of multimeric proteins Probing complex RNA structures by mechanical force Microsecond timescale discrimination among polycytidylic acid, polyadenylic acid, and polyuridylic acid as homopolymers or as segments within single RNA molecules Rapid nanopore discrimination between single polynucleotide molecules Ion-beam sculpting at nanometre length scales Fabrication of solid-state nanopores with single-nanometre precision DNA molecules and configurations in a solid-state nanopore microscope Extracting kinetics from singlemolecule force spectroscopy: nanopore unzipping of DNA hairpins Direct force measurements on double-stranded RNA in solid-state nanopores Solid-state nanopores Determination of thermodynamics and kinetics of RNA reactions by force Force unfolding kinetics of RNA using optical tweezers. However, since it was shown that unfolding forces depend upon the number of unfolded domains in a chain, so-called order statistics need to be applied for generating proper parent distribution functions 73 of unfolding forces before such data can further be utilized for analysis and/or predictions of kinetic behavior. keywords: afm; allow; analysis; anticodon; applied; assay; associated; base; codon; complex; conditions; constant; coordinate; cycle; data; dependent; determined; direct; dna; downstream; efficiency; elastic; elements; energy; equilibrium; example; experiments; extension; feedback; fig; fluctuations; force; frameshifting; free; geometry; hairpin; handles; increase; individual; interaction; interest; kinetics; landscape; large; laser; magnetic; measured; measurement; mechanical; mechanical force; methods; microscope; model; molecular; molecule; mrna; mrna structure; nanopores; optical; optical tweezers; particles; pathways; physical; position; prf; principle; process; programmed; properties; protein; pseudoknot; quantitative; ramp; reaction; recent; response; ribosomal; ribosome; sequence; signal; single; site; slippery; small; spring; stability; state; stretching; structure; studies; surface; tip; translation; trna; tweezers; type; unfolded; unfolding; use; work; −1 prf cache: cord-277318-cwuls6xs.txt plain text: cord-277318-cwuls6xs.txt item: #370 of 647 id: cord-277665-ac8txr3h author: Grichko, Varvara P. title: 15 Nanodiamond Designing the Bio-Platform date: 2006-12-31 words: 8873 flesch: 28 summary: Bone chamber studies of new joint replacement coating materials in rabbits PLGA nanoparticles in drug delivery: The state of the art Agonists and antagonists acting at P2X(7) receptor Analysis of the coagulation of human blood cells on diamond surfaces by atomic force microscopy Behar-Cohen F (20905) Nanoparticles for gene delivery to retinal pigment epithelial cells Synthetic biocompatible cyclodextrin-based constructs for local gene delivery to improve cutaneous wound healing Charged particle detectors made of singlecrystal diamond Application of modified nanodiamonds as catalysts of heterogeneous and electrochemical catalyses Nanodiamonds for biological investigations Applications of nanodiamonds for separation and purification of proteins A study on the action of ozone and on the thermal stability of nanodiamond Selective inhibition of the oxidation of nanodiamonds for their cleaning Progress in enzyme-based biosensors using optical transducers Electroanalysis at diamondlike and doped-diamond electrodes Easy access to watersoluble fullerene derivatives via 1,3-dipolar cycloadditions of azomethine ylides to C60 Biosensors for the detection of bacteria Detonation synthesis ultradispersed diamonds: Properties and applications Detonation-synthesized nanodiamonds and the possibility to develop a new generation of medicines Detonation and shock synthesis of nanodiamonds B Synthesis, antimicrobial, and anti-HIV-1 activity of certain 5-(I-adamantyl)-2-substituted thio-1,3,4-oxadiazoles and 5-(1-adamantyl)-3-substituted aminomethyl-1,3,4-oxadiazoline-2-thiones Synthesis, antitumor activity, and anti-HIV-1 testing of certain heterocyclic systems containing an adamantane nucleus Nanomedicine, Volume I: Basic Capabilities pH sensors based on hydrogenated diamond surfaces Diamond-like carbon coatings as biocompatible materials-An overview Conductive polymer-modified boron-doped diamond for DNA hybridization analysis Protein-modified nanocrystalline diamond thin films for biosensor applications Quartz-dust-induced production of reactive oxygen metabolites by human-granulocytes Oxygen radical production by horse and pig neutrophils induced by a range of crystals Structural requirements for inhibitors of cytochromes P4502B: Assessment of the enzyme interaction with diamondoids Adsorption and immobilization of cytochrome c on nanodiamonds Immobilization of antibodies and bacterial binding on nanodiamond and carbon nanotubes for biosensor applications Chemical reaction of hydrogenated diamond surface with peroxide radical initiators Nanocrystalline diamond surface is resistant to bacterial colonization FTIR studies on the spectral changes of the surface functional groups of ultradispersed diamond powder synthesized by explosive detonation after treatment in hydrogen, nitrogen, methane and air at different temperatures Electrochemical behavior of diamond-like carbon films for biomedical applications A nonviral DNA delivery system based on surface modified silicananoparticles can efficiently transfect cells in vitro DNA-modified diamond surfaces Highaffinity capture of proteins by diamond nanoparticles for mass spectrometric analysis A revision of the metabolic disposition of amantadine Surface-modified diamond nanoparticles as antigen delivery vehicles situ blood-brain barrier transport of nanoparticles Surface chemistry of nanodiamonds Chemical properties of detonation-synthesized ultradispersed diamond Covalently modified silicon and diamond surfaces: Resistance to nonspecific protein adsorption and optimization for biosensing Oxidation of CVD diamond powders Reactions of amines with CVD diamond nanopowders Carboxyfullerene prevents iron-induced oxidative stress in rat brain Advances toward bioapplications of carbon nanotubes Paradigm shift in NMDA receptor antagonist drug development: Molecular mechanism of uncompetitive inhibition by memantine in the treatment of Alzheimer's disease and other neurologic disorders Functionalization of nanoscale diamond powder: Fluoro-, alkyl-, amino-, and amino acidnanodiamond derivatives Fluorinated nanodiamond as a wet chemistry precursor for diamond coatings covalently bonded to glass surface Nanoparticle technology for drug delivery across the blood-brain barrier Diamond and carbon nanotube glucose sensors based on electropolymerization Nanoscale fluorescent sensors for intracellular analysis Invasive cleavage reactions on DNA-modified diamond surfaces Influence of carbon coatings origin on the properties important for biomedical application Nanocrystalline diamond coatings Multi-walled carbon nanotube interactions with human epidermal keratinocytes Special features of structure and physico-mechanical properties of natural diamonds of Ukraine Nanoparticles, proteins, and nucleic acids: Biotechnology meets materials science Human monocytes stimulation by particles of hydroxyapatite, silicon carbide and diamond: The chapter also summarizes different approaches to the surface functionalization of nanodiamonds (ND) particles—that is, the key in successful biomedical applications followed by a discussion of modification of diamond surfaces with nucleic acids and proteins. keywords: acids; active; activity; adamantane; administration; adsorption; agents; air; amino; analysis; antibodies; applications; aqueous; attachment; bdd; biocompatibility; biocompatible; biological; biomedical; biosensing; biosensors; blood; carbon; carriers; cases; cells; chemical; chemistry; coating; compounds; cvd; delivery; derivatives; detection; detonation; development; diameter; diamond; diamond films; diamond surface; diamondoids; different; disease; dna; dolmatov; drug; effect; efficient; electrochemical; electrodes; electron; enzymes; et al; example; fig; films; formation; freitas; functionalization; functionalized; gene; glass; glucose; groups; high; human; hybridization; hydrogen; hydrophilic; immobilization; important; inhibitors; layer; like; low; materials; mechanical; medicine; methods; mixture; modification; modified; molecules; nanocrystalline; nanodiamond; nanoparticles; nanotubes; nd particles; nds; new; nmda; non; nucleic; number; oligonucleotides; organic; oxidation; oxygen; particles; peroxide; plasma; platform; possible; potential; powder; properties; proteins; puzyr; radical; reactions; receptor; result; selective; size; solution; specific; stability; stable; substantial; surface; suspensions; synthesis; temperature; thin; transfer; treatment; uncd; use; vapor; viral; vivo; water; years cache: cord-277665-ac8txr3h.txt plain text: cord-277665-ac8txr3h.txt item: #371 of 647 id: cord-278081-tk7vn1v1 author: Brooks, Wesley H. title: Viral Impact in Autoimmune Diseases: Expanding the “X Chromosome–Nucleolus Nexus” Hypothesis date: 2017-11-28 words: 9826 flesch: 34 summary: In addition, CDK1 cyclin kinases have a key role in controlling nucleoli during cell cycling, and centromere complexes are generated in the nucleolus giving further importance to nucleoli in cell cycling. F1000Prime Rep The nucleolus: structure/function relationship in RNA metabolism Nucleolus and nuclear periphery: velcro for heterochromatin Proteins of the nucleolus: an introduction The nucleolus -guardian of cellular homeostasis and genome integrity Crosstalk between the nucleolus and the DNA damage response Nucleolar DNA: the host and guests Perinucleolar targeting of the inactive X during S phase: evidence for a role in the maintenance of silencing Regulation of Epstein-Barr virus latency type by the chromatin boundary factor CTCF Alu element-containing RNAs maintain nucleolar structure and function The nucleolus under stress The multifunctional nucleolus NOPdb: nucleolar proteome database-2008 update Role of polyamine in the regulation of RNA synthesis in uterine nucleoli Assembly and disassembly of the nucleolus during the cell cycle Structure of the p53 binding domain of HAUSP/USP7 bound to Epstein-Barr nuclear antigen 1 implications for EBV-mediated immortalization Expression and processing of a small nucleolar RNA from the Epstein-Barr virus genome The proto-oncogene c-myc is a direct target of gene of Epstein-Barr virus nuclear antigen 2 Epstein-Barr virus induces cellular transcription factors to allow active expression of EBER genes by RNA polymerase III Direct activation of RNA polymerase III transcription by c-Myc c-Myc binds to human ribosomal DNA and stimulates transcription of rRNA genes by RNA polymerase I An overview of MYC and its interactome Autoimmune diseases and polyamines The ornithine decarboxylase gene is a transcriptional target of c-Myc c-Myc targets genes involved in cell growth, apoptosis, and metabolism Targeting ornithine decarboxylase in Myc-induced lymphomagenesis prevents tumor formation Ultrastructural changes in vitro of rat liver nucleoli in response to polyamines Relationship between polyamine accumulation and RNA biosynthesis and content during the cell cycle RNA viruses: hijacking the dynamic nucleolus Modifications of both selectivity factor and upstream binding factor contribute to poliovirus-mediated inhibition of RNA polymerase I transcription Viruses and the nucleolus: the fatal attraction Virus infection induces redistribution and membrane localization of the nuclear antigen La (SS-B): a possible mechanism for autoimmunity X chromosome inactivation and autoimmunity Nucleolin: the most abundant multifunctional phosphoprotein of nucleolus Nucleophosmin: from structure and function to disease development Increased polyamines alter chromatin and stabilize autoantigens in autoimmune diseases Noncoding RNAs and epigenetic mechanisms during X-chromosome inactivation X-inactivation profile reveals extensive variability in X-linked gene expression in females Intense correlation between protein-conjugated acrolein and primary Sjogren's syndrome Recent insights into the regulation of X-chromosome inactivation LINE-mediated retrotransposition of marked Alu sequences Plasma DNA in systemic lupus erythematosus Post-translational modifications, subcellular relocation and release in apoptotic microparticles: apoptosis turns nuclear proteins into autoantigens cGAS surveillance of micronuclei links genome instability to innate immunity STING: infection, inflammation and cancer Autoantibodies in patients with Alzheimer's disease: pathogenetic role and potential use as biomarkers of disease progression Brain polyamine levels are altered in Alzheimer's disease Polyamines in frontal cortex of patients with Downs syndrome and Frontiers in Immunology | www Alzheimer disease Acrolein is increased in Alzheimer's disease brain and is toxic to primary hippocampal cultures Brain S-adenosylmethionine levels are severely decreased in Alzheimer's disease Endogenous polyamines reduce the toxicity of soluble Aβ peptide aggregates associated with Alzheier's disease Nucleolar PARP1 expression is decreased in Alzheimer's disease: consequences for epigenetic regulation of rDNA and cognition The disappearing Barr body in breast and ovarian cancers Triple-negative breast cancer Epigenetic connections between autoimmune disorders and haematological malignancies Cancer risk in systemic lupus: an updated international multi-centre cohort study Systemic lupus erythematosus and related autoimmune diseases are antigen-driven epigenetic diseases Autoimmune disorders result from loss of epigenetic control following chromosome damage Rare X chromosome abnormalities in systemic lupus erythematosus and Sjögren's syndrome keywords: abnormal; activity; addition; alu; alu elements; alu rna; appearance; arm; assembly; autoantigens; autoimmune; autoimmune diseases; autoimmunity; barr; body; cell; cellular; chromatin; chromosome; complexes; components; control; cycle; diseases; disrupted; disruption; dna; ebv; elements; epigenetic; epstein; example; exposure; expression; extracellular; factors; figure; folding; fragile; fragmentation; genes; genome; high; host; human; hypothesis; iii; inactivation; inactive; increase; infection; integrity; intronic; involvement; levels; localization; lupus; major; measles; membrane; multiple; myc; nexus; nuclear; nucleolar; nucleoli; nucleolus; nucleolus nexus; nucleosomes; par1; patients; polyamines; polymerase; proteins; response; result; reverse; ribosomal; rna; rna pol; rnas; rnps; role; sat1; sequences; sites; sle; sms; spermine; stress; structure; subsequent; surface; synthesis; systemic; transcription; transcripts; viral; virus; viruses cache: cord-278081-tk7vn1v1.txt plain text: cord-278081-tk7vn1v1.txt item: #372 of 647 id: cord-278249-vvhq9vgp author: Blot, Mathieu title: CXCL10 could drive longer duration of mechanical ventilation during COVID-19 ARDS date: 2020-11-02 words: 6261 flesch: 38 summary: COVID-19 ARDS patients required mechanical ventilation (MV) for significantly longer, even after adjustment for potential confounders. It should be evaluated as a candidate biomarker that may predict the duration of MV in COVID-19 ARDS patients. keywords: activation; acute; addition; alarmins; alveolar; ards; ards patients; axis; balf; baseline; care; ccl5; cd40; cell; chemokine; clinical; concentrations; control; coronavirus; correlated; correlation; cov-2; covid-19; covid-19 ards; covid-19 patients; csf; cxcl10; cxcr3; cytokine; data; days; disease; dna; duration; elf; epithelial; factor; fluid; free; group; growth; higher; il-1β; il-6; il-8; immune; infection; inflammation; inflammatory; injury; lavage; levels; ligand; lining; lower; lung; mechanical; median; mediators; mitochondrial; model; new; non; number; origin; p =; patients; plasma; pneumonia; pulmonary; release; respiratory; response; sars; score; severe; severity; study; syndrome; systemic; table; test; therapeutic; trail; urea; ventilator; viral cache: cord-278249-vvhq9vgp.txt plain text: cord-278249-vvhq9vgp.txt item: #373 of 647 id: cord-278250-dwok857k author: Li, Heng title: The altered gut virome community in rhesus monkeys is correlated with the gut bacterial microbiome and associated metabolites date: 2019-08-19 words: 7468 flesch: 40 summary: [16] , and the difference varied more widely between gut viromes than between gut bacterial microbiomes in humans The phylogenetic tree on genus level of gut bacterial microbiome. keywords: 16s; abundance; acid; additional; additional file; amplicon; amplification; analysis; antibiotics; bacterial; bacterial community; bacterial microbiome; bacteriophages; biological; changes; cocktail; communities; community; composition; data; database; depletion; disease; diversity; dna; effects; family; fecal; figure; file; fold; genes; genome; glycosaminoglycan; gram; groups; gut; gut bacterial; gut microbiome; gut virome; host; human; important; index; infection; interaction; kegg; kit; level; low; mda; medical; metabolites; metabolome; metagenomic; microbiota; min; monkeys; negative; number; otu; pcr; peak; picrust; play; positive; prediction; present; rate; reads; real; results; rhesus; richness; rna; rna viruses; roles; rrna; samples; sequences; sequencing; single; species; study; table; time; total; treatment; tryptophan; values; viral; virome; virome composition; viruses cache: cord-278250-dwok857k.txt plain text: cord-278250-dwok857k.txt item: #374 of 647 id: cord-278397-u33x4jaw author: Abe, Takayuki title: Negative Regulation of Cytosolic Sensing of DNA date: 2018-10-29 words: 7241 flesch: 21 summary: Indeed, inactive rhomboid protein 2 (iRhom2) contributes to stabilize STING protein by recruiting the deubiquitinating enzyme EIF3S5 (Eukaryotic translation initiation factor 3 subunit 5) and While multiple ubiquitin ligases have been implicated in directly regulating STING protein, much less is known about their modulatory role on cGAS function. keywords: acid; activation; adaptor; addition; antiviral; autoimmune; axis; barber; binding; cells; cellular; cgamp; cgas; control; critical; cyclic; cytosolic; cytosolic dna; cytosolic sensing; damage; ddx41; deficient; degradation; dependent; development; direct; diseases; dna; dnase; domain; downstream; dsdna; et al; family; fertilization; fig; function; gene; glutamylation; gmp; hepatitis; host; human; ifi16; ifn; ifns; immune; immunity; induction; infection; inflammasome; inflammatory; innate; innate immune; interactions; interferon; intracellular; irf3; k63; kappab; ligands; ligase; like; mice; mitochondrial; molecular; multiple; mutations; negative; nlrp14; non; nucleic; pathway; phosphorylation; poly; production; protease; protein; recent; receptors; recognition; regulate; regulation; responses; rig; rna; role; self; sensing; sensor; signaling; sle; specific; sting; studies; syndrome; targeting; tbk1; tlr; transduction; trex1; type; ubiquitination; virus; viruses; wang cache: cord-278397-u33x4jaw.txt plain text: cord-278397-u33x4jaw.txt item: #375 of 647 id: cord-279084-bbae1qyx author: Liu, Bin title: Free DNA, a reason for severe COVID-19 infection? date: 2020-05-05 words: 800 flesch: 44 summary: I hypothesized that the damage induced by free DNA is a reason for severe COVID-19, which can explain many symptoms of this disease, such as cytokine storm, acute respiratory distress syndrome (ARDS) and muscus plug, acute injuries of heart, liver and kidney, and some special symptoms of COVID-19. key: cord-279084-bbae1qyx authors: Liu, Bin title: Free DNA, a reason for severe COVID-19 infection? date: 2020-05-05 journal: keywords: bat; clinical; coronavirus; covid-19; cytokine; damage; dna; free; infection; novel; patients; sars; severe; storm; symptoms cache: cord-279084-bbae1qyx.txt plain text: cord-279084-bbae1qyx.txt item: #376 of 647 id: cord-279229-2226jnfl author: Savan, R title: Loop‐mediated isothermal amplification: an emerging technology for detection of fish and shellfish pathogens date: 2005-11-22 words: 4191 flesch: 38 summary: Furthermore, LAMP detection was superior to PCR when spleen DNA extracted from infected fish was used as template. Recently, PCR detection has been possible for nocardiosis (Kono, Ooyama, Chen & Sakai 2001; Miyoshi & Suzuki 2002) . keywords: acid; agent; amplification; application; aquaculture; assay; bacterial; conditions; detection; development; diagnosis; disease; dna; edwardsiella; fish; gene; gunimaladevi; high; ictaluri; ihnv; infected; infection; isolation; isothermal; isothermal amplification; kidney; kono; lamp; loop; method; min; molecular; nested; notomi; novel; nucleic; pathogens; pcr; polymerase; primers; proliferative; rapid; reaction; real; sakai; samples; savan; sensitive; shellfish; specific; strand; syndrome; system; tarda; target; techniques; template; time; use; virus cache: cord-279229-2226jnfl.txt plain text: cord-279229-2226jnfl.txt item: #377 of 647 id: cord-279267-iyobsuvz author: Hacker, David L. title: Polyethyleneimine-based transient gene expression processes for suspension-adapted HEK-293E and CHO-DG44 cells date: 2013-11-30 words: 7084 flesch: 40 summary: Induction and isolation of nutritional mutants in Chinese hamster cells Chinese hamster ovary cells Cell line specific control of polyethylenimine-mediated transient transfection optimized with 'Design of experiments' methodology Epi-CHO, an episomal expression system for recombinant protein production in CHO cells Enhanced CHO cellbased transient gene expression with the epi-CHO expression system Membrane mutants of animal cells: rapid identification of those with a primary defect in glycosylation Control of carbohydrate processing: the lec1A CHO mutation results in partial loss of N-acetylglucosaminyltransferase I activity Transient recombinant protein expression in a human amniocyte cell line: the CAP-T(R) cell system Serum-free transient protein production system based on adenoviral vector and PER.C6 technology: high yield and preserved bioactivity A highly conserved neutralizing epitope on group 2 influenza A viruses Highly conserved protective epitopes on influenza B viruses Versatile expression system for rapid and stable production of recombinant proteins Use of orbital shaken disposable bioreactors for mammalian cell cultures from the milliliter-scale to the 1000-liter scale Disposable bioreactors: the current state-of-the-art and recommended applications in biotechnology Innovative, non-stirred bioreactors in scales from milliliters up to 1000 liters for suspension cultures of cells using disposable bags and containers-a Swiss contribution Disposable bioreactor for cell culture using wave-induced agitation Optimisation of protein expression and establishment of the wave bioreactor for baculovirus/insect cell culture Serum-free suspension large-scale transient transfection of CHO cells in WAVE bioreactors High-level protein expression in scalable CHO transient transfection Development of a shaking bioreactor system for animal cell cultures Scalable transient gene expression in Chinese hamster ovary cells in instrumented and non-instrumented cultivation systems Efficient oxygen transfer by surface aeration in shaken cylindrical containers for mammalian cell cultivation at volumetric scales up to 1000L Advances in shaking technologies TubeSpin bioreactor 50 for the high-density cultivation of Sf-9 insect cells in suspension Small-scale bioreactor system for process development and optimization Multiplexed expression and screening for recombinant protein production in mammalian cells Determination of a scale-up factor from mixing time studies in orbitally shaken bioreactors Efficient and reproducible mammalian cell bioprocesses without probes and controllers? Evaluation of maximum to specific power consumption ratio in shaking bioreactors Particle stress in bioreactors K(L)a as a predictor for successful probe-independent mammalian cell bioprocesses in orbitally shaken bioreactors Mild hypothermia improves transient gene expression yields several fold in Chinese hamster ovary cells Transient gene expression in suspension HEK-293 cells: application to large-scale protein production On the optimal ratio of heavy to light chain genes for efficient recombinant antibody production by CHO cells Transient gene expression levels from multigene expression vectors Stable antibody expression at therapeutic levels using the 2A peptide Transfecting mammalian cells: optimization of critical parameters affecting calcium-phosphate precipitate formation Transient gene expression: recombinant protein production with suspensionadapted HEK293-EBNA cells A versatile vector for gene and oligonucleotide transfer into cells in culture and in vivo: polyethylenimine High-density transfection with HEK-293 cells allows doubling of transient titers and removes need for a priori DNA complex formation with PEI Poly(ethyleneimine)-mediated large-scale transient gene expression: influence of molecular weight, polydispersity and N-propionyl groups A simple highyielding process for transient gene expression in CHO cells Role of non-specific DNA in reducing coding DNA requirement for transient gene expression with CHO and HEK-293E cells Reduced glutamine concentration improves protein production in growth-arrested CHO-DG44 and HEK-293E cells Valproic acid: a viable alternative to sodium butyrate for enhancing protein expression in mammalian cell cultures The Use of Valproic Acid in Transient Gene Expression with HEK-293E Cells, EPFL Balancing GFP reporter plasmid quantity in large-scale transient transfections for recombinant anti-human Rhesus-D IgG1 synthesis Control of culture environment for improved polyethylenimine-mediated transient production of recombinant monoclonal antibodies by CHO cells Respiratory syncytial virus subunit vaccine based on a recombinant fusion protein expressed transiently in mammalian cells Limiting factors governing protein expression following polyethylenimine-mediated gene transfer in HEK293-EBNA1 cells Purification and characterization of a recombinant G-protein-coupled receptor, Saccharomyces cerevisiae Ste2p, transiently expressed in HEK293 EBNA1 cells Enhancement of the antagonistic potency of transforming growth factor-beta receptor extracellular domains by coiled coil-induced homo-and heterodimerization Combined inhibition of PDGF and VEGF receptors by ellagic acid, a dietary-derived phenolic compound Transcriptome profiling of a TGF-beta-induced epithelial-to-mesenchymal transition reveals extracellular clusterin as a target for therapeutic antibodies At shaking frequencies suitable for cell culture, all the OSRs mentioned above have mixing times (the time needed to mix to homogeneity) under 20 s [74] . keywords: acid; addition; agitation; animal; antibody; applications; available; baculovirus; bioreactor; bottles; cells; chain; chinese; cho; complex; conditions; cost; cultivation; culture; day; delivery; density; dg44; disposable; dna; ebna1; efficient; expression; fig; formation; free; gas; gene; glass; glycans; growth; hamster; heavy; hek-293e; hek293; high; host; human; incubator; insect; large; level; light; lines; major; mammalian; mammalian cells; media; medium; membrane; methods; mixing; nominal; non; osrs; ovary; pei; plasmid; platform; possible; post; process; processes; production; protein; purification; rapid; receptor; recombinant; replication; scale; serum; shaken; solution; stable; structural; suspension; system; technologies; tge; therapeutic; time; transfection; transfer; transient; tubespin; use; vector; viral; virus; volume; wave; yield cache: cord-279267-iyobsuvz.txt plain text: cord-279267-iyobsuvz.txt item: #378 of 647 id: cord-279346-7del8d2p author: Callendret, Benoît title: Heterologous viral RNA export elements improve expression of severe acute respiratory syndrome (SARS) coronavirus spike protein and protective efficacy of DNA vaccines against SARS date: 2007-07-05 words: 10753 flesch: 39 summary: In contrast, S protein expression could be detected in Vero E6 cells after transfection of the pCI-S construct (Fig. 1, lane 4) . In all cell lines examined, the impact of WPRE on S protein expression was consistently better than that of CTE, reflecting synergistic effects of this element on cytoplasmic mRNA levels and mRNA translation. keywords: ace2; acute; addition; analysis; animal; antibodies; antibody; assay; balb; blot; cells; cellular; challenge; cis; codon; complete; construct; contrast; control; coronavirus; cov; cte; cytoplasmic; data; dependent; detectable; dna; dose; effect; effector; efficient; element; et al; export; expression; fig; fold; fusion; gene; glycoprotein; hepatitis; high; human; igg; immune; immunity; immunization; immunized; increase; individual; infected; injection; intron; intronless; levels; like; log10; low; lysates; mammalian; mice; min; molecular; monkey; mouse; mrna; naked; neutralization; neutralizing; nuclear; panel; pcdna; pci; pfizer; pfu; plasmid; plasmid dna; polymerase; polypeptide; post; posttranscriptional; presence; production; promoter; protective; protein; recombinant; regulatory; respiratory; response; results; rna; s protein; samples; sars; sequence; sera; serum; severe; sites; specific; spike; spliced; studies; syndrome; target; titers; transfection; transport; type; vaccine; vaccinia; vectors; veroe6; viral; virus; viruses; weeks; wild; woodchuck; wpre cache: cord-279346-7del8d2p.txt plain text: cord-279346-7del8d2p.txt item: #379 of 647 id: cord-279503-w4tn03w0 author: Kim, Hanbi title: Development of Label-Free Colorimetric Assay for MERS-CoV Using Gold Nanoparticles date: 2019-05-07 words: 3547 flesch: 42 summary: Selective colorimetric detection of polynucleotides based on the distance-dependent optical properties of gold nanoparticles Gold nanoparticles for naked-eye DNA detection: smart designs for sensitive assays Label-free colorimetric detection of specific sequences in genomic DNA amplified by the polymerase chain reaction Disulfide-induced self-assembled targets: A novel strategy for the label free colorimetric detection of DNAs/RNAs via unmodified gold nanoparticles Colorimetric detection of DNA sequences based on electrostatic interactions with unmodified gold nanoparticles Unmodified gold nanoparticles as a colorimetric probe for potassium DNA aptamers Laboratory testing for Middle East Respiratory Syndrome Coronavirus Interim guidance Thermal stability of DNA functionalized gold nanoparticles Colorimetric detection originating from gold nanoparticles (AuNPs) have been intensively studied because of their particular optical properties, i.e., localized surface plasmon resonance (LSPR), which represent a color with maximal absorbance wavelength. keywords: aggregation; assay; assembly; aunps; bare; binding; centroid; changes; citrate; colorimetric; complex; concentration; control; cov; detection; diseases; disulfide; dna; figure; gold; infectious; long; lspr; mers; method; mgcl; molecules; nanoparticles; positive; probes; reaction; respiratory; salt; self; shift; significant; size; solution; spectral; spectrum; ssdna; sulfur; surface; syndrome; target; thiol; upe; value; wavelength cache: cord-279503-w4tn03w0.txt plain text: cord-279503-w4tn03w0.txt item: #380 of 647 id: cord-279827-921kvrrz author: Murata, Takayuki title: Growth behavior of bovine herpesvirus-1 in permissive and semi-permissive cells date: 1999-06-11 words: 7154 flesch: 57 summary: Confluent monolayer cultures of MDBK cells or HmLu-1 cells were infected with BHV-1 at an moi of 5 and at 3, 6, 12, 24, and 48 h p.i., DNA was extracted as described in Section 2. Therefore it might be possible that HmLu-1 cells might lacked the HVEM like factor for BHV-1 gD while MDBK cells express such a factor allowing the penetration and the nuclear transport of BHV-1. keywords: adsorption; agarose; attachment; bhv-1; bicp4; bovine; buffer; cells; dishes; dna; early; entry; equivalent; et al; fig; gel; gene; growth; h p.i; heparin; herpes; herpesvirus; hmlu-1; hsv; incubation; infected; infection; low; mdbk; mdbk cells; medium; membrane; method; min; moi; monolayers; mutant; nacl; nuclei; p.i; p32; pbs; pcr; penetration; permissive; permissive mdbk; plasmid; probe; protein; replication; rna; rsv; sds; semi; simplex; sulfate; surface; times; tris; trypsin; type; viral; virions; virus; ° c cache: cord-279827-921kvrrz.txt plain text: cord-279827-921kvrrz.txt item: #381 of 647 id: cord-280249-kfon0l9h author: Granstrom, David E. title: Recent Advances in the Laboratory Diagnosis of Equine Parasitic Diseases date: 1995-12-31 words: 2074 flesch: 47 summary: The immunoglobulin G (IgG) index/ albumin quotient developed by Dr. Frank Andrews (University of Ten nessee, Knoxville, TN) permits accurate evaluation of blood-brain barrier integrity and provides valuable assistance for interpretation of EPM test results. Cryptosporidium parvum infection occasionally may result in foal diarrhea. keywords: age; antibodies; blood; blot; cryptosporidiosis; cryptosporidium; csf; diagnosis; diarrhea; diseases; dna; epm; equine; exposure; feces; foals; giardia; horses; infection; laboratory; myeloencephalitis; negative; neurona; parasite; parasitic; pcr; recent; results; samples; serum; shedding; test; testing; weeks; western cache: cord-280249-kfon0l9h.txt plain text: cord-280249-kfon0l9h.txt item: #382 of 647 id: cord-280429-4fota9rl author: Medvedev, Kirill E. title: Functional and evolutionary analysis of viral proteins containing a Rossmann‐like fold date: 2018-06-13 words: 7478 flesch: 42 summary: Given the relatively high number of viral protein families that contain a Rossmann-like fold (81 families), we sought to examine their evolutionary distributions among folds from the three major host kingdoms. This nearly equal distribution suggests the potential for viral protein families that derive from ancient origin, as the prevalence of HGT stems from bacterial origins. keywords: acid; additional; analysis; ancestor; ancient; antiparallel; archea; atpase; bacteria; bacteriophage; binding; blast; catalytic; cell; cellular; classification; common; core; crossover; database; different; dna; domains; double; dsdna; ecod; elements; enzyme; eukaryotic; evolutionary; example; families; family; fig; fold; form; functional; gene; genome; glucosyltransferase; glycogen; groups; helicase; helices; helix; hgt; hits; homology; host; infect; insertion; layer; life; like; like fold; loop; major; methyltransferase; minimal; motif; ns1; nsp2a; nucleotide; number; online; order; origin; parallel; pdb; phage; phosphorylase; populated; possible; primase; protein; protein families; related; replication; rna; role; rossmann; rossmann‐like; sandwich; second; sequence; serine; sf1; sheet; similarity; specific; strand; structure; substrate; superfamily; system; tail; targets; taxonomical; terminal; topology; tree; trna; types; unique; universal; vaccinia; viral; viruses; world; zika cache: cord-280429-4fota9rl.txt plain text: cord-280429-4fota9rl.txt item: #383 of 647 id: cord-280549-bsnz24jx author: Fan, Ying title: Breaking Bad: How Viruses Subvert the Cell Cycle date: 2018-11-19 words: 18153 flesch: 27 summary: Fortunato and Spector, 1998; Majumder et al., 2001 Parvovirus B19/ssDNA NS1 E2F4-8 repressive transcription factors Nuclear import and G2 arrest Wan et al., 2010 Epstein-Barr/dsDNA LMP1 Survivin, p53 Increased nuclear localization Guo et al., 2012 Avian Reovirus/dsRNA P17 CDK1 Cytoplasmic retention Chiu et al., 2018 redistributed from the nucleus to the cytoplasm, followed by its proteasomal degradation (Fan et al., 2017) . While discussion of their manipulation of the cell cycle is inevitable, oncogenic viruses will not be the focus of this article and the reader is referred to a number of excellent reviews on this topic (Weinberg, 1997; zur Hausen, 2001; Chang et al., 2017) . keywords: aav; ability; able; accumulation; activates; activation; activity; addition; adenovirus; anaphase; antigen; apc; apc11; apoptosis; arrest; assay; association; atr; avian; barr; binding; block; cak; cdc25c; cdk1; cdk2; cdk4; cdk6; cdks; cell; cell cycle; cellular; checkpoint; chiu et; chk1; chk2; chromatin; cip1; cki; complex; complexes; control; cycle; cycle arrest; cycle progression; cyclin; cyclin d3; cytomegalovirus; cytoplasm; damage; ddb1; deficient; degradation; dependent; development; different; direct; division; dna; domain; dsdna; e1a; e2f; e2f1; early; effect; entry; epstein; essential; et al; events; example; expression; factor; family; fan et; formation; function; gene; growth; hbx; hcmv; hepatitis; herpesvirus; hiv-1; host; host cell; hpv; human; icp0; identification; ie2; immediate; immune; immunodeficiency; infected; infection; influenza; inhibition; inhibitory; inhibits; ink4a; interaction; kinase; kinase activity; kip1; kshv; large; leads; levels; ligase; localization; machinery; manner; mdm2; mechanism; mediator; membrane; mitosis; mitotic; molecular; multiple; mutant; neural; nonstructural; normal; ns1; nuclear; nucleus; oncoprotein; p107; p16; p17; p21; p27; p53; pathway; pcna; perturbation; phase; phosphorylation; physical; primary; progression; proliferation; protein; protein kinase; reduced; region; regulates; regulation; reovirus; repair; replication; response; restriction; results; retinoblastoma; role; sarcoma; securin; sequence; signaling; simian; sister; site; slx4; specific; structure; study; subcellular; subunit; suppressor; suzuki et; sv40; synthesis; target; tax; transcription; transformation; transition; tumor; type; ubiquitin; viral; viral protein; virus; virus type; viruses; vpr; waf1; wee1; yeast; zika cache: cord-280549-bsnz24jx.txt plain text: cord-280549-bsnz24jx.txt item: #384 of 647 id: cord-280605-2i4gk7et author: Bachmann, María Consuelo title: The Challenge by Multiple Environmental and Biological Factors Induce Inflammation in Aging: Their Role in the Promotion of Chronic Disease date: 2020-10-14 words: 11154 flesch: 18 summary: The impact on Tregulatory cell related immune responses in rural women exposed to polycyclic aromatic hydrocarbons (PAHs) in household air pollution in Gansu, China: A pilot investigation PM 2.5 induced pulmonary fibrosis in vivo and in vitro Blocking IL-17A Promotes the Resolution of Pulmonary Inflammation and Fibrosis Via TGF-b1-Dependent and -Independent Mechanisms Effects of sub-chronic exposure to atmospheric PM2.5 on fibrosis, inflammation, endoplasmic reticulum stress and apoptosis in the livers of rats Genetic and epigenetic alterations in normal and sensitive COPD-diseased human bronchial epithelial cells repeatedly exposed to air pollution-derived Effects of airborne pollutants on mitochondrial DNA Methylation Prenatal particulate air pollution and DNA methylation in newborns: An epigenomewide meta-analysis Dose-and time-effect responses of DNA methylation and histone H3K9 acetylation changes induced by traffic-related air pollution Air pollution and DNA methylation: Effects of exposure in humans Epigenetic response profiles into environmental epigenotoxicant screening and health risk assessment: A critical review Air pollution, particulate matter composition and methylation-based biologic age Air Pollution Stress and the Aging Phenotype: The Telomere Connection The effect of exposure time and concentration of airborne PM2.5 on lung injury in mice: A transcriptome analysis Facing up to the global challenges of ageing Coming of age: molecular drivers of aging and therapeutic opportunities Find the latest version: Review series introduction Coming of age: molecular drivers of aging and therapeutic opportunities Disability incidence and functional decline among older adults with major chronic diseases Quality of life assessment instruments for adults: a systematic review of population-based studies Comparative financing analysis and political economy of noncommunicable diseases The integration of inflammaging in age-related diseases Scavenger Receptor-A deficiency impairs immune response of microglia and astrocytes potentiating Alzheimer's disease pathophysiology Source of Chronic Inflammation in Aging Microglial cell dysregulation in brain aging and neurodegeneration Aging and the immune system: An overview Cellular senescence and Alzheimer disease: the egg and the chicken scenario The epigenetics of inflammaging: The contribution of age-related heterochromatin loss and locus-specific remodelling and the modulation by environmental stimuli These sex-related differences can determine the ability of immune cells to generate an effective inflammatory response, which translates into epidemiological differences on the prevalence of various pathologies, including allergies (22), asthma (23, 24), autoimmune diseases (25), anaphylaxis (26), neonatal sepsis (27), and cancer (28), among several pathologies. keywords: abuse; acid; activation; activity; acute; adaptive; addition; adipose; adults; age; aged; aging; air; alzheimer; analysis; anti; associated; astrocytes; autoimmune; axis; biological; brain; cancer; cardiovascular; cells; cellular; changes; chronic; chronic inflammation; chronic stress; cns; cocaine; cognitive; concentration; cytokines; damage; decrease; deleterious; dendritic; dependent; development; dha; diet; dietary; differences; different; diseases; dna; docosahexaenoic; dysfunction; effects; environmental; epigenetic; estrogen; events; evidence; exercise; exposure; expression; factors; fatty; female; function; gcs; genes; grade; healthy; high; higher; human; il1b; il6; immune; immune cells; immune response; immune system; impact; important; increase; individual; induced; infiltration; inflammaging; inflammation; inflammatory; inflammatory response; influence; innate; levels; life; like; liver; loss; low; lower; lymphocytes; macrophages; mechanisms; mediators; metabolic; methamphetamine; methylation; mice; microglia; mitochondrial; modifications; molecular; molecules; mrna; multiple; muscle; ncds; neuroinflammation; neutrophil; nfkb; number; oil; older; omega-3; oxidative; particulate; pathway; phenotype; physical; pollutants; pollution; polyunsaturated; population; potential; process; processes; production; profile; protein; psychological; pufas; rats; reactive; receptor; regulation; release; resistance; resolution; response; result; review; risk; role; ros; sex; signaling; social; specific; stimuli; stress; studies; system; systemic; th1; th2; tissue; tlr4; tnfa; toll; training; use; women; young cache: cord-280605-2i4gk7et.txt plain text: cord-280605-2i4gk7et.txt item: #385 of 647 id: cord-280691-nzc8ir0n author: Guo, Sun-Wei title: China’s “Gene War of the Century” and Its Aftermath: The Contest Goes On date: 2013-08-30 words: 12491 flesch: 47 summary: Association studies identify disease genes by finding the significant gene frequency differentials between a group of unrelated healthy individuals and another group of unrelated people with the disease of interest. They quickly reached a consensus and soon made it public: (1) China's genetic resources should not be pilfered by foreigners; (2) Chinese scientists should immediately grasp the opportunity to find disease genes and patent them; (3) We should educate the people, and raise the awareness and importance of protection of our genetic resources; (4) We welcome all international collaborations based on fairness and mutual benefits; (5) Through various avenues, the Chinese scientists should be vocal about certain views deemed to be harmful to China's genetic research (Xiao et al. 1997) . keywords: access; addition; aftermath; anhui; approach; association; asthma; authority; beijing; benefits; better; biomedical; blood; cancer; care; century; changes; china; chinese; cloning; common; companies; company; complex; complex diseases; conflict; consent; contest; cost; country; credibility; daily; data; decade; diabetes; discovery; disease; dna; drug; early; endeavor; epidemiology; epistemic; fact; financial; finding; foreign; gene; gene war; genetic; genetic research; genetic resources; genome; good; government; group; guo; harvard; health; heritage; high; hsph; human; human genetic; human genome; hunters; hunting; hypertension; important; informed; interest; investigation; investment; irregularities; issues; knowledge; lack; large; likely; long; low; major; materials; media; medical; millennium; national; nationalism; natural; new; nih; number; numerous; officials; ohrp; participants; patients; patriotism; people; personal; pharmaceuticals; political; pomfret; population; positional; prevention; price; process; program; projects; promises; protection; public; rare; region; report; research; resources; responsible; risk; samples; science; scientific; scientists; sequana; state; studies; study; subjects; support; susceptibility; system; team; technology; therapeutics; thousands; time; united; university; value; villagers; war; west; work; world; xiong; xiping; years cache: cord-280691-nzc8ir0n.txt plain text: cord-280691-nzc8ir0n.txt item: #386 of 647 id: cord-281188-0cql96hu author: Baquero, Fernando title: Proximate and ultimate causes of the bactericidal action of antibiotics date: 2020-10-06 words: 8718 flesch: 26 summary: As in the case for the cell wall, a disbalance in physiological proteolytic processes of the cell might result in membrane alteration and cell death 70, 71 . Extensive DNA damage can induce a special mode of cell death. keywords: acids; action; activity; agents; aminoglycosides; antibiotics; antimicrobial; aureus; authors; bacteria; bacterial cell; bactericidal; bactericidal antibiotics; bacteriostatic; bacterium; beta; binding; biology; breaks; case; causes; cell; cell death; cell wall; cellular; coli; concentration; conditions; damage; deal; death; dependent; different; disruption; division; dna; drug; effect; envelopes; enzymes; escherichia; example; exposure; ftsh; genetic; gram; great; growth; higher; hormesis; hypothesis; individuality; inhibition; integrity; irreversible; kill; killing; lactam; lethal; lipid; loss; low; lps; lysis; mechanism; membrane; minimum; mistranslated; negative; number; operons; outer; oxygen; peptidoglycan; physical; physiological; physiology; populations; processes; production; proteins; proximate; rate; reactive; repair; replication; resistance; response; result; ribosome; rifampin; rna; ros; rrn; sos; species; staphylococcus; stress; structure; synthesis; target; teichoic; time; toxic; transcription; ultimate; uptake; use; vancomycin; wall cache: cord-281188-0cql96hu.txt plain text: cord-281188-0cql96hu.txt item: #387 of 647 id: cord-281404-5a8au32c author: Gastaldello, Stefano title: Caspase-1 Promotes Epstein-Barr Virus Replication by Targeting the Large Tegument Protein Deneddylase to the Nucleus of Productively Infected Cells date: 2013-10-10 words: 7170 flesch: 36 summary: As illustrated by the representative blots shown in Figure 6A , the anti-HA and anti-FLAG antibodies detected two de-novo expressed enzymatic activities associated with polypeptides of .300 kD and approximately 38 kD in the lysates of induced cells. The specificity of the staining was confirmed by its virtual abrogation in induced cells expressing a BPLF1-specific shRNA. keywords: accumulation; active; activity; akata; antibodies; antibody; barr; binding; blots; bplf1; bplf1 specific; bx1; cand1; caspase-1; catalytic; cdt1; cells; cellular; cleavage; crl; crls; cul1; cullins; cycle; cytoplasmic; cytosolic; deconjugase; decrease; degradation; deneddylase; dependent; dna; early; ebv; effect; efficient; enzyme; epstein; expression; figure; flag; fluorescence; free; functional; induced; induction; infected; infection; inhibition; inhibitors; key; known; large; length; levels; ligases; line; localization; lysates; nedd8; nuclear; nucleus; presence; probed; processing; productive; productive cycle; productive virus; protease; proteins; replication; representative; role; shrna; site; specific; stabilization; substrates; synthesis; tegument; terminal; terminus; ubiquitin; viral; viral dna; virus; virus cycle; virus replication; viruses; vx-765; western cache: cord-281404-5a8au32c.txt plain text: cord-281404-5a8au32c.txt item: #388 of 647 id: cord-281565-v8s2ski3 author: Belmonte-Reche, Efres title: Exploring G and C-quadruplex structures as potential targets against the severe acute respiratory syndrome coronavirus 2 date: 2020-08-20 words: 4584 flesch: 42 summary: To compare between virus species, we calculated the density of potential quadruplex sequences per 100000 nucleotides (Density = 100000 × ℎ ). So, we investigated the differences between them through genome alignments and found that most of the sequence versions amongst species (6 out of 8) were still able to form potential quadruplex structures even with modifications. keywords: 2019; algorithm; analysis; candidates; common; configuration; conservation; coronaviridae; coronavirus; covid; database; definitions; different; dna; entire; figure; form; formation; forming; g4s; gene; genome; genomic; gig; grinder; human; known; lax; material; motif; ncov; new; nmr; number; order; pandemic; pims; potential; pqs; presence; quadruplex; range; realm; regulatory; results; rna; role; runs; sars; score; search; section; sequences; signals; species; spectra; stable; structures; supplementary; targets; therapeutic; version; viral; viruses; work cache: cord-281565-v8s2ski3.txt plain text: cord-281565-v8s2ski3.txt item: #389 of 647 id: cord-281883-l9yshyc7 author: Alekseeva, Ekaterina title: Enhancement of the expression of HCV core gene does not enhance core-specific immune response in DNA immunization: advantages of the heterologous DNA prime, protein boost immunization regimen date: 2009-06-08 words: 7611 flesch: 40 summary: Here as well, a slow increase in the level of anti-core antibodies Expression of HCV core proteins Plasmids used for NIH 3T3 transfection Core expression (Units) was observed 35 days after a single gene injection as compared to levels detected at day 21 (data not shown). Ideally, HCV core could be eliminated by a specific vaccine-induced immune response. keywords: additional; amplified; anti; antibodies; antibody; antigen; balb; boost; boosting; c virus; cell; cellular; chronic; control; core; core aa; core expression; core gene; core protein; corresponding; data; denmark; development; different; dna; dose; effects; efficacy; encoding; expression; fig; fold; gene; hcv; hcv core; hepatitis; heterologous; high; higher; human; ifn-; igg; il-2; immune; immune response; immunity; immunization; immunogenicity; increase; initiation; injections; intracellular; levels; low; mice; mouse; patients; pbs; pcmvcoreires; pcmvcorekozak; peptides; plasmids; plates; potent; prime; production; proliferative; protein; rabbit; recombinant; regimen; region; response; results; secondary; secretion; sequence; signals; significant; single; specific; strong; system; th1; titer; transfection; translation; usa; vaccination; vaccine; viral; virus; virus core; weeks; xhoi cache: cord-281883-l9yshyc7.txt plain text: cord-281883-l9yshyc7.txt item: #390 of 647 id: cord-282062-h9smg0w9 author: Takano, Tomomi title: Novel single-stranded, circular DNA virus identified in cats in Japan date: 2018-09-14 words: 1945 flesch: 48 summary: All 4 strains of FeSCV were circular DNA viruses containing a genome (Fig. 1B) . To our knowledge, no study has reported a gene encoding Cap or putative Cap of CRESS DNA virus generated by recombination with parasitic or bacterial genes. keywords: cap; cats; circovirus; circular; consensus; cress; cyclovirus; diarrhea; dna; fecal; feline; fescv; gene; genomes; giardia; healthy; infection; inverse; japan; novel; pcr; phylogenetic; primers; putative; rep; samples; similar; study; viral; viruses cache: cord-282062-h9smg0w9.txt plain text: cord-282062-h9smg0w9.txt item: #391 of 647 id: cord-282106-7k088cqv author: Yang, Zhi-yong title: A DNA vaccine induces SARS coronavirus neutralization and protective immunity in mice date: 2004 words: 3747 flesch: 41 summary: These findings indicate that immune T cells do not control pulmonary virus replication in this animal model, although it remains possible that T cells contribute to viral clearance if replication persists. Consensus document on the epidemiology of severe acute respiratory syndrome (SARS) Characterization of a novel coronavirus associated with severe acute respiratory syndrome The genome sequence of the SARS-associated coronavirus Unique and conserved features of genome and proteome of SARS-coronavirus, an early split-off from the coronavirus group 2 lineage in Fields Virology Coronavirus immunogens Immune response of sows vaccinated with attenuated transmissible gastroenteritis virus (TGEV) and recombinant TGEV spike protein vaccines and protection of their suckling pigs against virulent TGEV challenge exposure Active immunity and T-cell populations in pigs intraperitoneally inoculated with baculovirus-expressed transmissible gastroenteritis virus structural proteins in Fields Virology pH-dependent entry of SARS coronavirus is mediated by the Spike glycoprotein and enhanced by dendritic cell-mediated transfer through DC-SIGN Aetiology: Koch's postulates fulfilled for SARS virus Virology: SARS virus infection of cats and ferrets Prior infection and passive transfer of neutralizing antibody prevent replication of SARS coronavirus in the respiratory tract of mice Pathogenesis of coronavirus-induced infections. keywords: acute; animal; antibodies; antibody; assay; cd4; cd8; cell; challenge; control; coronavirus; cov; dna; domain; encoding; expression; fig; glycoprotein; group; human; humoral; immune; immunity; lungs; mice; model; mouse; neutralizing; panel; plasmid; protection; protein; recipient; replication; respiratory; responses; sars; sdcd; severe; syndrome; tcid; titres; transfer; vaccinated; vaccination; vaccine; vector; viral; virus cache: cord-282106-7k088cqv.txt plain text: cord-282106-7k088cqv.txt item: #392 of 647 id: cord-282251-r4on3lpr author: Veggiani, Gianluca title: Emerging drug development technologies targeting ubiquitination for cancer therapeutics date: 2019-03-07 words: 11439 flesch: 28 summary: Within the span of 20 years, high-throughput technologies further advanced to include feats in protein engineering such as proteolysis-targeting chimeras (PROTACs) derived from the ubiquitination pathway (Zhou, Bogacki, McReynolds, & Howley, 2000) , streamlined phage display approaches that include Ub variants (UbV) to target protein-protein interactions in the UPS (Brown et al., 2016; Ernst et al., 2013; Ernst & Sidhu, 2013; Gabrielsen et al., 2017; Ordureau et al., 2018; Zhang et al., 2016; Zhang et al., 2017; Zhang et al., 2017; Zhang & Sidhu, 2018) and cell-based pharmacological HTS assays to enhance oncolytic virus cancer-cell-killing efficiency through viral sensitizer screens (Bourgeois-Daigneault et al., 2016; Diallo et al., 2010) Protein design and engineering Zhang et al., 2013) tuberculosis therapeutics (Darwin, Ehrt, Gutierrez-Ramos, Weich, & Nathan, 2003 ) keywords: activation; active; activity; affinity; allosteric; amplification; analysis; approach; assays; binders; binding; bondeson et; bortezomib; box; cancer; catalytic; cell; cellular; chemical; chemistry; chen; clinical; combinatorial; complex; components; compounds; cysteine; decls; degradation; development; different; discovery; display; dna; domain; drug; dub; dubs; e3 ligase; effective; efficient; engineering; enzyme; erlanson; ernst; ernst et; et al; example; factor; family; fig; fluorescence; fragment; franzini; generation; group; hdm2; hect; high; hits; hts; human; hydrophobic; induced; inhibited; inhibition; inhibitors; interactions; intracellular; known; libraries; library; ligase; like; mdm2; mechanisms; medicinal; methods; modulators; moiety; molecular; molecule; multiple; myeloma; new; non; novel; number; p53; pathway; peptide; phage; pharmacological; phenotypic; pimozide; pna; pool; potent; potential; processes; properties; protacs; proteases; proteasome; protein; protein degradation; proteolysis; reagents; regulation; research; researchers; resistance; ring; screening; screens; selective; sidhu; single; site; small; small molecule; space; specific; specificity; split; strategies; strategy; structural; studies; study; substrate; surface; synthesis; system; table; target; target protein; targeted; targeting; technologies; technology; therapeutics; therapy; throughput; transfer; treatment; trials; ubc13; ubiquitin; ubiquitination; ubvs; ups; use; usp7; variant; viral; virus; vivo; work; yang et; zhang; zhang et cache: cord-282251-r4on3lpr.txt plain text: cord-282251-r4on3lpr.txt item: #393 of 647 id: cord-282610-zim7nond author: Proal, Amy title: Myalgic Encephalomyelitis/Chronic Fatigue Syndrome in the Era of the Human Microbiome: Persistent Pathogens Drive Chronic Symptoms by Interfering With Host Metabolism, Gene Expression, and Immunity date: 2018-12-04 words: 12434 flesch: 33 summary: Pathogens that persist inside human immune cells and associated tunneling nanotubuoles have been particularly hard to detect. Expanding research on the human microbiome now allows ME/CFS-associated pathogens to be studied as interacting members of human microbiome communities. keywords: ability; activation; activity; acute; agents; alzheimer; amyloid; analysis; archaea; associated; aureus; autoimmunity; bacterial; bacteriophage; beta; better; biofilms; blood; body; brain; breast; cancer; capable; cause; cells; central; certain; cfs; changes; characterized; chronic; chronic fatigue; clinical; common; communities; community; composition; conditions; contribute; control; cytokine; damage; different; disease; diversity; dna; dysbiosis; dysfunction; dysregulate; early; ebola; ecosystems; effect; encephalomyelitis; environmental; et al; example; exposure; expression; factors; fatigue; findings; forms; functional; fungi; gene; genome; growth; gut; gut microbiome; healthy; history; hiv; holobiont; host; host immune; human; human microbiome; identification; illness; imbalance; immune; immune response; immune system; immunity; immunopathology; individuals; infected; infection; inflammation; inflammatory; initial; innate; intestinal; intracellular; large; like; likely; manner; measles; mechanisms; metabolism; metabolites; metabolome; mice; microbes; microbial; microbiome; microbiome dysbiosis; mimicry; molecular; myalgic; nervous; novel; number; organisms; pathobionts; pathogens; pathways; patients; persistent; placenta; post; processes; proteins; range; receptor; related; research; response; rna; samples; severe; signaling; similar; single; sites; species; specific; state; studies; study; subjects; successive; survival; symptoms; syndrome; system; target; teams; time; tissue; transcription; treatment; unique; vdr; viral; virome; virulence; viruses; years cache: cord-282610-zim7nond.txt plain text: cord-282610-zim7nond.txt item: #394 of 647 id: cord-282618-tjvjlyn9 author: Luke, J M title: Improved antibiotic-free plasmid vector design by incorporation of transient expression enhancers date: 2010-11-25 words: 6279 flesch: 35 summary: Electroporation for the delivery of DNA-based vaccines and immunotherapeutics: current clinical developments Improved antibiotic-free DNA vaccine vectors utilizing a novel RNA based plasmid selection system pDNAVACCultra vector family: high throughput intracellular targeting DNA vaccine plasmids Plasmid DNA vector design; impact on efficacy, safety and upstream production Generic plasmid DNA production platform incorporating low metabolic burden seed-stock and fed-batch fermentation processes Low metabolic burden plasmid production Plasmid DNA production combining antibiotic-free selection, inducible high yield fermentation, and novel autolytic purification Guidance for Industry: Considerations for Plasmid DNA Vaccines for Infectious Disease Indications Non-clinical Studies Required before First Clinical use of Gene Therapy Medicinal Products Detection of integration of plasmid DNA into host genomic DNA following intramuscular injection and electroporation Cryptic open reading frames in plasmid vector backbone sequences can provide highly immunogenic cytotoxic T-lymphocyte epitopes Translation from cryptic reading frames of DNA vaccines generates an extended repertoire of immunogenic, MHC class I-restricted epitopes Robust, vaccine-induced CD8+ T lymphocyte response against an out-of-frame epitope A similar mRNA translation efficiency increase was observed with plasmid vectors incorporating and expressing the protein kinase R-inhibiting adenoviral viral associated (VA)1 RNA. keywords: a549; activation; activity; antibiotic; associated; backbone; binding; cell; cellular; cho; clinical; cmv; copy; cytoplasmic; delivery; design; dividing; dna; domain; downstream; effect; efficiency; egfp; electroporation; element; enhancement; enhancer; eukaryotic; expression; factor; figure; fluorescence; free; genome; genomic; gp120; gwiz; hek293; higher; htlv; human; iii; import; improved; increased; inhibition; integrated; integration; interference; kanr; levels; lines; localization; marker; mrna; nm23; non; ntc8685; nuclear; number; pcr; pkr; plasmid; pol; present; production; promoter; protein; rabbits; region; results; rna; rnai; sequences; sites; sp1; specific; supplementary; sv40; tee; therapy; total; transfection; transgene; transgene expression; transient; translation; type; upstream; usa; va1; vaccination; vaccine; vector; viral; virus cache: cord-282618-tjvjlyn9.txt plain text: cord-282618-tjvjlyn9.txt item: #395 of 647 id: cord-283249-pk5sc2ca author: Yoshida, Wataru title: Homogeneous DNA sensing using enzyme-inhibiting DNA aptamers date: 2006-09-15 words: 5418 flesch: 51 summary: DNA aptamers are easily and inexpensively synthesized; therefore, it is easy to add a probe DNA to a DNA aptamer. Additionally, DNA aptamers have a distinctive advantage, in that they are singlestranded DNAs, and therefore the way their structure changes is easy to design. keywords: -end; activity; aes; aes sars; aess; aptamer; clotting; complementary; complex; concentration; detection; dna; dna aptamer; dnas; enzyme; fig; fitc; homogeneous; hybridization; inhibitory; loop; loop structure; molecular; presence; probe; quartet; quartet structure; sars; sequence; site; solution; spectrum; stem; structure; system; t loop; target; target dna; thrombin; time cache: cord-283249-pk5sc2ca.txt plain text: cord-283249-pk5sc2ca.txt item: #396 of 647 id: cord-283461-xcyvisqu author: Berthelot, Jean-Marie title: Kawasaki-like diseases and thrombotic coagulopathy in COVID-19: delayed over-activation of the STING pathway? date: 2020-07-05 words: 5391 flesch: 35 summary: The hypothesis of a central role of STING activation in COVID-19 has been reinforced by: 1-the observation that STING is mostly expressed by endothelial cells and pneumocytes type II Since STING also activate coagulation through another independent pathway (STING-ITPR1-calcium release-gasdermin D-pyroptosis) which can lead to TF deposition in various tissues, low-dose aspirin or dipyridamole could be added to other STING inhibitors to better prevent the thrombotic coagulopathy of COVID-19 patients in patients with biological signs of coagulation dysfunction. keywords: ace2; activation; activity; acute; aneurysms; angiotensin; arterial; aspirin; associated; better; binding; cases; cells; cgas; children; coagulation; coagulopathy; coronary; coronavirus; cov2; covid-19; cytokine; delayed; dipyridamole; disease; dna; drugs; endothelial; factor; features; high; human; hyper; ifn; il-6; immune; infection; inhibitors; innate; interferon; kawasaki; lesions; like; low; mitochondrial; pathogenesis; pathway; patients; pyroptosis; release; response; risk; rna; sars; self; severe; severity; similar; sting; sting pathway; storm; thrombotic; tissue; tmem173; treatment; type; variants; vasculitis; viral; viruses; vitamin cache: cord-283461-xcyvisqu.txt plain text: cord-283461-xcyvisqu.txt item: #397 of 647 id: cord-283807-4yo27web author: Ashtari, Parviz title: An efficient method for recovery of target ssDNA based on amino-modified silica-coated magnetic nanoparticles date: 2005-09-15 words: 2984 flesch: 43 summary: In fact, this novel nanocapture is a kind of magnetic nanoparticle, which incorporates DNA probes. The reaction was allowed to continue for 24 h to produce magnetic nanoparticles. keywords: amino; bio; biotin; capture; conjugate; core; efficiency; ferrofluid; field; fig; fluorescence; good; magnetic; magnetic nanoparticles; method; molecular; molecules; nanoparticles; probe; recovery; results; selectivity; separation; silica; solution; ssdna; ssdna(i; streptavidin; supernatant; suspension; target; target ssdna; temperature; trace; water cache: cord-283807-4yo27web.txt plain text: cord-283807-4yo27web.txt item: #398 of 647 id: cord-283880-lrrkuist author: Kumar, Arvind title: Evolution of selective-sequencing approaches for virus discovery and virome analysis date: 2017-07-15 words: 5937 flesch: 20 summary: The section below briefly describe different sequencing platforms, their advantages and disadvantages for virus metagenomics based virus identification and virome analysis. To avoid this, several groups developed a positive selection approach for enriching samples for viruses of a defined taxonomic group (family, genus and species) based on DNA microarray (Gardner et al., 2010; Palacios et al., 2007; Wang et al., 2002) . keywords: abundance; acids; adenovirus; allander; amplification; analysis; animal; approach; biological; capture; cells; centrifugation; characterization; clinical; culture; data; density; detection; different; discovery; diseases; dna; driver; efficient; enrichment; environmental; et al; evolution; extraction; fig; filtration; generation; genome; gradient; group; hepatitis; high; host; hts; human; hybridization; identification; isolation; kapoor; libraries; like; long; low; metagenomics; methods; microarray; molecular; molecule; nanopore; nature; negative; new; non; novel; nuclease; nucleic; nucleotides; outbreak; pcr; platform; positive; preparation; principle; probes; rapid; reads; real; related; removal; respiratory; rna; rrna; samples; selection; selective; sensitive; sequences; sequencing; serum; similar; simple; single; species; specific; studies; study; subtraction; technologies; technology; throughput; time; tissue; treatment; vertebrate; viral; vircapseq; virocap; virome; virus; viruses cache: cord-283880-lrrkuist.txt plain text: cord-283880-lrrkuist.txt item: #399 of 647 id: cord-284582-xwedgllw author: Korabecna, M. title: Cell-free DNA in plasma as an essential immune system regulator date: 2020-10-15 words: 5719 flesch: 38 summary: It controls the transcription of its target genes in different types of immune cells 40 . The normal functions of these cells were downregulated (notch signaling), potential migration was inhibited, and the genes for attractants of immune cells (CXCL8 and CCL24) were overexpressed (Fig. 2b inset and Fig. 3) . keywords: acid; activation; activity; addition; analysis; blood; buffer; cations; cells; cfdna; clearance; complement; cultivation; data; degradation; differences; different; disease; divalent; dnase; dnase turbo; edta; elevated; endogenous; experiments; expression; extracellular; fetal; fig; free; genes; healthy; homeostasis; human; identical; iir; immune; immune cells; immune system; individuals; inflammation; inflammatory; innate; isolated; level; line; macrophages; mechanisms; min; monocytes; native; nets; notch; pathways; patients; peptide; plasma; plasma samples; presence; procedure; products; protein; qpcr; reactome; regulation; regulatory; response; results; role; samples; serum; sesn2; set; signaling; stimulation; study; supplementary; system; table; target; thermo; thp1; treatment; turbo; validation; www.nature.com/scientificreports/ cache: cord-284582-xwedgllw.txt plain text: cord-284582-xwedgllw.txt item: #400 of 647 id: cord-284690-ogu1gmcb author: da Cunha, Nicolau B. title: The next generation of antimicrobial peptides (AMPs) as molecular therapeutic tools for the treatment of diseases with social and economic impacts date: 2016-11-23 words: 9495 flesch: 29 summary: Overview: global and local impact of antibiotic resistance The emergence of peptides in the pharmaceutical business: from exploration to exploitation Mechanisms and consequences of bacterial resistance to antimicrobial peptides Antibiotic strategies in the era of multidrug resistance The expanding scope of antimicrobial peptide structures and their modes of action The antifungal plant defensin AhPDF1.1b is a beneficial factor involved in adaptive response to zinc overload when it is expressed in yeast cells Engineered cationic antimicrobial peptides to overcome multidrug resistance by ESKAPE pathogens Magnifection: a new platform for expressing recombinant vaccines in plants CRISPR/Cas9 for genome editing: progress, implications and challenges Antimicrobial peptides targeting Grampositive bacteria Gram-positive bacterial cell envelopes: the impact on the activity of antimicrobial peptides Antimicrobial peptides and their pore/ion channel properties in neutralization of pathogenic microbes Understanding bacterial resistance to antimicrobial peptides: from the surface to deep inside Induced bacterial cross-resistance toward host antimicrobial peptides: a worrying phenomenon New edge of antibiotic development: antimicrobial peptides and corresponding resistance Correlation of cell membrane lipid profiles with daptomycin resistance in methicillin-resistant Staphylococcus aureus Cardiolipin prevents membrane translocation and permeabilization by daptomycin Heterogeneity of mprF sequences in methicillin-resistant Staphylococcus aureus clinical isolates: role in cross-resistance between daptomycin and host defense antimicrobial peptides Daptomycin resistance in enterococci is associated with distinct alterations of cell membrane phospholipid content D-Alanylation of teichoic acids promotes group A Streptococcus antimicrobial peptide resistance, neutrophil survival, and epithelial cell invasion Lipopolysaccharide endotoxins Antimicrobial peptide resistance of Vibrio cholerae results from an LPS modification pathway related to nonribosomal peptide synthetases A metalloproteinase karilysin present in the majority of Tannerella forsythia isolates inhibits all pathways of the complement system A group B streptococcal pilus protein promotes phagocyte resistance and systemic virulence Protein GRAB of Streptococcus pyogenes regulates proteolysis at the bacterial surface by binding a2-macroglobulin Bacterial biofilm: structure, function, and antimicrobial resistance Peptide therapeutics: current status and future directions Antimicrobial and host-defense peptides as new anti-infective therapeutic strategies Antimicrobial peptides (AMPs) as drug candidates: a patent review Quality specifications for peptide drugs: a regulatorypharmaceutical approach Antimicrobial peptides stage a comeback Future directions for peptide therapeutics development Rational design of engineered cationic antimicrobial peptides consisting exclusively of arginine and tryptophan, and their activity against multidrug-resistant pathogens Antimicrobial peptides: pore formers or metabolic inhibitors in bacteria? Antimicrobial peptides in toroidal and cylindrical pores Novel engineered peptides of a phage lysin as effective antimicrobials against multidrug resistant, Acinetobacter baumannii Antimicrobial peptides: versatile biological properties Interaction-site prediction for protein complexes: a critical assessment Biopharmaceutical production in plants: problems, solutions and opportunities N-glycosylation of plant recombinant pharmaceuticals Production and glycosylation of plant-made pharmaceuticals: the antibodies as a challenge Expression of rat b(1,4)-N-acetylglucosaminyltransferase III in Nicotiana tabacum remodels the plant-specific N-glycosylation End-tagging of ultra-short antimicrobial peptides by W/ F stretches to facilitate bacterial killing Engineered chimeric peptides as antimicrobial surface coating agents toward infection-free implants D-Enantiomeric peptides that eradicate wildtype and multi-drug resistant biofilms and protect against lethal Pseudomonas aeruginosa infections Membrane insertion and orientation of polyalanine peptides: a (15)N solid-state NMR spectroscopy investigation Structural and functional characterization of a multifunctional alanine-rich peptide analogue from Pleuronectes americanus Chemistry for peptide and protein PEGylation PEG-peptide conjugates Efficient backbone cyclization of linear peptides by a recombinant asparaginyl endopeptidase Global analysis of peptide cyclization efficiency The effects of the C-terminal amidation of mastoparans on their biological actions and interactions with membrane-mimetic systems Characterization of antimicrobial peptides toward the development of novel antibiotics Antifungal plant defensins: mechanisms of action and production Lanthipeptides: chemical synthesis versus in vivo biosynthesis as tools for pharmaceutical production Chemical synthesis of proteins Synthetic therapeutic peptides: science and market Dengue fever virus and Japanese encephalitis virus synthetic peptides, with motifs to fit HLA class I haplotypes prevalent in human populations in endemic regions, can be used for application to skin Langerhans cells to prime antiviral CD8+ cytotoxic T cells (CTLs): a novel approach to the protection of humans Expression systems for heterologous production of antimicrobial peptides Current scenario of peptide-based drugs: the key roles of cationic antitumor and antiviral peptides A review of antimicrobial peptides and their therapeutic potential as anti-infective drugs Plant antimicrobial peptides Engineering viral expression vectors for plants: the 'full virus' and the 'deconstructed virus' strategies Plant viral vectors for delivery by Agrobacterium Viral vectors for the expression of proteins in plants Expanding the genetic editing tool kit: ZFNs, TALENs, and CRISPR-Cas9 The CRISPR-Cas system for plant genome editing: advances and opportunities The CRISPR/Cas9 system for plant genome editing and beyond Development and applications of CRISPR-Cas9 for genome engineering Double nicking by RNA-guided CRISPR Cas9 for enhanced genome editing specificity CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering Antimicrobial Resistance: Tackling a Crisis for the Health and Wealth of Nations. key: cord-284690-ogu1gmcb authors: da Cunha, Nicolau B.; Cobacho, Nicole B.; Viana, Juliane F.C.; Lima, Loiane A.; Sampaio, Kamila B.O.; Dohms, Stephan S.M.; Ferreira, Arthur C.R.; de la Fuente-Núñez, César; Costa, Fabrício F.; Franco, Octávio L.; Dias, Simoni C. title: The next generation of antimicrobial peptides (AMPs) as molecular therapeutic tools for the treatment of diseases with social and economic impacts date: 2016-11-23 journal: Drug Discov Today DOI: 10.1016/j.drudis.2016.10.017 sha: doc_id: 284690 cord_uid: ogu1gmcb Anti-infective drugs have had a key role in the contemporary world, contributing to dramatically decrease mortality rates caused by infectious diseases worldwide. keywords: acid; active; activities; activity; addition; advances; aeruginosa; agents; amino; amps; antibacterial; antibiotic; antimicrobial; antimicrobial activity; antimicrobial peptides; approach; associated; aureus; bacteria; bilayer; biofilm; biological; biosynthesis; candidates; cas9; case; cationic; cell; chemical; cleavage; clinical; coding; common; composition; crispr; cytoplasmic; defense; design; development; different; discovery; dna; double; drug; dsbs; ecaps; editing; effects; efficient; engineering; expression; formation; gene; generation; genetic; genome; glycans; glycosylation; gram; high; higher; host; human; hydrophobic; iii; immune; important; improved; increase; infective; innate; interactions; interesting; levels; lipid; low; magnifection; main; major; mdr; mechanisms; membrane; microorganisms; model; modifications; molecular; molecules; multiple; natural; negative; new; non; novel; occurring; pathogens; pathways; peptides; phase; phop; plant; platform; pore; positive; post; potential; presence; present; production; promising; properties; protein; quality; rational; recombinant; residues; resistance; response; screening; sequence; short; single; sites; size; specific; specificity; stability; strains; strategy; structure; surface; synthetic; system; target; technology; therapeutic; tobacco; toroidal; transcription; translational; translocation; trials; use; vaccine; variety; vectors; viral; virus; vitro; wall cache: cord-284690-ogu1gmcb.txt plain text: cord-284690-ogu1gmcb.txt item: #401 of 647 id: cord-285077-okwck5sv author: Sayahi, Tofigh title: Airborne Aerosolized Mouse Cytomegalovirus From Common Otolaryngology Procedures: Implications for COVID-19 Infection date: 2020-09-15 words: 5000 flesch: 45 summary: Using this same method, Pan et al demonstrated much greater collection of virus particles and efficiency of collecting viable virus-specifically, 10 to 100 times better than standard BioSamplers. To assess the presence of infectious CMV viral particles, cultured cells were inoculated with aerosol condensates and monitored for GFP expression by fluorescent microscopy. keywords: aerosol; aerosolized; analysis; appropriate; approval; aps; background; care; cells; cmv; coblation; collection; concentrations; condensates; counts; covid-19; culture; data; dna; drilling; editing; electrocautery; experiments; exposure; figure; final; gfp; health; high; increases; infected; infection; levels; manuscript; mcmv; mice; microdebrider; minutes; mobility; model; mouse; n95; need; particle; patients; presence; procedures; protection; range; results; samples; sars; seconds; significant; sizer; smoke; smps; standard; studies; study; surgical; time; tissue; total; transmission; tukey; value; viable; viral; viral dna; virus; workers cache: cord-285077-okwck5sv.txt plain text: cord-285077-okwck5sv.txt item: #402 of 647 id: cord-285262-690kpupt author: Imre, Gergely title: The involvement of regulated cell death forms in modulating the bacterial and viral pathogenesis date: 2020-01-27 words: 13248 flesch: 26 summary: Caspase-2, along with caspase-1 plays a significant role in Brucella abortus and Brucella suis induced cell death (Bronner et al., 2013; Chen et al., 2011) . This chapter discusses the current advances in the research of cell death signaling with regard to viral and bacterial infections and describes the network of the cell death initiating molecular mechanisms that selectively recognize pathogen associated molecular patterns. keywords: activated; activation; activity; adaptor; aim2; anti; apoptosis; apoptotic; asc; assembly; associated; bacterial; binding; caspase-8; caspases; cd4; cell; cell death; cflip; cgas; cleavage; complex; components; contrast; cytoplasmic; cytosol; damage; death; deficient; dendritic; dependent; depletion; direct; distinct; dna; domain; effector; efflux; epithelial; et al; expression; factor; fadd; family; fas; fig; formation; forms; fragments; gasdermin; gene; group; gsdmd; herpes; hiv; host; human; iav; ifn; immune; induction; infected; infection; inflammasome; inflammasome activation; inflammation; inflammatory; influenza; inhibitor; inhibits; initiator; innate; instance; integrity; interaction; interferon; intracellular; intrinsic; irf3; key; killing; kinase; large; leading; like; loss; lps; lymphocytes; lytic; macrophages; major; mechanism; membrane; mice; mitochondrial; mlkl; modalities; molecular; monocytes; mouse; mycobacterium; necroptosis; necrosis; necrotic; negative; nlrc4; nlrp3; non; osmotic; outer; pamps; pathogen; pathway; patterns; phosphorylation; pore; potassium; process; production; programmed; protease; protein; pyroptosis; receptor; recognition; recruitment; regulated; release; relevance; response; results; ripk3; rna; role; salmonella; secretion; sensors; signaling; signals; stimulation; sting; strain; strategies; study; surface; survival; system; t3ss; tlr3; tnf; tnfr1; toll; toxin; transcription; trif; trigger; tuberculosis; turn; type; typhimurium; vaccinia; viral; virus; viruses; vivo; yersinia; zbp1 cache: cord-285262-690kpupt.txt plain text: cord-285262-690kpupt.txt item: #403 of 647 id: cord-285505-8norumv6 author: Vere Hodge, R. Anthony title: Meeting report: 27th International conference on antiviral research, in Raleigh, NC, USA date: 2014-09-16 words: 10298 flesch: 57 summary: These are followed by brief summaries of the keynote addresses and the three mini-symposia on 'Hepatitis B virus', 'Research Triangle Park' and 'Challenges in HIV infection, treatment and prevention'. Although this patient continues to have no sign of HIV infection, this is hardly a viable treatment option for most HIV-infected patients. keywords: active; activity; adrian; analog; antiviral; approach; art; assay; award; bcx4430; bdcrb; cancer; carolina; cccdna; cells; chronic; clinical; combination; compounds; contrast; core; couples; culture; cure; current; daily; days; different; disease; dna; doses; dosing; drug; early; effective; example; fig; form; ftc; good; group; gs-6620; hbv; hcmv; hcv; hdv; hepatitis; hepatocytes; high; higher; hiv; hntcp; human; icar; increase; infected; infection; inhibitor; integrated; latent; levels; liver; load; long; low; major; maribavir; mitochondrial; model; monkeys; myron; new; north; novel; nuc1; nucleotide; oral; patients; phase; piet; plasma; polymerase; possible; potential; prep; prevention; prodrug; progress; protection; protein; rate; reduction; replication; research; resistance; rna; single; siv; sofosbuvir; strains; studies; study; subjects; synthesis; system; taf; target; tdf; tfv; therapy; time; tissues; transcription; transmission; treatment; trial; triphosphate; university; usa; use; viral; virus; work; years cache: cord-285505-8norumv6.txt plain text: cord-285505-8norumv6.txt item: #404 of 647 id: cord-285982-1a5u7uux author: Moss, Ronald B title: Prospects for control of emerging infectious diseases with plasmid DNA vaccines date: 2009-09-07 words: 4229 flesch: 37 summary: These and other attributes make DNA vaccines ideal for development against emerging pathogens. The rapid manufacturing capabilities of DNA vaccines may be particularly important for emerging infectious diseases including the current novel H1N1 Influenza A pandemic, where pre-existing immunity is limited. keywords: adjuvants; animals; antibodies; antibody; antigen; approach; boost; cancer; cells; clinical; cmv; colleagues; components; conventional; delivery; different; diseases; dna; electroporation; encoding; gene; health; hiv; host; human; immune; immunity; immunization; incorporated; infectious; influenza; injection; macaques; malaria; manufacturing; needle; nih; pandemic; pathogens; plasmid; potential; process; production; protein; rapid; recent; responses; safety; specific; studies; study; subjects; time; trial; university; vaccination; vaccines; vaxfectin; vector; viral; virus cache: cord-285982-1a5u7uux.txt plain text: cord-285982-1a5u7uux.txt item: #405 of 647 id: cord-286243-ddpemgqt author: Whitaker, Amy M. title: APE1: A skilled nucleic acid surgeon date: 2018-11-30 words: 5876 flesch: 34 summary: Since APE1 has roles in both disease suppression and therapeutic agent resistance, it is apparent that if APE1 DNA repair activities can be strategically regulated that the protein would be a potentially druggable target in both preventative and therapeutic treatments. During DNA repair APE1 functions as a nuclease, cleaving at select phosphodiester bonds that compose the DNA backbone. keywords: 3'-phosphoglycolate; abasic; active; active site; activities; activity; ape1; aprataxin; apurinic; apyrimidinic; apyrimidinic endonuclease; associated; backbone; base; ber; binding; biological; breaks; cancer; catalysis; catalytic; cells; cellular; cleavage; complex; conditions; crystal; damage; dependent; disease; dna; domain; double; endonuclease; ends; enzymes; excision; exonuclease activity; expression; fig; function; human; incision; major; mechanism; mechanistic; mismatches; molecular; mutagenesis; nick; nir; nucleotide; oxidative; oxog; oxygen; pathway; perspective; phosphate; phosphodiesterase; polymerase; processing; product; protein; reaction; redox; removal; repair; residues; result; rna; role; similar; single; site; specificity; strand; structures; studies; substrate; terminal; termini; tyrosyl cache: cord-286243-ddpemgqt.txt plain text: cord-286243-ddpemgqt.txt item: #406 of 647 id: cord-286684-2xmd3jfo author: Stefanetti, Valentina title: Retrospective Biomolecular Investigation of Coxiella burnetii and Leptospira spp. DNA in Cases of Abortion, Stillbirth and Neonatal Mortality in Dogs and Cats date: 2018-08-20 words: 3429 flesch: 43 summary: 7À10 Nagaoka et al. 11 provided the first evidence of active infection, isolating 9 of 29 cases of C. burnetii from vaginal swabs of domestic queens, and C. burnetii DNA was amplified through PCR assay from 3 out of 37 uterine tissues from cats with and without a history of reproductive abnormalities. Moreover, several outbreaks of C. burnetii infection in humans have been caused by delivering bitches and queens, and some of these animals experienced abortion. keywords: abortion; agents; animal; bitches; burnetii; canine; cases; cats; cause; clinical; coxiella; deaths; detection; dna; dogs; examination; exposure; feline; fever; infection; interrogans; investigation; leptospira; leptospira spp; leptospirosis; mortality; negative; neonatal; neonatal mortality; nested; pathogenic; pcr; placenta; positive; protocol; queens; reproductive; retrospective; risk; role; samples; serovar; sheep; species; spp; stillbirth; study; type cache: cord-286684-2xmd3jfo.txt plain text: cord-286684-2xmd3jfo.txt item: #407 of 647 id: cord-286719-1xjmlwqr author: Draz, Mohamed Shehata title: Applications of gold nanoparticles in virus detection date: 2018-02-15 words: 19000 flesch: 33 summary: In addition, we provide a general summary of the contributions of AuNPs to the mainstream methods of virus detection, technical measures, and recommendations required in guidance toward commercial in-field applications. Toward this endeavor and beyond the pitfalls of current immunological and molecular techniques commonly applied to virus detection, several new approaches based on nanoparticles (NPs) have recently been developed. keywords: acid; activity; addition; africa; aggregation; amplification; antibodies; antibody; antigen; applications; applied; approaches; area; array; assay; aunps; available; b virus; barcode; biomolecules; biotin; cancer; capture; catalytic; cause; cells; change; characteristics; chip; chronic; clinical; colorimetric; colorimetric detection; common; concentration; conjugates; conjugation; control; core; coronavirus; current; cy3; deposition; detected; detection; detection limit; detection methods; detection techniques; developed; development; diagnostic; different; direct; diseases; dls; dna; dna detection; dna probes; drugs; early; ebola; effective; efficient; electrical; electrochemical; electrochemical detection; electrode; enhanced; enhancement; enzyme; family; fever; fig; flow; fluorescence; fluorometric; form; fret; functions; genera; genome; genus; global; gold; h1n1; hav; hbsag; hbv; hbv dna; hcmv; hcv; health; hepatitis; herpes; high; hiv; hpv; hrp; human; hybridization; icp; immobilized; immunoassay; immunological; important; infection; influenza; international; kaposi; known; kshv; label; large; lateral; light; like; limit; lspr; magnetic; main; management; metal; methods; molecular; molecular detection; multiple; nanoparticles; new; novel; nucleic; numerous; outbreaks; papillomavirus; pcr; plasmon; positive; presence; probes; properties; proteins; protocol; qcm; quenching; raman; range; rapid; reaction; red; reduction; reported; resonance; respiratory; results; review; rna; rvfv; sandwich; sarcoma; sars; scanometric; scanometric detection; scattering; scheme; sense; sensing; sensitive; sensitive detection; sensitivity; sequences; serological; sers; shape; signal; significant; silver; similar; simple; single; size; species; specific; specific dna; specificity; spherical; ssdna; stability; staining; step; streptavidin; stripping; structures; studies; surface; syndrome; synthesis; systems; table; target; target dna; target virus; taxonomy; techniques; test; testing; time; traditional; treatment; types; vaccine; viral; virus; virus detection; virus dna; viruses; wide; world cache: cord-286719-1xjmlwqr.txt plain text: cord-286719-1xjmlwqr.txt item: #408 of 647 id: cord-286877-0h5vgi5c author: Dahiya, Shyam S. title: Immunogenicity of a DNA-launched replicon-based canine parvovirus DNA vaccine expressing VP2 antigen in dogs date: 2012-10-31 words: 5273 flesch: 36 summary: + effectors cells were significantly higher with repliconbased CPV DNA vaccine compared to conventional CPV DNA vaccine. The VN titer in all groups of CPV vaccine immunized dogs boosted after booster immunization and crossed the protective status. keywords: antibodies; antibody; antigen; apoptosis; canine; cd3; cd4; cd8; cells; commercial; control; conventional; conventional cpv; cpv; cpv dna; cpv vaccine; day; different; dna; dna vaccine; dogs; effectors; elisa; encoding; et al; fig; gene; groups; higher; igg; immune; immunization; immunized; immunogenicity; inactivated; induction; instructions; manufacturer; mrna; non; page; palpha; parvovirus; pbmcs; plasmid; post; protective; ptarget; replicon; response; rna; sds; self; sem; sera; sindbis; specific; stimulated; stimulation; titer; transcripts; utr; vaccine; vector; virus; vp2 cache: cord-286877-0h5vgi5c.txt plain text: cord-286877-0h5vgi5c.txt item: #409 of 647 id: cord-287286-4l963z2q author: Green, Victoria A. title: Molecular mechanisms of viral infection and propagation: An overview of the second Advanced Summer School in Africa date: 2010-07-28 words: 7376 flesch: 35 summary: A detailed understanding of the molecular mechanisms governing virus infection and propagation is crucial to the development of antiviral strategies through identification of critical processes and drug targets. Research into the molecular basis of virus infection and propagation will enhance our understanding of virus-associated disease and inform new antiviral strategies and vaccine design. keywords: ability; able; activation; activity; addition; africa; antibodies; antibody; antiviral; assembly; associated; biology; bnabs; budding; cancer; carcinoma; cell; cellular; cervical; changes; chemokines; chromatin; coronavirus; cov; dependent; development; different; disease; dna; doorbar; ebv; effective; epithelial; expression; factors; fassati; gag; gene; genetic; genome; group; hepatitis; high; hiv-1; host; hpv; htlv-1; human; icgeb; immature; immune; immunity; import; individuals; infected; infection; influenza; integration; kräusslich; kshv; latency; latent; lesions; life; low; major; marcello; maturation; mechanisms; mice; molecular; mouse; new; novel; nuclear; number; papillomavirus; potential; primary; production; prof; progression; proliferation; protein; receptor; release; replication; research; respiratory; response; result; risk; rna; role; sars; school; severe; sites; specific; studies; summer; system; transcription; transformation; transgenic; tumor; type; understanding; vaccine; viral; virelizier; virus; viruses; vpu; work cache: cord-287286-4l963z2q.txt plain text: cord-287286-4l963z2q.txt item: #410 of 647 id: cord-288131-dwhfrgje author: Zhao, Guodong title: Aberrant DNA Methylation of SEPT9 and SDC2 in Stool Specimens as an Integrated Biomarker for Colorectal Cancer Early Detection date: 2020-06-18 words: 4315 flesch: 52 summary: A number of methylated DNA biomarkers have been found to associate with CRC and precancerous lesions in stool samples, indicating stool methylated DNA biomarkers are potential tools for CRC early detection. Therefore, it has the potential to become a low-cost, convenient, and highly effective tool for CRC early detection. keywords: algorithm; assay; auc; biomarkers; blood; cancer; china; colodefense; colodefense test; colonoscopy; colorectal; control; crc; detection; different; dna; early; et al; high; incidence; methylation; msdc2; msept9; patients; performance; plasma; positive; samples; screening; sensitivities; sensitivity; set; specificity; specimens; stage; stool; study; subjects; table; test; training; tumor; validation; value cache: cord-288131-dwhfrgje.txt plain text: cord-288131-dwhfrgje.txt item: #411 of 647 id: cord-288187-84oj3xtp author: Khan, Ali S. title: Forensic public health: epidemiological and microbiological investigations for biosecurity date: 2019-12-06 words: 8427 flesch: 30 summary: Novel pathogens and transmission methods can easily be exploited to cause disease outbreaks. Bioterrorism-related anthrax: the first 10 cases reported in the United States Antimicrobial susceptibility testing: a review of general principles and contemporary practices Anthrax molecular epidemiology and forensics: using the appropriate marker for different evolutionary scales Public health preparedness for biological terrorism in the USA The unacceptable risks of man-made pandemic How Canadian researchers reconstituted an extinct poxvirus for $100,000 using mailorder DNA A Dictionary of Epidemiology Genome-editing technologies for gene and cell therapy Phylogenetic analysis of human influenza A/H3N2 viruses isolated in 2015 in Germany indicates significant genetic divergence from vaccine strains Gene therapy returns to centre stage Construction of an infectious horsepox virus vaccine from chemically synthesized DNA fragments Host and viral traits predict zoonotic spillover from mammals Electrophoretic typing Parity among the randomly amplified polymorphic DNA method, multilocus enzyme electrophoresis, and Southern blot hybridization with the moderately repetitive DNA probe Ca 3 for fingerprinting Candida albicans Monitoring of ebola virus makona evolution through establishment of advanced genomic capacity in liberia Bacillus anthracis comparative genome analysis in support of the Amerithrax investigation Emerging infectious diseases Methods for subtyping and molecular comparison of human viral genomes Alloenzyme electrophoresis Gain eof-function research: ethical analysis Laboratory-guided detection of disease outbreaks: three generations of surveillance systems Microbial Threats to Health: Emergence, Detection and Response Mail-order CRISPR kits allow absolutely anyone to hack DNA The ins and outs of DNA fingerprinting of infectious fungi Laboratory procedures for the epidemiological analysis of microorganisms PulseNet: the molecular subtyping network for foodborne bacterial disease surveillance, United States How to select and interpret molecular strain typing methods for epidemiological studies of bacterial infections: a review for healthcare epidemiologists Overview and significance of molecular methods: what role for molecular epidemiology? Genetic characterization of six parasitic protozoa: parity between random primer DNA typing and multilocus enzyme electrophoresis A large community outbreak of salmonellosis caused by intentional contamination of restaurant salad bars Tracing isolates of bacterial species by multilocus variable number of tandem repeat analysis (MLVA) keywords: ability; agent; analysis; anthracis; anthrax; attack; biological; biosecurity; bioterrorism; cases; cause; cdc; centers; clinical; clues; common; community; control; critical; data; death; deliberate; detection; different; disease; dissemination; distribution; dna; ebola; editing; electrophoresis; environmental; epidemic; epidemiological; epidemiological investigation; epidemiology; et al; example; exposure; factors; field; following; food; forensic; gene; genetic; genome; health; human; illness; increase; infectious; influenza; information; initial; intentional; investigation; isolates; laboratories; laboratory; large; level; local; methods; microbial; microorganisms; mlva; molecular; multiple; national; natural; new; number; organism; outbreak; pandemic; pathogens; pattern; persons; phenotypic; population; possible; potential; public; public health; pulsenet; release; research; resistance; results; risk; samples; sequencing; similar; source; spread; states; step; strain; subtyping; surveillance; systems; table; techniques; technology; threat; time; transmission; typing; unexplained; united; unusual; use; virus; viruses cache: cord-288187-84oj3xtp.txt plain text: cord-288187-84oj3xtp.txt item: #412 of 647 id: cord-288390-p1q3v1ie author: Habjan, Matthias title: Cytoplasmic sensing of viral nucleic acids date: 2015-02-07 words: 4050 flesch: 39 summary: dsRNA could be either the result of replication intermediates (for RNA viruses), generation of genomic RNA (for dsRNA viruses), convergent transcription (for DNA viruses), or of the presence of secondary structures found in viral RNAs (e.g. the IRES structure of ssRNA viruses) I interferon signalling Protein kinase PKR and RNA adenosine deaminase ADAR1: new roles for old players as modulators of the interferon response Bevilacqua PC: 5'-Triphosphate-dependent activation of PKR by RNAs with short stem-loops AIM2 activates the inflammasome and cell death in response to cytoplasmic DNA Recognition of RNA virus by RIG-I results in activation of CARD9 and inflammasome signaling for interleukin 1 beta production The DHX33 RNA helicase senses cytosolic RNA and activates the NLRP3 inflammasome IFIT1 is an antiviral protein that recognizes 5 0 -triphosphate RNA Structural basis for viral 5 0 -PPP-RNA recognition by human IFIT proteins Inhibition of translation by IFIT family members is determined by their ability to interact selectively with the 5 0 -terminal regions of cap0-, cap1-and keywords: ability; acids; activation; antiviral; binding; cap; cells; cellular; cgamp; cgas; cyclic; cytokines; cytoplasmic; cytosolic; defence; degradation; dependent; dna; double; dsrna; expression; family; gene; ifi16; ifits; ifn; immune; immunity; infection; innate; interferon; key; lgp2; like; mda5; methylation; molecular; mrna; nucleic; pathogens; pathways; polymerase; ppp; proteins; receptors; replication; rig; rna; rnas; sensing; sensors; signalling; specific; structures; system; target; transcription; translation; type; viral; virus; viruses cache: cord-288390-p1q3v1ie.txt plain text: cord-288390-p1q3v1ie.txt item: #413 of 647 id: cord-288444-0vv4neq6 author: Cotrone, Serafina title: Microcantilevers and organic transistors: two promising classes of label-free biosensing devices which can be integrated in electronic circuits date: 2011-12-22 words: 6472 flesch: 26 summary: Another example of cell detection was reported by Sungkanak and co-workers, who designed an MCL-based Vibrio cholerae O1 sensor by immobilizing a monoclonal antibody onto the gold-coated MCL tip by using a SAM of mercaptopropionic acid. Besides this, the biocompatibility and biofunctionalization of organic semiconductors may be crucial points when organic materials interface with biological cells. keywords: able; acid; active; adhesion; advantages; antigen; applications; approach; aqueous; array; bending; biocompatibility; biodegradable; biological; biomedical; biosensing; biosensors; cancer; cantilever; cells; change; chemical; chitosan; coated; complex; conducting; contact; control; cost; detection; development; devices; diagnosis; different; disease; dna; effect; electrical; electrochemical; electrode; electronic; environment; field; fig; film; force; free; gate; glucose; growth; high; hybridization; hydrogels; implantable; integrated; interface; label; layer; living; low; materials; mcl; mcls; mechanical; media; microcantilevers; microscopy; natural; nature; neural; new; oect; ofets; operation; order; organic; particular; pedot; pentacene; polymer; possibility; potential; promising; properties; psa; recent; recognition; results; semiconductor; sensing; sensitivity; sensors; single; specific; stability; study; substrate; surface; systems; technology; thin; time; transduction; transistors; ultrasensitive; water cache: cord-288444-0vv4neq6.txt plain text: cord-288444-0vv4neq6.txt item: #414 of 647 id: cord-288445-6i5fbdcu author: Lee, Jieon title: Biosensors based on graphene oxide and its biomedical application() date: 2016-10-01 words: 7874 flesch: 32 summary: A graphene functionalized electrochemical aptasensor for selective label-free detection of cancer cells Amplified electrochemical genotyping of singlenucleotide polymorphisms using a graphene-gold nanoparticles modified glassy carbon platform Label-free, electrochemical detection of methicillin-resistant Staphylococcus aureus DNA with reduced graphene oxidemodified electrodes An integrated sensing system for detection of DNA using new parallel-motif DNA triplex system and graphene-mesoporous silicagold nanoparticle hybrids Graphene oxide for electrochemical sensing applications Impedimetric thrombin aptasensor based on chemically modified graphenes A binary functional substrate for enrichment and ultrasensitive SERS spectroscopic detection of folic acid using graphene oxide/Ag nanoparticle hybrids Hybrid graphene oxide based ultrasensitive SERS probe for label-free biosensing A novel surface-enhanced Raman scattering sensor to detect prohibited colorants in food by graphene/silver nanocomposite One-pot green synthesis of Ag nanoparticles-graphene nanocomposites and their applications in SERS, H2O2, and glucose sensing Rapid and sensitive in-situ detection of polar antibiotics in water using a disposable Ag-graphene sensor based on electrophoretic preconcentration and surface-enhanced Raman spectroscopy Surface-enhanced Raman spectroscopy for DNA detection by the self-assembly of Ag nanoparticles onto Ag nanoparticle-graphene oxide nanocomposites Fabrication of reduced graphene oxide and sliver nanoparticle hybrids for Raman detection of absorbed folic acid: a potential cancer diagnostic probe Graphene Oxide as a Multifunctional Platform for Raman and Fluorescence Imaging of Cells Graphene oxide sheath on Ag nanoparticle/ graphene hybrid films as an antioxidative coating and enhancer of surfaceenhanced Raman scattering Graphene oxide wrapped individual silver nanocomposites with improved stability for surface-enhanced Raman scattering Graphene oxide-protected DNA probes for multiplex microRNA analysis in complex biological samples based on a cyclic enzymatic amplification method Insulin-binding aptamerconjugated graphene oxide for insulin detection Multiplexed aptasensors and amplified DNA sensors using functionalized graphene oxide: application for logic gate operations Detection of microRNA in tumor cells using exonuclease III and graphene oxide-regulated signal amplification A graphene oxide and exonuclease-aided amplification immuno-sensor for antigen detection Amplified aptamer-based assay through catalytic recycling of the analyte Nicking endonuclease-assisted signal amplification of a split molecular aptamer beacon for biomolecule detection using graphene oxide as a sensing platform A label-free amplified fluorescence DNA detection based on isothermal circular strand-displacement polymerization reaction and graphene oxide An amplified graphene oxide-based fluorescence aptasensor based on target-triggered aptamer hairpin switch and strand-displacement polymerization recycling forbioassays Graphene fluorescence switch-based cooperative amplification: a sensitive and accurate method to detection microRNA Amplified electrochemical detection of mecA gene in methicillin-resistant Staphylococcus aureus based on target recycling amplification and isothermal strand-displacement polymerization reaction A graphene-based biosensing platform based on the release of DNA probes and rolling circle amplification Graphene-DNAzyme based biosensor for amplified fluorescence turn-on detection of Pb2 + with a high selectivity A turn-on fluorescent copper biosensor based on DNA cleavage-dependent graphene-quenched DNAzyme Graphene surface-anchored fluorescence sensor for sensitive detection of microRNA coupled with enzyme-free signal amplification of hybridization chain reaction A graphene oxide-based enzyme-free signal amplification platform for homogeneous DNA detection A novel graphene oxide based fluorescent nanosensing strategy with hybridization chain reaction signal amplification for highly sensitive biothiol detection Two-color imaging of microRNA with enzyme-free signal amplification via hybridization chain reactions in living cells A graphene-based platform for the assay of duplex-DNA unwinding by helicase Sensitive and rapid screening of T4 polynucleotide kinase activity and inhibition based on coupled exonuclease reaction and graphene oxide platform A new assay for endonuclease/methyltransferase activities based on graphene oxide A graphene oxide-based platform for the assay of RNA synthesis by RNA polymerase using a fluorescent peptide nucleic acid probe A simple fluorometric assay for DNA exonuclease activity based on graphene oxide Graphene oxide-hairpin probe nanocomposite as a homogeneous assay platform for DNA base excision repair screening An exonuclease III and graphene oxideaided assay for DNA detection Interaction of peptides with graphene oxide and its application for real-time monitoring of protease activity Graphene oxide-peptide nanocomplex as a versatile fluorescence probe of protein kinase activity based on phosphorylation protection against carboxypeptidase digestion Robust detection of tyrosine phosphatase activity by coupling chymotrypsin-assisted selective peptide cleavage and a graphene oxide-based fluorescent platform A graphene oxide platform for energy transfer-based detection of protease activity A graphene oxide-based FRET sensor for rapid and sensitive detection of matrix metalloproteinase 2 in human serum sample High throughput enzyme inhibitor screening by functionalized magnetic carbonaceous microspheres and graphene oxidebased MALDI-TOF-MS Laser desorption/ionization mass spectrometric assay for phospholipase activity based on graphene oxide/carbon nanotube double-layer films Direct electrochemistry of glucose oxidase and biosensing for glucose based on graphene Signal amplification of graphene oxide combining with restriction endonuclease for site-specific determination of DNA methylation and assay of methyltransferase activity Label-free ultrasensitive detection of human telomerase activity using porphyrin-functionalized graphene and electrochemiluminescence technique Size-controlled synthesis of graphene oxide sheets on a large scale using chemical exfoliation Graphene oxide nanocolloids Size fractionation of graphene oxide sheets by pH-assisted selective sedimentation Aptamer/graphene oxide nanocomplex for in situ molecular probing in living cells Graphene oxide-peptide conjugate as an intracellular protease sensor for caspase-3 activation imaging in live cells Quantitative and multiplexed microRNA sensing in living cells based on peptide nucleic acid and nano graphene oxide (PANGO) Deoxyribozyme-loaded nano-graphene oxide for simultaneous sensing and silencing of the hepatitis C virus gene in liver cells In situ live cell sensing of multiple nucleotides exploiting DNA/RNA aptamers and graphene oxide nanosheets keywords: acid; activity; addition; affinity; amplification; amplified; analysis; applications; aptamer; assay; background; binding; biological; biomolecules; biosensing; biosensors; carbon; cells; desorption; detection; development; dna; dsdna; dye; efficient; electrochemical; electrode; energy; enhanced; enhancement; enzymatic; enzyme; et al; example; fig; films; fluorescence; free; fret; functional; glucose; graphene; graphene oxide; graphite; groups; helicase; high; higher; hybrid; imaging; interaction; ionization; label; laser; ldi; living; lot; low; mass; materials; matrix; metal; microrna; molecular; molecules; multiple; nanocomposites; nanoparticle; novel; oxidation; oxide; peptide; performance; platform; pna; practical; probe; properties; protein; quenching; raman; reaction; resonance; rgo; rna; samples; selective; sensing; sensitive; sensitivity; sensors; sers; signal; single; small; specific; spectrometry; spectroscopy; strategy; structure; substrate; surface; synthesis; system; target; tissue; transfer; typical; water cache: cord-288445-6i5fbdcu.txt plain text: cord-288445-6i5fbdcu.txt item: #415 of 647 id: cord-288879-rj03dsib author: Schein, Catherine H. title: Polyglutamine Repeats in Viruses date: 2018-09-04 words: 6201 flesch: 38 summary: Once Q-rich sequences were identified, BLAST searches starting from the viral proteins that contained them were used to determine the extent of their conservation in the same virus family and to find other virus proteins containing similar tracts. As discussed below, the longest repeats were found in DNA virus proteins that function in enhancing transmissibility (cowpox ATI) or contribute to viral latency (herpes viruses). keywords: ability; acid; activity; aggregation; amino; analysis; antiviral; autophagy; beclin-1; binding; cag; cells; cellular; characterization; control; cowpox; culture; cwpx; database; direct; disease; dna; domain; drosophila; dut; essential; example; factors; fig; function; gene; genome; glutamine; growth; herpes; herpesvirus; host; human; huntington; important; inclusions; infected; infection; influenza; isolates; kaposi; latency; latent; length; level; like; long; longer; longest; material; mechanisms; molecular; neurovirulence; nidovirus; novel; polyglutamine; polyq; polyq repeats; polyq segments; possible; presence; proteins; rapid; reactivation; regions; regulatory; repeats; replication; research; rich; rna; rna viruses; role; segments; sequences; similar; solubility; strains; supplementary; table; toxicity; tracts; transcription; transmissibility; type; variable; viral; virus; viruses cache: cord-288879-rj03dsib.txt plain text: cord-288879-rj03dsib.txt item: #416 of 647 id: cord-288960-v6l6o5va author: Li, Yang title: Regulating STING in health and disease date: 2017-06-07 words: 12330 flesch: 35 summary: Many DNA viruses, RNA viruses and bacteria have been implicated in the activation of STING response [55, 56] . [6] , suggesting STING activation pathways may overlap with RNA sensing mechanisms or reverse transcription of viral RNA keywords: acid; activation; active; activity; adaptor; addition; aicardi; amp; antiviral; associated; autoimmune; autoimmunity; autophagy; bacterial; binding; cancer; cause; cells; cgamp; cgas; cholesterol; chronic; clinical; colleagues; complex; control; critical; cyclic; cytoplasmic; cytosolic; degradation; delivery; dendritic; dependent; detection; development; dimerisation; dimers; dinucleotides; diseases; dna; domain; double; downstream; dsdna; early; erythematosus; excessive; expression; factor; family; figure; form; function; fusion; gain; genes; gmp; group; hiv; host; human; ifi16; ifn; iii; immune; immunity; induced; induction; infection; inflammation; inflammatory; inhibition; innate; innate immune; interferon; interferonopathy; intracellular; irf3; jak; key; kinase; ligands; ligase; like; lipid; loss; lupus; macrophages; malaria; mavs; mechanism; membrane; mice; mitochondrial; molecules; mouse; multiple; mutant; mutations; negative; novel; nuclear; number; particles; pathway; patients; phosphorylation; plasma; process; production; progression; protein; recent; receptors; recognition; recruitment; regulation; regulatory; release; research; residues; response; rig; rna; role; s366; self; sensing; sensor; signalling; similar; single; sle; specific; sting; stress; studies; syndrome; synthase; systemic; table; targets; tbk1; therapies; transcription; treatment; trex1; tuberculosis; tumour; turn; type; ubiquitination; viral; virus; viruses; vivo cache: cord-288960-v6l6o5va.txt plain text: cord-288960-v6l6o5va.txt item: #417 of 647 id: cord-289535-srrfr1es author: Tregoning, J. S. title: Vaccines for COVID‐19 date: 2020-10-18 words: 14346 flesch: 38 summary: Identity of blood and tissue leukocytes supporting in vitro infection New insights into the immunopathology and control of dengue virus infection Lack of antibody affinity maturation due to poor Toll-like receptor stimulation leads to enhanced respiratory syncytial virus disease Immunization with SARS coronavirus vaccines leads to pulmonary immunopathology on challenge with the SARS virus Immunization with modified vaccinia virus Ankara-based recombinant vaccine against severe acute respiratory syndrome is associated with enhanced hepatitis in ferrets Anti-spike IgG causes severe acute lung injury by skewing macrophage responses during acute SARS-CoV infection Molecular mechanism for antibodydependent enhancement of coronavirus entry A perspective on potential antibody-dependent enhancement of SARS-CoV-2 Is there an ideal animal model for SARS? Lovastatin-mediated G1 arrest is through inhibition of the proteasome, independent of hydroxymethyl glutaryl-CoA reductase Caution urged on SARS vaccines Aged BALB/c mice as a model for increased severity of severe acute respiratory syndrome in elderly humans Lethal infection of K18-hACE2 mice infected with severe acute respiratory syndrome coronavirus Development of animal models against emerging coronaviruses: from SARS to MERS coronavirus Blocking transmission of Middle East respiratory syndrome coronavirus (MERS-CoV) in llamas by vaccination with a recombinant spike protein Humoral immunogenicity and efficacy of a single dose of ChAdOx1 MERS vaccine candidate in dromedary camels The pathogenicity of SARS-CoV-2 in hACE2 transgenic mice SARS-CoV-2 infection in farmed minks, the Netherlands Susceptibility of ferrets, cats, dogs, and other domesticated animals to SARS-coronavirus 2 Reinfection could not occur in SARS-CoV-2 infected rhesus macaques Ethical guidelines for deliberately infecting volunteers with COVID-19 Human challenge studies to accelerate coronavirus vaccine licensure SARS-CoV-2 controlled human infection models: ethics, challenge agent production and regulatory issues Effect of dexamethasone in hospitalized patients with COVID-19 Criner GJet al, for the GSUSI. Clinical vaccine trials conventionally undergo four broad Phases, from early safety in small numbers of volunteers (Phase I) to wide-scale post-licensure monitoring (Phase IV). keywords: ace2; acid; acute; adaptive; adenovirus; adjuvant; adults; adverse; aged; alum; animal; antibodies; antibody; antigen; approaches; as03; asymptomatic; attenuated; binding; boost; candidates; capacity; case; cd4; cd8; cell; cellular; challenge; clinical; clinical trials; complete; consideration; control; coronavirus; cov-2; covid-19; critical; data; delivery; dengue; developed; development; different; disease; dna; domain; doses; early; east; ebola; effects; efficacy; enhanced; enhancement; epitopes; example; experimental; expression; following; fusion; gene; global; groups; gsk; healthy; high; host; human; humoral; iii; immune; immunity; immunization; immunogenicity; immunopathology; important; inactivated; inactivation; individuals; infected; infection; influenza; innate; institute; large; levels; licensed; licensure; like; live; macaques; mammalian; manufacture; manufacturing; measles; mechanisms; mers; mice; middle; models; months; mrna; neutralizing; new; non; novel; nucleic; number; open; outbreak; pandemic; patients; peptide; phase; platforms; pneumonia; post; potential; preclinical; prefusion; process; product; protection; protein; randomised; range; rbd; receptor; recombinant; replication; reported; research; respiratory; responses; results; review; rhesus; risk; rna; role; rsv; safety; sars; scale; self; severe; similar; single; site; specific; speed; spike; states; structural; studies; study; subunit; syncytial; syndrome; t cell; target; time; trials; type; united; university; use; vaccinated; vaccination; vaccine; vectored; vectors; viral; virus; viruses; world; years cache: cord-289535-srrfr1es.txt plain text: cord-289535-srrfr1es.txt item: #418 of 647 id: cord-290284-aw8p35c5 author: Tatsis, Nia title: Adenoviruses as vaccine vectors date: 2016-12-14 words: 9889 flesch: 26 summary: A simian replication-defective adenoviral recombinant vaccine to HIV-1 gag Development of a helper-independent human adenovirus vector and its use in the transfer of the herpes simplex virus thymidine kinase gene Human adenovirus cloning vectors based on infectious bacterial plasmids Origin of AIDS: contaminated polio vaccine theory refuted An efficient procedure to select and recover recombinant adenovirus vectors Construction of adenoviral vectors pAd5-Blue: direct ligation system for engineering recombinant adenovirus constructs Construction of nondefective adenovirus type 5 bearing a 2.8-kilobase hepatitis B virus DNA near the right end of its genome Improved protection of rhesus macaques against intrarectal simian immunodeficiency virus SIV(mac251) challenge by a replication-competent Ad5hr-SIVenv/rev and Ad5hr-SIVgag recombinant priming/gp120 boosting regimen A replication-defective human adenovirus recombinant serves as a highly efficacious vaccine carrier Viral recombinant vaccines to the E6 and E7 antigens of HPV-16 Induction of antibodies against structural proteins of hepatitis C virus in mice using recombinant adenovirus A simple method for constructing E1-and E1/E4-deleted recombinant adenoviral vectors Efficient dual transcomplementation of adenovirus E1 and E4 regions from a 293-derived cell line expressing a minimal E4 functional unit Development of a complementing cell line and a system for construction of adenovirus vectors with E1 and E2a deleted In vitro and in vivo biology of recombinant adenovirus vectors with E1, E1/E2A, or E1/E4 deleted Generation of an adenovirus vector lacking E1, E2a, E3, and all of E4 except open reading frame 3 Generation of adenovirus vectors devoid of all viral genes by recombination between inverted repeats Characteristics of a human cell line transformed by DNA from human adenovirus type 5 New helper cells and matched early region 1-deleted adenovirus vectors prevent generation of replication-competent adenoviruses Keystone Symposia Packaging capacity and stability of human adenovirus type 5 vectors Comparative analysis of the effects of packaging signal, transgene orientation, promoters, polyadenylation signals, and E3 region on growth properties of first-generation adenoviruses Stability of a recombinant adenoviral vector: optimization of conditions for storage, transport and delivery Crystal structure of reovirus attachment protein sigma1 reveals evolutionary relationship to adenovirus fiber A chimeric adenovirus vector encoding reovirus attachment protein sigma1 targets cells expressing junctional adhesion molecule 1 Adenovirus fibre exchange alters cell tropism in vitro but not transgene-specific T CD8 + immune responses in vivo Highly efficient transduction of human monocyte-derived dendritic cells with subgroup B fiber-modified adenovirus vectors enhances transgene-encoded antigen presentation to cytotoxic T cells Modification to the capsid of the adenovirus vector that enhances dendritic cell infection and transgene-specific cellular immune responses Enhanced gene transfer to mouse dendritic cells using adenoviral vectors coated with a novel adapter molecule Detection of individual mouse splenic T cells producing IFN-gamma and IL-5 using the enzyme-linked immunospot (ELISPOT) assay Improved permeabilization procedure for flow cytometric detection of internal antigens: analysis of interleukin-2 production Phenotypic analysis of antigen-specific T lymphocytes Detection of antigen-specific T cells with multivalent soluble class II MHC covalent peptide complexes Cellular and humoral immune responses to viral antigens create barriers to lung-directed gene therapy with recombinant adenoviruses MHC class I-restricted cytotoxic T lymphocytes to viral antigens destroy hepatocytes in mice infected with E1-deleted recombinant adenoviruses Immune effector mechanisms required for protection to rabies virus A recombinant human adenovirus vaccine against rabies Comparative immunogenicity in rhesus monkeys of DNA plasmid, recombinant vaccinia virus, and replication-defective adenovirus vectors expressing a human immunodeficiency virus type 1 gag gene The use of an E1-deleted, replication-defective adenovirus recombinant expressing the rabies virus glycoprotein for early vaccination of mice against rabies virus Oral vaccination of mice with adenoviral vectors is not impaired by preexisting immunity to the vaccine carrier Single oral immunization with replication deficient recombinant adenovirus elicits long-lived transgene-specific cellular and humoral immune responses Induction of CD8 + T cells to an HIV-1 antigen upon oral immunization of mice with a simian E1-deleted adenoviral vector Rabies update for travel medicine advisors Enhanced mucosal immunoglobulin Currently, adenovirus vectors are being tested as subunit vaccine systems for numerous infectious agents ranging from malaria to HIV-1. keywords: activation; acute; adaptive; adc68; adenoviral vaccine; adenoviral vectors; adenovirus; adhu5; adhu5 vectors; adhu5 virus; animals; antibodies; antibody; antigens; associated; base; binding; capsid; carriers; cd4; cd8; cell responses; cells; cellular; children; chimpanzee; clinical; common; competent; defective; dendritic; dendritic cells; development; different; dna; dose; e1a; e1b; early; ebola; efficacy; efficient; experimental; expression; fiber; frequencies; gag; genes; genome; glycoprotein; growth; hexon; high; hiv-1; host; human; immune; immune responses; immunity; immunization; immunodeficiency; immunogenicity; induction; infected; infections; intranasal; late; lines; mice; molecular; mucosal; neutralizing; nonhuman; number; oral; origin; packaging; pathogens; potent; potential; primates; product; promoter; protective; protein; rabies; receptor; recombinant; replication; responses; rna; sequences; serotypes; simian; species; specific; subgroup; system; systemic; t cells; titers; transcription; transfer; transgene; transgene product; tropism; units; use; vaccination; vaccine; vectors; viral; virus; viruses; vivo cache: cord-290284-aw8p35c5.txt plain text: cord-290284-aw8p35c5.txt item: #419 of 647 id: cord-290550-u8x9drva author: Radford, Alan D. title: Application of next-generation sequencing technologies in virology date: 2012-09-17 words: 7936 flesch: 34 summary: These allowed those interested in understanding viruses first to amplify and then to sequence viral nucleic acids, namely DNA amplification by PCR (Mullis et al., 1986) and DNA sequencing with chain-terminating inhibitors (Sanger sequencing or first-generation sequencing) (Sanger et al., 1977) . In poxviruses, RNA-seq has been used to revisit temporal trends in gene expression (Yang et al., 2011b) , to identify interactions between the host and poxviral transcriptome (Yang et al., 2010) and to map transcription start and stop sites precisely (Yang et al., 2011a) . keywords: accuracy; acid; adapters; amplification; amplified; analysis; approaches; appropriate; areas; associated; authors; available; bases; capture; cell; chain; characterization; clinical; complex; cost; coverage; data; deep; discovery; disease; diversity; dna; drug; dynamics; emulsion; end; et al; evolution; expression; fig; generation; genes; genetic; genome; health; hepatitis; high; hiv; host; human; identification; immunodeficiency; important; incorporated; incorporation; individual; infection; influenza; information; key; large; ligation; likely; material; metagenomics; methodologies; methods; minority; molecule; multiple; mutations; new; ngs; novel; nucleic; nucleotide; number; opportunities; pathogen; patients; pcr; platforms; polymerase; population; positions; primers; prior; process; projects; purification; pyrosequencing; rapid; reads; reference; resistance; respiratory; reverse; rna; role; samples; sanger; sequence; sequencing; single; size; small; solid; specific; starting; studies; syndrome; technologies; technology; template; time; traditional; transcription; transcriptome; transcripts; variants; viral; virology; virus; viruses; wang; way cache: cord-290550-u8x9drva.txt plain text: cord-290550-u8x9drva.txt item: #420 of 647 id: cord-290617-45be6gxe author: Poulain, Florian title: Footprint of the host restriction factors APOBEC3 on the genome of human viruses date: 2020-08-14 words: 10567 flesch: 52 summary: A3 footprint on HPV16, HPV18 and HPV31 . A3 footprint in human oncogenic viruses. keywords: 5'tc; a3 editing; a3 footprint; a3s; activity; aid; analysis; apobec3; b19; beta; cancer; cell; certain; coding; codon; colored; context; cov-2; criterion; cytidine; deaminase; deamination; depleted; depletion; different; dinucleotide; dna; dna viruses; double; ebv; editing; erythroparvovirus; evidence; evolution; evolutionary; expected; expression; family; favored; fig; footprint; genes; genome; genomic; hbeag; hbv; hiv-1; host; human; human viruses; lytic; mer; mers; motifs; mutations; ncc; negative; nl63; nngann; nntcnn; non; ntc; ntc depletion; observations; observed; origins; papillomaviridae; papillomavirus; parvoviridae; polyomaviridae; polyomavirus; position; positive; possible; present; pressure; proteins; ratio; replication; representation; restriction; reverse; rna; sars; selection; sequences; shades; single; species; strand; strong; synonymous; tcn; template; transcription; transition; unique; viral; viral genome; viruses; wide cache: cord-290617-45be6gxe.txt plain text: cord-290617-45be6gxe.txt item: #421 of 647 id: cord-291174-rym84kni author: Yang, Yazhi title: A label-free electrochemical assay for coronavirus IBV H120 strain quantification based on equivalent substitution effect and AuNPs-assisted signal amplification date: 2020-10-23 words: 3587 flesch: 45 summary: In this electrochemical method, H120 strain detection is based on equivalent substitution effect and AuNPs-assisted signal amplification with a detection range from 1.56e −9 to 1.56e −6 μM. Compared with previously reported IBV detection methods that may focus on the portable and simplified analysis, our electrochemical assay still has some advantages. The proposed method shows a detection range of 1.56e(−9) to 1.56e(−6) μM with the detection limit of 2.96e(−10) μM for IBV H120 strain selective quantification detection, exhibiting good accuracy, stability, and simplicity, which shows a great potential for IBV detection in vaccine research and avian infectious bronchitis diagnosis. keywords: amplification; assay; aunps; avian; bronchitis; buffer; concentration; copy; coronavirus; detection; different; dna; electrochemical; electrode; enzyme; fig; gene; gold; great; h120; hcl; ibv; identification; infectious; lane; linear; method; min; nanoparticles; nna; pcr; peak; plasmid; probe; quantification; reaction; real; response; rna; room; ruhex; sequence; signal; solution; standard; strain; strand; surface; table; target; temperature; tris; ultrasensitive; virus; ° c cache: cord-291174-rym84kni.txt plain text: cord-291174-rym84kni.txt item: #422 of 647 id: cord-291349-tq2n4mx3 author: Smith, Kevin R title: Gene transfer in higher animals: theoretical considerations and key concepts date: 2002-10-09 words: 12239 flesch: 39 summary: Thus, alternative viruses have been explored as potential agents for somatic cell gene therapy. Thus, microinjection is fundamentally unsuitable for in vivo somatic cell gene therapy. keywords: ability; able; administration; agents; altered; alternative; animals; antisense; applications; approach; available; bilayer; cells; chromosomal; concerns; constructs; control; copy; cultured; delivery; design; development; dna; donor; effect; efficiency; eggs; electroporation; embryonic; embryos; es cells; et al; example; exogenous; expression; factor; foreign; form; frequency; function; fusion; gene; gene expression; gene therapy; gene transfer; genetic; genome; germline; great; high; higher; host; human; improved; inducible; infection; integrated; integration; large; likely; limitation; limited; lines; lipid; liposomes; locus; low; main; major; mammalian; manipulation; membrane; methods; mice; microinjection; micropipette; molecules; mosaic; mouse; nuclear; nuclei; number; offspring; particular; pigs; position; possible; potential; precipitation; principle; problems; production; progress; promoter; pronuclei; random; range; recombinase; recombination; replication; reported; research; respect; result; retroviral; retroviruses; reviews; rna; safety; section; separate; sequences; sheep; similar; single; site; size; small; solution; somatic; species; specific; sperm; stage; structural; successful; system; targeted; targeting; terms; tetracycline; therapy; tissues; transfer; transgene; transgenesis; transgenics; transmission; treatment; types; useful; vectors; viruses; vivo; way; zygote cache: cord-291349-tq2n4mx3.txt plain text: cord-291349-tq2n4mx3.txt item: #423 of 647 id: cord-291749-revhbd0q author: Mongan, Arthur Elia title: Portable sequencer in the fight against infectious disease date: 2019-10-03 words: 3742 flesch: 38 summary: Sequencing technique has been around since 1975 by the works of Frederick Sanger, Allan Maxam, and Walter Gilbert Although the running cost of other sequencing platform is cheaper than MinION (for example, $67.82 for MiSeq compared with $71.56 for MinION per sample [28] ), MinION has significantly lower cost to set up. keywords: 16s; accuracy; acid; agents; amplification; analysis; bacteria; clinical; coli; composition; cost; detection; diagnosis; different; direct; disease; dna; drug; epigenetic; example; field; gene; generation; genome; high; host; human; infecting; infectious; influenza; isothermal; lamp; license; long; malaria; metagenomic; methods; methylation; microbial; minion; multiple; mutation; nanopore; new; nucleic; nucleotide; outbreak; pathogens; pcr; portable; presence; primers; rapid; read; real; resistance; rna; samples; sequencer; sequencing; single; targeted; technique; time; viral; virus cache: cord-291749-revhbd0q.txt plain text: cord-291749-revhbd0q.txt item: #424 of 647 id: cord-291860-dw1sfzqx author: van Boheemen, Sander title: Retrospective Validation of a Metagenomic Sequencing Protocol for Combined Detection of RNA and DNA Viruses Using Respiratory Samples from Pediatric Patients date: 2019-12-16 words: 5406 flesch: 35 summary: Global and regional mortality from 235 causes of death for 20 age groups in 1990 and 2010: a systematic analysis for the Global Burden of Disease Study Global and regional burden of hospital admissions for severe acute lower respiratory infections in young children in 2010: a systematic analysis Deaths due to respiratory tract infections in Africa: a review of autopsy studies CDC EPIC Study Team: Community-acquired pneumonia requiring hospitalization among U.S. adults The common cold Aetiology of lower respiratory tract infection in adults in primary care: a prospective study in 11 European countries Isolation of a novel coronavirus from a man with pneumonia in Saudi Arabia Exploring the potential of next-generation sequencing in detection of respiratory viruses A primer on metagenomics Beer M: Novel orthobunyavirus in cattle Neurobrucellosis: unexpected answer from metagenomic nextgeneration sequencing Genomic characterization of a newly discovered coronavirus associated with acute respiratory distress syndrome in humans Protocol for metagenomic virus detection in clinical specimens Application of next generation sequencing for the detection of human viral pathogens in clinical specimens Simultaneous virus identification and characterization of severe unexplained pneumonia cases using a metagenomics sequencing technique Sequence analysis of the human virome in febrile and afebrile children Diagnosis of human metapneumovirus and rhinovirus in patients with respiratory tract infections by an internally controlled multiplex real-time RNA PCR Validation of clinical application of cytomegalovirus plasma DNA load measurement and definition of treatment criteria by analysis of correlation to antigen detection Zincmediated RNA fragmentation allows robust transcript reassembly upon whole transcriptome RNA-Seq Cutadept removes adapter sequences from high-throughput sequencing reads Centrifuge: rapid and sensitive classification of metagenomic sequences Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation Interactive metagenomic visualization in a Web browser Genome Detective: an automated system for virus identification from high-throughput sequencing data. The amount of internal control reads and target virus reads has been reported to be dependent on the amount of background reads (negative correlation). keywords: acids; addition; analysis; ancestor; assembly; assignment; center; centrifuge; classification; clinical; common; contigs; controls; correlation; cutoff; database; default; detection; diagnostics; different; dna; eav; figure; generation; genome; high; higher; human; illumina; index; infections; influenza; information; internal; laboratory; library; lowest; metagenomic; mngs; ncbi; negative; new; nucleic; nucleotide; number; pathogens; pcr; phhv1; pipeline; positive; potential; protocol; qpcr; quality; reads; refseq; respiratory; results; rna; routine; samples; sensitive; sensitivity; sequence; sequencing; settings; single; specificity; study; table; target; time; total; tract; value; version; viral; viruses cache: cord-291860-dw1sfzqx.txt plain text: cord-291860-dw1sfzqx.txt item: #425 of 647 id: cord-291960-1is0rv6c author: Piñana, José Luis title: Pulmonary cytomegalovirus (CMV) DNA shedding in allogeneic hematopoietic stem cell transplant recipients: Implications for the diagnosis of CMV pneumonia date: 2019-02-21 words: 5916 flesch: 36 summary: The assessment of the performance of quantitative CMV DNA PCR testing for the diagnosis of CMV pneumonia faces several difficulties including: (i) the low incidence of this clinical event, (ii) the lack of a normalized procedure for CMV DNA PCR testing on BAL fluids, (iii) the non-negligible possibility of miscategorization of pneumonia cases as either being causally linked or unrelated to CMV when using BAL fluid specimens, or even lung tissue material, for CMV diagnosis, 8 (iv) the persistence of a large variability of CMV DNA loads provided by different real-time PCR assays, 31 -33 despite their calibration to the WHO International Standard for CMV DNA 24 and, as already mentioned, (v) the relegation of virological procedures for CMV detection in clinical specimens. In 41 episodes, CMV DNA BAL detection occurred in the face of an ongoing episode of CMV DNAemia (including two episodes that occurred in the setting of autopsy-proven CMV pneumonitis), and isolately in the remaining 15 episodes. keywords: allo; allogeneic; antiviral; assay; attributable; bal; bal fluid; bronchoalveolar; cases; cell; clinical; cmv; cmv dna; cmv pneumonia; cut; cytomegalovirus; data; day; days; detection; diagnosis; disease; dna; dna load; dnaemia; episodes; fluid; fluid specimens; fungal; hematopoietic; hsct; impact; incidence; infection; lavage; levels; load; lung; median; mortality; non; patients; pcr; plasma; pneumonia; preemptive; presence; probable; proven; pulmonary; quantitation; range; recipients; samples; sampling; shedding; specimens; standard; stem; study; supplementary; table; testing; therapy; time; tissue; transplant; transplantation; treatment; unlikely; usa; value cache: cord-291960-1is0rv6c.txt plain text: cord-291960-1is0rv6c.txt item: #426 of 647 id: cord-292031-weiwksh6 author: Ramírez-Castillo, Flor Yazmín title: Waterborne Pathogens: Detection Methods and Challenges date: 2015-05-21 words: 7362 flesch: 27 summary: Even though culture dependent methods are extensively used for pathogens detection in water, these methods are limited by their low sensitivity and the excessive time needed to obtain reliable results. The Microbiology of the Water Distribution System A Report on an American Academy of Microbiology Colloquium Recommended advanced techniques for waterborne pathogen detection in developing countries Dei-Cas, E. Microbial agents associated with waterborne diseases Global Water, Sanitation, and Hygiene (WASH) Progress on Sanitation and Drinking-Water Contamination of water resources by pathogenic bacteria Millennium Development Goals: Progress towards the Health-Related Millennium Development Goals Waterborne outbreaks reported in the United States Causes of outbreaks associated with drinking water in the United States from A fatal waterborne disease epidemic in Walkerton, Ontario: Comparison with other waterborne outbreaks in the developed world Surveillance for waterborne disease outbreaks associated with drinking water and other nonrecreational water-United States Epidemiology of cholera in the Philippines The 2010 cholera outbreak in Haiti: How science solved a controversy Lessons learned during public health response to cholera epidemic in Haiti and the Dominican Republic Shiga toxin-producing Escherichia coli O104:H4: A new challenge for microbiology Annual Epidemiological Report Food-and Waterborne Diseases and Zoonoses Self-reported diarrhea in a control group: A strong association with reporting of low-pressure events in tap water Global Drinking Water Management and Conservation Optimal Decision-Making Surveillance for waterborne-disease outbreaks associated with drinking water--United States Emerging waterborne pathogens: Can we kill them all? Where do emerging pathogens come from? keywords: analysis; approach; assay; assessment; authors; bacteria; biofilms; biosensors; cells; characterization; coli; communities; concentration; conditions; contamination; cost; cryptosporidium; culturable; culture; data; detection; development; different; disease; distribution; dna; dose; drinking; drinking water; environmental; escherichia; example; exposure; false; fish; fluorescence; food; gene; health; high; host; human; hybridization; identification; information; large; low; management; methods; microarray; microbial; microorganisms; molecular; monitoring; multiple; need; new; non; o157; oligonucleotide; optical; order; outbreaks; pathogens; pcr; presence; present; probes; protozoa; public; pyrosequencing; qmra; qpcr; quality; quantification; quantitative; rapid; reaction; real; recent; resistance; response; results; risk; safety; sample; sensitive; sensitivity; single; situ; source; species; specific; spp; state; surface; systems; target; techniques; technologies; technology; time; tool; tracking; treatment; vbnc; viable; viruses; wastewater; water; waterborne; waterborne pathogens; workers cache: cord-292031-weiwksh6.txt plain text: cord-292031-weiwksh6.txt item: #427 of 647 id: cord-292033-zkwiag7a author: Balboni, Andrea title: Molecular analysis of carnivore Protoparvovirus detected in white blood cells of naturally infected cats date: 2018-02-05 words: 4814 flesch: 43 summary: : antibody response, viral shedding, and persistence of viral DNA in multiple strains of mice Persistence of human parvovirus B19 in human tissues Evidence for persistence of human parvovirus B19 DNA in bone marrow Tissue persistence of parvovirus B19 genotypes in asymptomatic persons Isolation of canine parvovirus from a cat manifesting clinical signs of feline panleukopenia Antigenic type distribution among canine parvoviruses in dogs and cats in Germany Characterisation of canine parvovirus strains isolated from cats with feline panleukopenia Western European epidemiological survey for parvovirus and coronavirus infections in dogs Efficacy of feline panleucopenia vaccine to prevent infection with an isolate of CPV2b obtained from a cat Pathogenic potential of canine parvovirus types 2a and 2c in domestic cats High rate of viral evolution associated with the emergence of carnivore parvovirus Co-infection with multiple variants of canine parvovirus type 2 (CPV-2) Long-term viremia and fecal shedding in pups after modified-live canine parvovirus vaccination Comparison of polymerase chain reaction with virus isolation and haemagglutination assays for the detection of canine parvoviruses in faecal specimens Analysis of canine parvovirus sequences from wolves and dogs isolated in Italy None. Furthermore, since parvovirus can frequently be isolated in infected cats, even in the presence of high virus-neutralising antibodies [15, 17] , antibody titres against parvovirus were established in the sera of positive cats using an HI assay. keywords: 41/2011; acid; amino; analysis; antibodies; antibody; antigenic; assay; asymptomatic; authors; available; blood; buffy; canine; canine parvovirus; carnivore; cats; cells; clinical; coat; cpv; data; detection; different; diversity; dna; domestic; faeces; feline; fpv; genetic; healthy; high; host; infected; infection; italy; mutations; nucleotide; number; panleukopenia; partial; parvovirus; pcr; persistence; phylogenetic; population; positive; presence; samples; sequences; sera; signs; species; strains; study; synonymous; table; tissues; total; variants; viral; viruses; vp2; wbc; ° c cache: cord-292033-zkwiag7a.txt plain text: cord-292033-zkwiag7a.txt item: #428 of 647 id: cord-292172-aqsc9fbl author: Al Amin, Md. title: Screening of commercial meat products from supermarket chains for feline derivatives using SP-PCR-RLFP and lab-on-a-chip date: 2020-06-09 words: 4861 flesch: 50 summary: Lower priced meat are deliberately mixed in commercial meat products (Amin et al., 2016) and the food forgeries were reported in a number of meat products such as frankfurters, dried meats, burgers, ground meat, nuggets, meatballs and sausage (Kane and Hellberg, 2016) . key: cord-292172-aqsc9fbl authors: Al Amin, Md.; Mahfujur Rahman, Md.; Razimi, Mohd Shahril Ahmad; Chowdhury, Zaira Zaman; Hussain, Muhammad Nasri Md.; Desa, Mohd Nasir Mohd title: Screening of commercial meat products from supermarket chains for feline derivatives using SP-PCR-RLFP and lab-on-a-chip date: 2020-06-09 journal: J Food Compost Anal DOI: 10.1016/j.jfca.2020.103565 sha: doc_id: 292172 cord_uid: aqsc9fbl Determination of feline meat in food products is an important issue for social, health, economic and religious concern. keywords: ali; amin; amplicon; analysis; animal; assay; beef; brands; cat; chain; chicken; chip; commercial; commercial meat; control; cytb; detection; different; digested; dna; dog; dummy; et al; feline; fig; food; frankfurters; gene; halal; lab; lanes; length; malaysia; meat; meat products; meatballs; method; mitochondrial; multiplex; nuggets; pcr; polymerase; products; rahman; raw; reaction; real; restriction; rflp; samples; screening; short; species; specific; specificity; spiked; supermarket; table; target; time; total; usa cache: cord-292172-aqsc9fbl.txt plain text: cord-292172-aqsc9fbl.txt item: #429 of 647 id: cord-292569-h8fe0zio author: Lee, Si-Hyeong title: Preferential production of IgM-secreting hybridomas by immunization with DNA vaccines coding for Ebola virus glycoprotein: use of protein boosting for IgG-secreting hybridoma production date: 2017-07-26 words: 5499 flesch: 55 summary: Mice were injected with GP DNA vaccines and their splenocytes were used for hybridoma production. In this study, we utilized IM-EP delivery of GP DNA vaccines to generate MAbs. keywords: abs; anti; antigen; assay; binding; boosting; buffer; cell; chains; clones; column; control; data; delivery; dna; ebola; elisa; fig; gp dna; gp1a; gp1b; gp1c; gp1d; gp1e; h+l; hrp; hybridomas; igg; igg2a; igm; immune; infection; kda; korea; mabs; mice; monoclonal; mouse; preferential; production; protein; purification; purified; reactivity; recombinant; resin; responses; samples; secondary; specific; supernatants; type; vaccination; vaccines; virus cache: cord-292569-h8fe0zio.txt plain text: cord-292569-h8fe0zio.txt item: #430 of 647 id: cord-292643-n6xp5mlz author: Hall, Richard J. title: Evaluation of rapid and simple techniques for the enrichment of viruses prior to metagenomic virus discovery date: 2013-09-13 words: 4829 flesch: 35 summary: The application of virus discovery methods using metagenomics has been considered for routine use in diagnostic and reference laboratories to aid in the diagnosis of human (Svraka et al., 2010) and animal disease (Belak et al., 2013) . This finding supports the use of the 3-step procedure for virus enrichment, and similar 3-step procedures have previously been employed in published virus metagenomic studies (Table 1) . keywords: abundance; acid; adenovirus; amplification; animal; artificial; assays; bacteria; carlsbad; cells; centrifugation; coli; copy; data; denaturation; detection; discovery; dna; effect; enrichment; enterovirus; filtration; fold; genome; high; human; illumina; influenza; life; low; metagenomic; methods; min; new; nuclease; nucleic; number; organisms; pcr; present; proportion; reaction; reads; real; relative; rna; sample; sequence; sequencing; step; studies; study; table; target; techniques; technologies; throughput; time; treatment; usa; viral; viruses cache: cord-292643-n6xp5mlz.txt plain text: cord-292643-n6xp5mlz.txt item: #431 of 647 id: cord-292757-d03byeee author: Zhou, Xianfeng title: Enhance immune response to DNA vaccine based on a novel multicomponent supramolecular assembly date: 2007-08-07 words: 4718 flesch: 42 summary: In MBCO microspheres, PEI shares the ability to buffer the acidity of endosomes. MBCO microspheres were prepared following the report of Aral and Akbuga [22] with slight modification. keywords: activation; addition; afm; antibody; apcs; artificial; balb; burst; cells; characteristics; chitosan; chitosan microspheres; complexes; ctl; day; delivery; dna; doses; efficiency; entry; escape; expression; fig; fold; function; gene; groups; hbsag; high; higher; immune; immunization; increase; kda; level; low; lower; luciferase; mannose; mbco; mbco microspheres; medium; mice; microspheres; molecular; muscle; naked; novel; oligomers; pei; plasmid; potency; potential; properties; receptor; release; responses; size; solution; specific; studies; surface; systems; table; transfection; vaccination; vaccine; viral; viruses; vivo; weight cache: cord-292757-d03byeee.txt plain text: cord-292757-d03byeee.txt item: #432 of 647 id: cord-292794-okh6i4l1 author: Wang, Bin title: Protective efficacy of a broadly cross-reactive swine influenza DNA vaccine encoding M2e, cytotoxic T lymphocyte epitope and consensus H3 hemagglutinin date: 2012-06-27 words: 4791 flesch: 37 summary: A vaccine based on the extracellular domain of the M2 protein Matrix protein 2 vaccination and protection against influenza viruses, including subtype H5N1 Comparative efficacy of hemagglutinin, nucleoprotein, and matrix 2 protein gene-based vaccination against H5N1 influenza in mouse and ferret Vaxfectin-formulated influenza DNA vaccines encoding NP and M2 viral proteins protect mice against lethal viral challenge Influenza virus M2 protein is an integral membrane protein expressed on the infected-cell surface Heterologous protection against influenza by injection of DNA encoding a viral protein A universal epitope-based influenza vaccine and its efficacy against H5N1 Crossprotection against influenza virus infection by intranasal administration of M2-based vaccine with chitosan as an adjuvant In vitro and in vivo characterization of new swine-origin H1N1 influenza viruses Pathogenesis and transmission of the novel swine-origin influenza virus A/H1N1 after experimental infection of pigs Experimental infection of pigs with the human 1918 pandemic influenza virus Experimental inoculation of pigs with pandemic H1N1 2009 virus and HI cross-reactivity with contemporary swine influenza virus antisera Novel reassortment of Eurasian Avian-like and pandemic/2009 influenza viruses in swine: infectious potential to humans Coadministration of DNA encoding interleukin-6 and hemagglutinin confers protection from influenza virus challenge in mice Coexpressed RIG-I Agonist Enhances Humoral Immune Response to Influenza Virus DNA Vaccine Complete protection against a H5N2 avian influenza virus by a DNA vaccine expressing a fusion protein of H1N1 HA and M2e Immunization of pigs against influenza virus infection by DNA vaccine priming followed by killed-virus vaccine boosting Importance of a prime-boost DNA/protein vaccination to protect chickens against low-pathogenic H7 avian influenza infection Vaccination of pigs with a DNA construct expressing an influenza virus M2-nucleoprotein fusion protein exacerbates disease after challenge with influenza A virus The relative immunogenicity of DNA vaccines delivered by the intramuscular needle injection, electroporation and gene gun methods A DNA transfection system for generation of influenza A virus from eight plasmids A simple method of estimating fifty per cent endpoints Sequence comparison between the extracellular domain of M2 protein human and avian influenza A viruses in pigs in southeastern China: potential for genetic reassortment? Genetic evolution of swine influenza A (H3N2) viruses in China from 1970 to Pathogenic and antigenic properties of phylogenetically distinct reassortant H3N2 swine influenza viruses cocirculating in the United States Multiple lineages of antigenically and genetically diverse influenza A virus co-circulate in the United States swine population Evaluation of hemagglutinin subtype 1 swine influenza viruses from the United States Evaluation of a protective immunity induced by an inactivated influenza H3N2 vaccine after an intratracheal challenge of pigs Antigenic and molecular heterogeneity in recent swine influenza A (H1N1) virus isolates with possible implications for vaccination policy Protection against a European H1N2 swine influenza virus in pigs previously infected with H1N1 and/or H3N2 subtypes Efficacy of inactivated swine influenza virus vaccines against the 2009 A/H1N1 influenza virus in pigs A consensus-hemagglutinin-based DNA vaccine that protects mice against divergent H5N1 influenza viruses A universal influenza keywords: ability; antibodies; antibody; antigenic; avian; cells; challenge; china; clusters; complete; consensus; conserved; control; cross; ctl; different; disease; dna; efficacy; encoding; epitope; figure; gene; genetic; gly; group; gun; h1n1; h3n2; heterologous; heterosubtypic; homologous; human; ifn; immune; immunity; immunization; infection; influenza; lung; m2e; method; mha; mice; mnha; mouse; np147; pandemic; pigs; potential; protection; protein; r164; response; results; rpan09; serum; siv; specific; strains; study; subtype; swine; titers; universal; vaccination; vaccines; vector; viral; virus; viruses cache: cord-292794-okh6i4l1.txt plain text: cord-292794-okh6i4l1.txt item: #433 of 647 id: cord-292928-a4bn30ul author: Ghosh, Bipasha title: Review of bioaerosols in indoor environment with special reference to sampling, analysis and control mechanisms date: 2015-10-03 words: 16772 flesch: 27 summary: Among the six locations, all five sites revealed significantly smaller bioaerosol concentration in winter than in summer except the restroom in hospital lobby which may be due to the maintenance of almost similar indoor air conditions by air conditioning system artificially in both summer and winter (Lee et al., 2012) . A recently developed electrostatic precipitator had no charging unit in the inlet while the physical collection efficiency strongly depended on the precipitation voltage which eventually depended on the charge present on the airborne microbes naturally due to aerosolization (Kunkel, 1950; Flagan, 2001 ) thereby making collection possible by differentiating between the positively and negatively charged microorganisms by adding a signature to the bioaerosol particle sampled (Lee et al., 2004a; ; Lee et al., 2004b) . keywords: abiotic; acid; activities; activity; acute; aerodynamic; aerosols; agar; agi-30; air; airborne; airborne bacteria; airborne microorganisms; analysis; analytical; anderson; applied; approach; aspergillus; assessment; associated; available; bacterial; bacterial bioaerosol; basis; bioaerosol; biological; building; cause; cells; certain; cfu; chain; characteristics; characterization; charged; coli; collected; collection; community; comparison; compounds; concentration; conditions; contaminated; control; controlling; counting; culturable; culture; cyclone; cytometry; data; desorption; detection; dgge; diameter; different; disadvantage; diseases; distribution; diversity; dna; dust; easy; eduard; effects; efficiency; electrical; electrophoresis; electrostatic; emission; endotoxins; energy; enumeration; environments; et al; evaluation; exposure; factors; filters; filtration; flow; fluorescence; fluorochromes; fragments; fungal; fungi; gel; general; generation; genetic; glass; gradient; greater; growth; health; high; higher; human; humidity; identification; impaction; impactors; impingement; impinger; important; inactivation; indoor; indoor air; indoor environments; induced; infectious; information; inlet; ionization; irradiation; large; laser; lee; levels; libs; light; limitations; liquid; mainelis; major; maldi; mass; material; matrix; mechanisms; media; medium; membrane; methods; microbes; microbial; microbiological; microorganisms; molecular; molecules; monitoring; mycotoxins; negative; new; non; nonculturable; nucleic; number; occupational; order; organic; outdoor; particles; pcr; penicillium; physical; pillai; plates; positive; possible; potential; precipitation; presence; present; process; proper; proteins; quality; quantification; range; rate; reaction; recovery; relation; relative; respiratory; response; results; review; ricke; role; room; sampler; sampling; seasonal; sequencing; shape; similar; single; size; slit; small; smaller; solid; source; species; specific; spectrometry; spectroscopy; spores; stage; standard; studies; study; suitable; summer; surface; susceptible; syndrome; system; table; technique; temperature; thermal; throughput; time; total; transmission; types; use; velocity; ventilation; viability; viable; virus; viruses; volatile; water; wind; winter; work cache: cord-292928-a4bn30ul.txt plain text: cord-292928-a4bn30ul.txt item: #434 of 647 id: cord-293072-giakcaki author: Xu, Wan-Xiang title: A simpler and more cost-effective peptide biosynthetic method using the truncated GST as carrier for epitope mapping date: 2017-10-12 words: 5335 flesch: 42 summary: Design all 16/18mer peptides with an overlap of 8 aa residues covering the full-length of the target protein or a longer segment sequence for the first round of antigenic peptide mapping, as well as design a set of 8mer peptides with overlapping 7 aa residues and covering each reactive 16/18mer peptide sequence for the second round of precise BCE motif identification. In order to know how many BCEs are there among three neighboring reactive 18mer-peptides of P32-34 (Fig 4A and 4B) , which were blotted in first round of antigenic peptide mapping in our study on epitome decoding of huZP4 protein, we first expressed a set of 8mer-peptides (P110-120) covering the full-length sequence of reactive P32 according to procedures of steps 1 to 8 in the protocol, and then they were subjected to SDS-PAGE, and transferred onto 0.2 μm nitrocellulose membrane. keywords: antibodies; antibody; antigenic; antisera; bamh; bce; bces; blotting; bsp; cell; china; clones; cloning; co.; control; cost; cross; csp; design; difference; dna; epitome; epitopes; expression; fig; fine; fragments; fusion; gel; gene; gst188; human; huzp4c; identification; igg; improved; kda; ligation; longer; mab; mapping; method; minimal; motif; pabs; page; pellucida; peptide; present; protein; pxxgst-3; rabbit; reactive; recombinant; residues; sal; screening; sds; self; sequence; shanghai; short; sites; step; synthesis; target; use; western; zona cache: cord-293072-giakcaki.txt plain text: cord-293072-giakcaki.txt item: #435 of 647 id: cord-293215-6flf5ig0 author: Eriksson, Klara Kristin title: Generation of Recombinant Coronaviruses Using Vaccinia Virus as the Cloning Vector and Stable Cell Lines Containing Coronaviral Replicon RNAs date: 2007-11-28 words: 4694 flesch: 53 summary: The following protocols describe the generation of coronavirus replicon cell lines and their use in the evaluation of coronavirus replicase inhibitors. Two selection markers, conferring neomycin/G418 (4) or blasticidin (10) resistance, have been used successfully for establishing stable coronavirus replicon cell lines. keywords: agarose; buffer; cdna; cells; centrifuge; cloned; cloning; coronavirus; coronavirus cdna; culture; cv-1; ends; fragments; gel; gene; generation; genome; gfp; gpt; insert; length; ligation; lines; medium; min; note; noti; number; plasmid; possible; prior; products; protein; reaction; recombinant; recombination; replicase; replicon; restriction; rna; rnas; room; section; selection; sequence; site; standard; stock; t t; temperature; transcription; transfection; use; vaccinia; vaccinia virus; vector cache: cord-293215-6flf5ig0.txt plain text: cord-293215-6flf5ig0.txt item: #436 of 647 id: cord-293421-0ksn0fc7 author: Rodriguez, J. M. title: Detection of animal pathogens by using the polymerasechain reaction (PCR) date: 1997-05-31 words: 9107 flesch: 40 summary: Cohen et al., 1993; Way et al., 1993; Booster PCR methods for the genus-specific detection of salmonellas in equine and chicken faeces have been developed (Cohen et al., 1994a, b) with detection possible within 10-12h from the time of submission of samples. keywords: 16s; abortion; acid; aetiological; affected; african; agent; amplification; amplified; analysis; animals; anthracis; antibodies; application; assay; asymptomatic; authors; bacteria; biv; blood; bovine; btv; bvdv; cae; calves; canine; carriers; cases; cattle; causative; cause; cdv; cells; chain; chain reaction; clinical; coli; comparison; contaminated; copies; countries; cows; culture; deer; detection; development; diagnosis; diarrhoea; different; differentiation; direct; disease; disease virus; dna; dogs; domestic; early; eggs; ehec; encephalitis; equine; et al; faeces; fast; fever; fi'om; field; fimbrial; fmdv; foodborne; foot; genes; group; herpesvirus; high; human; identification; important; infected; infection; isolates; isolation; laboratories; large; low; major; mastitis; methods; milk; mycoplasma; nested; nucleic; organism; outbreaks; paraffin; pathogens; pcr; pcr detection; piglets; pigs; polymerase; polymerase chain; potential; presence; present; primers; problems; products; protein; prv; rabies; rapid; reaction; regions; related; reproductive; research; restriction; results; rna; role; routine; rpv; ruminants; samples; scale; seals; semen; sensitive; sensitivity; sequences; sequencing; severe; sheep; signs; similar; single; small; source; species; specific; specific detection; specimens; spread; strains; swabs; swine; target; technique; tests; tile; time; tissue; tool; transmission; type; use; useful; van; viral; virulent; virus; viruses; weeks; wild cache: cord-293421-0ksn0fc7.txt plain text: cord-293421-0ksn0fc7.txt item: #437 of 647 id: cord-294196-3gox5art author: Jin, Hongwei title: Structural insights into the effect of isonucleosides on B-DNA duplexes using molecular-dynamics simulations date: 2006-02-01 words: 4612 flesch: 55 summary: In the S0:S duplex, the electrostatic contribution ÁG binding elec decreases by 3.5, 2.2, 11.2, and 7.7 kcal mol −1 , respectively, in comparison with those in the S1:S, S2:S, S3:S, and S4:S duplexes, which causes a l repulsive force and thus further leads to the highest binding affinity in the natural S0:S duplex. For the S0:S duplex, a slightly smaller average RMSD value (2.65 Å) was obtained than for the S1:S (3.68 Å), S2:S (3.23 Å), S3:S (3.70 Å), and S4:S (3.35 Å) duplexes (Table 1) , which indicated that S0:S was closer to the started B-form conformation than the other four modified duplexes. keywords: angles; antisense; average; backbone; base; binding; calculated; changes; complementary; differences; dna; dna duplexes; duplexes; electrostatic; energies; energy; fig; free; hydrogen; interactions; isonucleosides; kcal; large; modified; mol; molecular; native; natural; oligonucleotides; pair; parameters; results; rmsd; sequence; simulations; solvation; steps; strands; structures; table; torsional; twist; values cache: cord-294196-3gox5art.txt plain text: cord-294196-3gox5art.txt item: #438 of 647 id: cord-294712-kvvxmvqo author: Pelosse, Martin title: MultiBac: from protein complex structures to synthetic viral nanosystems date: 2017-10-30 words: 5382 flesch: 33 summary: A further posttranslational modification that can lead to heterogeneity is phosphorylation, which may or may not be authentic in insect cell expression. The introduced genome alterations resulted in a virus that exhibited delayed lysis of the insect cells, allowing the production of recombinant protein complexes at very high levels while the cells seemingly remained intact [11] . keywords: amino; applications; approach; artificial; assembly; baculoviral genome; baculovirus; bigbac; biological; biology; capacity; cargo; cells; cloning; code; codon; complex; complexes; cryo; culture; current; delivery; dna; efficient; elements; encoding; engineering; expression; fig; fluorescent; form; functional; functionalities; gce; gene; genetic; genome; heterologous; high; host; human; individual; influenza; insect; insect cell; interest; kinases; laboratory; large; ligation; like; loxp; machines; major; mammalian; method; molecular; multibac; multibacmam; multigene; multiprotein; new; orf; particular; pdb; plasmid; polymerase; primary; production; protein; quality; range; ray; recombinant; research; selection; sequence; site; size; specific; structure; subunits; synthetic; system; technology; therapy; tn7; tool; transfection; transfer; trna; user; vector; viral; viruses; vlp; wide cache: cord-294712-kvvxmvqo.txt plain text: cord-294712-kvvxmvqo.txt item: #439 of 647 id: cord-294864-x7mam4y3 author: García-González, Raquel title: Methylene blue covalently attached to single stranded DNA as electroactive label for potential bioassays date: 2014-02-28 words: 4163 flesch: 45 summary: Ultrasensitive DNA detection using highly fluorescent bioconjugated nanoparticles Observation of hybridization and dehybridization of thiol-tethered DNA using two-color surface plasmon resonance spectroscopy Kinetic measurements of DNA hybridization on an oligonucleotide-immobilized 27-MHz quartz crystal microbalance Electrochemical coding technology for simultaneous detection of multiple DNA targets Amperometric detection of nucleic acid at femtomolar levels with a nucleic acid/electrochemical activator bilayer on gold electrode Carbon nanotube-enhanced electrochemical DNA biosensor for DNA hybridization detection Electroanalysis and biosensors Electrochemical biosensors for DNA sequence detection Coupling of an indicator-free electrochemical DNA biosensor with polymerase chain reaction for the detection of DNA sequences related to the apolipoprotein E Escherichia coli single-strand binding protein-DNA interactions on carbon nanotube-modified electrodes from a label-free electrochemical hybridization sensor Glassy carbon electrodes modified with CNT dispersed in chitosan: analytical applications for sensing DNA-methylene blue interaction Genosensor for detection of four pneumoniae bacteria using gold nanostructured screenprinted carbon electrodes as transducers DNA hybridization sensor based on aurothiomalate electroactive label on glassy carbon electrodes Genosensor based on a platinum(II) complex as electrocatalytic label Voltammetric determination of DNA hybridization using methylene blue and self-assembled alkanethiol monolayer on gold electrodes Electrochemical detection of DNA hybridization using methylene blue and electro-deposited zirconia thin films on gold electrodes DNA electrochemistry as a probe of base pair stacking in A-, B-, and Z-form DNA Intercalative stacking: a critical feature of DNA charge-transport electrochemistry Electrochemical interrogation of interactions between surface-confined DNA and methylene blue Sequence-specific interactions of methylene blue with polynucleotides and DNA: a spectroscopic study Spectroscopic studies on the binding of methylene blue with DNA by means of cyclodextrin supramolecular systems DNA interactions with a methylene blue redox indicator depend on the DNA length and are sequence specific Complexation of heterocyclic ligands with DNA in aqueous solution Methylene blue binding to DNA with alternating GC base sequence: a modeling study Electrochemistry of methylene blue bound to a DNA-modified electrode Sequence-specific, electronic detection of oligonucleotides in blood, soil, and foodstuffs with the reagentless, reusable E-DNA sensor Voltammetric detection of single base-pair mismatches and quantification of label-free target ssDNA using a competitive binding assay A label-free DNA sensor based on impedance spectroscopy Gold nanoparticle-based quantitative electrochemical detection of amplified human cytomegalovirus DNA using disposable microband electrodes Colloid Au-enhanced DNA immobilization for the electrochemical detection of sequence-specific DNA Redox-active nucleic-acid replica for the amplified bioelectrocatalytic detection of viral DNA DNA sensors using a ferroceneoligonucleotide conjugate Particle-based detection of DNA hybridization using electrochemical stripping measurements of an iron tracer Electrochemical genosensors for biomedical applications based on gold nanoparticles A single-surface electrochemical biosensor for the detection of DNA triplet repeat expansion Carbon nanotubes for the delivery of therapeutic molecules Applications of carbon nanotubes in neurobiology, Neurodegenerative Diseases Single-walled carbon nanotubes-mediated in vivo and in vitro delivery of siRNA into antigenpresenting cells Electronic detection of specific protein binding using nanotube FET devices Encyclopedia of Nanoscience and Nanotechnology Nanotubes for electronics Unusual properties and structure of carbon nanotubes Carbon nanotube based nonvolatile memory New materials for electrochemical sensing. [4] have been proposed for DNA hybridization detection. keywords: accumulation; adsorption; analytical; auspes; bare; base; behavior; biosensors; blue; carbon; case; cnts; covalent; data; detection; development; different; dna; dpv; electroactive; electrochemical; electrodes; free; gold; group; higher; hybridization; increase; intensities; label; length; mer; methylene; molecules; nanostructured; nanotubes; oligonucleotide; process; sars; screen; sensitivity; sensor; sequences; signal; single; solution; specific; spes; strands; study; surface; swv; thiol; time; use; working cache: cord-294864-x7mam4y3.txt plain text: cord-294864-x7mam4y3.txt item: #440 of 647 id: cord-294877-bbs8a8jz author: Liu, ChuanPeng title: A glimpse of enzymology within the idea of systems date: 2012-09-27 words: 5628 flesch: 30 summary: Light and fluorescence microscopy techniques are being used in measuring enzyme activity in single cells in a real-time manner The effects of dihydrofolate reductase gene on the development of pharyngeal arches A mutation of testis-specific lactate dehydrogenase gene found in male patients with unexplained infertility Systems biology of microbial metabolism Regulation and control of metabolic fluxes in microbes Genetic polymorphism in metabolism and host defense enzymes: implications for human health risk assessment Phenotype prediction of nonsynonymous single nucleotide polymorphisms in human phase II drug/xenobiotic metabolizing enzymes: perspectives on molecular evolution Study on the mechanism of effects of lomefloxacin on biological properties of bloom syndrome helicase Study on the binding mode and mobility of HIV-1 integrase with L708, 906 inhibitor Development of a high-throughput assay for the HIV-1 integrase disintegration reaction Advances of study on translesion DNA synthesis polymerase kappa in mammalian cells Preparation and characterization of T7 endonuclease I with single active domain Enzymology and ecology of the nitrogen cycle Enzymology under global change: organic nitrogen turnover in alpine and sub-Arctic soils Analysis of the contribution of acid phosphatase to P efficiency in Brassica napus under low phosphorus conditions Temporal allocation of metabolic tolerance to transgenic Bt cotton in beet armyworm Functional proteomics: application of mass spectrometry to the study of enzymology in complex mixtures Imaging enzymes at work: metabolic mapping by enzyme histochemistry Measuring enzyme activity in single cells Single-molecule approaches to characterizing kinetics of biomolecular interactions Singlebiomolecule kinetics: the art of studying a single enzyme Probing single enzyme kinetics in real-time Single molecule enzymology: watching the reaction Classic and contemporary approaches to modeling biochemical reactions Network-based functional modeling of genomics, transcriptomics and metabolism in bacteria Generic enzymatic rate equation keywords: active; activities; activity; advances; applications; article; authors; biocatalytic; biochemical; biological; biologists; biology; catalysis; catalytic; cells; conditions; coworkers; data; degradation; design; development; diseases; dna; domain; drug; dynamic; endonuclease; environmental; enzymatic; enzymes; enzymologists; enzymology; et al; example; expression; family; function; gene; high; human; important; industrial; integrase; interest; key; latest; like; living; mechanism; metabolism; methods; modeling; modification; molecular; multiple; networks; new; nitrogen; novel; organisms; past; pathways; potential; processes; properties; protease; protein; proteolysis; ptm; recent; recombination; regulation; research; results; review; roles; schizophrenia; single; strategy; stress; structure; studies; study; substrate; synthesis; systems; techniques; ubiquitin; understanding; vivo cache: cord-294877-bbs8a8jz.txt plain text: cord-294877-bbs8a8jz.txt item: #441 of 647 id: cord-296197-ohfhnpma author: Deborggraeve, Stijn title: A Simplified and Standardized Polymerase Chain Reaction Format for the Diagnosis of Leishmaniasis date: 2008-11-15 words: 4238 flesch: 43 summary: We describe here the development of a simple and rapid test for the detection of polymerase chain reaction-amplified Leishmania DNA. The lower detection limits of the assay are 10 fg of Leishmania DNA and 1 parasite in 180 µL of blood. keywords: 18s; amplification; assay; biopsy; blood; bone; brucei; capture; clinical; confirmed; control; cruzi; detection; diagnosis; direct; dna; endemic; extraction; format; gambiense; healthy; high; infections; invasive; kenya; leishmania; leishmaniasis; lesion; line; lower; lymph; marrow; mcl; method; migration; min; molecular; need; negative; number; oligoc; parasite; patients; pcr; peru; polymerase; positive; probe; product; reaction; results; samples; scrapings; sensitivity; sequence; specific; specimens; subjects; sudan; test; trypanosoma; visceral cache: cord-296197-ohfhnpma.txt plain text: cord-296197-ohfhnpma.txt item: #442 of 647 id: cord-296356-qkvafy69 author: Garman, Elspeth title: SARS Proteomics Reveals Viral Secrets date: 2005-11-30 words: 1307 flesch: 44 summary: This protease represented a prime target for design of anti-SARS drugs (Yang et al., 2003) and was followed by the structures of other SARS proteins, including parts of the SARS CoV replicase polyprotein: nsP7 (Peti et al., 2005) by NMR and nsP9 (Egloff et al., 2004) However, there are still substantial challenges ahead, not least because structural characterization of viral proteins presents a number of severe obstacles. keywords: 8og; adrp; base; biology; dna; domain; et al; functional; interactions; molecular; nonstructural; pair; phosphatase; polymerase; protease; protein; ray; saikatendu; sars; structure; syn; understanding; viral; virus; worldwide cache: cord-296356-qkvafy69.txt plain text: cord-296356-qkvafy69.txt item: #443 of 647 id: cord-296886-0bma2749 author: Xu, Yingying title: Intranasal DNA Vaccine for Protection against Respiratory Infectious Diseases: The Delivery Perspectives date: 2014-07-10 words: 13105 flesch: 31 summary: With the success of DNA vaccines in various animal models, several phase I & II clinical trials on DNA vaccine against influenza have been being carried out. The two open reading frames of the 22k mRNA of human respiratory syncytial virus: Sequence comparison of antigenic subgroups A and B and expression in vitro Respiratory syncytial virus infection in elderly and high-risk adults Combining DNA and protein vaccines for early life immunization against respiratory syncytial virus in mice The fusion glycoproteins of human respiratory syncytial virus of subgroups A and B: Sequence conservation provides a structural basis for antigenic relatedness Protection against respiratory syncytial virus infection by DNA immunization Immunogenicity and efficacy of codon optimized DNA vaccines encoding the F-protein of respiratory syncytial virus Plasmid DNA encoding the respiratory syncytial virus G protein is a promising vaccine candidate Resistance to respiratory syncytial virus (RSV) challenge induced by infection with a vaccinia virus recombinant expressing the RSV M2 protein (Vac-M2) is mediated by CD8 + T cells, while that induced by Vac-F or Vac-G recombinants is mediated by antibodies Enhanced delivery and expression of a nanoencapsulated DNA vaccine vector for respiratory syncytial virus Nano-encapsulated DNA and/or protein boost immunizations increase efficiency of DNA vaccine protection against RSV Distribution of DNA vaccines determines their immunogenicity after intramuscular injection in mice DNA vaccines: Protective immunizations by parenteral, mucosal, and gene-gun inoculations Gene gun-based nucleic acid immunization: Elicitation of humoral and cytotoxic T lymphocyte responses following epidermal delivery of nanogram quantities of DNA Advantage of gene gun-mediated over intramuscular inoculation of plasmid DNA vaccine in reproducible induction of specific immune responses Immunobiology of dendritic cells Dendritic cells: Specialized and regulated antigen processing machines Dendritic cells in vivo: A key target for a new vaccine science Targeting vaccines to dendritic cells A versatile bifunctional dendritic cell targeting vaccine vector Dendritic cell targeted HIV gag protein vaccine provides help to a DNA vaccine including mobilization of protective CD8 + T cells Dendritic cell targeted chitosan nanoparticles for nasal DNA immunization against SARS CoV nucleocapsid protein The dendritic cell subtype-restricted C-type lectin Clec9A is a target for vaccine enhancement Improving vaccines by targeting antigens to dendritic cells Hematologic effects of flt3 ligand in vivo in mice Dramatic increase in the numbers of functionally mature dendritic cells in Flt3 ligand-treated mice: multiple dendritic cell subpopulations identified Modulating dendritic cells to optimize mucosal immunization protocols Enhancement of DNA vaccine potency by linkage of antigen gene to a gene encoding the extracellular domain of Fms-like tyrosine kinase 3-ligand Nasal Flt3 ligand cDNA elicits CD11c + CD8 + dendritic cells for enhanced mucosal immunity The nasal dendritic cell-targeting Flt3 ligand as a safe adjuvant elicits effective protection against fatal pneumococcal pneumonia Uptake and transport of copolymer biodegradable microspheres by rabbit Peyer's patch M cells Poly (lactide-co-glycolide) particles of different physicochemical properties and their uptake by Peyer's patches in mice M-cell targeted biodegradable PLGA nanoparticles for oral immunization against hepatitis B Claudin 4-targeted protein incorporated into PLGA nanoparticles can mediate M cell targeted delivery Pharmaceutical aspects of intranasal delivery of vaccines using particulate systems Exploiting lymphatic transport and complement activation in nanoparticle vaccines Enhanced mucosal and systemic immune response with intranasal immunization of mice with HIV peptides entrapped in PLG microparticles in combination with Ulex Europaeus-I lectin as M cell target Intestinal M cells: A pathway for entry of reovirus into the host Salmonella typhimurium initiates murine infection by penetrating and destroying the specialized epithelial M cells of the Peyer's patches The M cell as a portal of entry to the lung for the bacterial pathogen Mycobacterium tuberculosis Novel vaccine development strategies for inducing mucosal immunity The M cell-targeting ligand promotes antigen delivery and induces antigen-specific immune responses in mucosal vaccination M cell targeting by a Claudin 4-targeting peptide can enhance mucosal IgA responses A novel M cell-specific carbohydrate-targeted mucosal vaccine effectively induces antigen-specific immune responses Low-dose tolerance is mediated by the microfold cell ligand, reovirus protein sigma1 A versatile vector for gene and oligonucleotide transfer into cells in culture and in vivo: Polyethylenimine Intranasal immunization with plasmid DNA encoding spike protein of SARS-coronavirus/polyethylenimine nanoparticles elicits antigen-specific humoral and cellular immune responses Intranasal DNA vaccination induces potent mucosal and systemic immune responses and cross-protective immunity against influenza viruses Pulmonary delivery of DNA vaccine constructs using deacylated PEI elicits immune responses and protects against viral challenge infection Application of chitosan microspheres for nasal delivery of vaccines Chitosan-based formulations for delivery of DNA and siRNA Nasal vaccination: A non-invasive vaccine delivery method that holds great promise for the future Chitosan and the mucosal delivery of biotechnology drugs Biomedical applications of amino acid-modified chitosans: A review Immune stimulating activity of two new chitosan containing adjuvant formulations Intranasal gene transfer by chitosan-DNA nanospheres protects BALB/c mice against acute respiratory syncytial virus infection Nasal delivery of chitosan-DNA plasmid expressing epitopes of respiratory syncytial virus (RSV) induces protective CTL responses in BALB/c mice Thiolated chitosans Thiolated chitosan/DNA nanocomplexes exhibit enhanced and sustained gene delivery Biodegradable nanoparticles for drug and gene delivery to cells and tissue PLGA-PEI nanoparticles for gene delivery to pulmonary epithelium Chitosan-coated PLGA nanoparticles for DNA/RNA delivery: Effect of the formulation parameters on complexation and transfection of antisense oligonucleotides Characterization of plasmid DNA location within Chitosan/PLGA/pDNA nanoparticle complexes designed for gene delivery Establishing chitosan coated PLGA nanosphere platform loaded with wide variety of nucleic acid by complexation with cationic compound for gene delivery Cationic microparticles consisting of poly(lactide-co-glycolide) and polyethylenimine as carriers systems for parental DNA vaccination Intranasal delivery of cationic PLGA nano/microparticles-loaded FMDV DNA vaccine encoding IL-6 elicited protective immunity against FMDV challenge Preparation and characterization of cationic PLGA nanospheres as DNA carriers Co-delivery of IL-2 or liposomes augment the responses of mice to a DNA vaccine for pseudorabies virus IE180 Modulation of cellular immune response against hepatitis C virus nonstructural protein 3 by cationic liposome encapsulated DNA immunization Augmentation of antigen-specific immune responses using DNA-fusogenic liposome vaccine Vaccine adjuvant formulations: A pharmaceutical perspective Delivery of plasmid DNA into mammalian cell lines using pH-sensitive liposomes: Comparison with cationic liposomes Surface modified liposomes for nasal delivery of DNA vaccine Cationic lipid/DNA complexes (JVRS-100) combined with influenza vaccine (Fluzone) increases antibody response, cellular immunity, and antigenically drifted protection Improved tuberculosis DNA vaccines by formulation in cationic lipids Protection against tuberculosis by a single intranasal administration of DNA-hsp65 vaccine complexed with cationic liposomes DNA vaccination against respiratory influenza virus infection Intranasal immunization with liposome-encapsulated plasmid DNA encoding influenza virus hemagglutinin elicits mucosal, cellular and humoral immune responses Glycol chitosan improves the efficacy of intranasally administrated replication defective human adenovirus type 5 expressing glycoprotein D of bovine herpesvirus 1 Dendritic cell-targeting DNA-based mucosal adjuvants for the development of mucosal vaccines Improving vaccines by incorporating immunological coadjuvants Mucosal adjuvants and delivery systems for protein-, DNA-and RNA-based vaccines Mutants of Escherichia coli heat-labile toxin act as effective mucosal adjuvants for nasal delivery of an acellular pertussis vaccine: Differential effects of the nontoxic AB complex and enzyme activity on Th1 and Th2 cells Intranasal immunization with pneumococcal polysaccharide conjugate vaccines with nontoxic mutants of Escherichia coli heat-labile enterotoxins as adjuvants protects mice against invasive pneumococcal infections Genetically detoxified mutants of heat-labile enterotoxin from Escherichia coli are effective adjuvants for induction of cytotoxic T-cell responses against HIV-1 gag-p55 A dilemma for mucosal vaccination: Efficacy versus toxicity using enterotoxin-based adjuvants Mucosal vaccines: Non toxic derivatives of LT and CT as mucosal adjuvants Use of the inactivated intranasal influenza vaccine and the risk of Bell's palsy in Switzerland Heat-labile enterotoxins as adjuvants or anti-inflammatory agents Structure and function of cholera toxin and the related Escherichia coli heat-labile enterotoxin The vaccine adjuvant monophosphoryl lipid A as a TRIF-biased agonist of TLR4. keywords: able; acid; activation; addition; adjuvants; administration; antibodies; antibody; antigen; antigenic; apcs; attenuated; bacterial; broad; carrier; cationic; cavity; cd8; cells; cellular; challenge; chitosan; clinical; coli; complexes; concern; conventional; coronavirus; cov; cpg; current; cytokine; cytotoxic; dcs; delivery; dendritic; development; different; diseases; dna; dna delivery; dna vaccination; dna vaccines; early; effective; effects; efficacy; efficiency; encoding; enhanced; enterotoxin; entry; expression; flt3; formulation; function; fusion; gene; heat; high; hiv; host; human; humoral; igg; il-12; immune; immune responses; immunity; immunization; immunogenicity; important; inactivated; increase; induced; induction; infection; inflammatory; influenza; influenza virus; intramuscular; intranasal; intranasal administration; intranasal dna; labile; ligand; like; lipid; liposomal; liposomes; local; low; lymphoid; major; mice; mucosal; mucosal immune; mycobacterium; nalt; nanoparticles; new; non; nucleic; nucleocapsid; number; parenteral; pathogens; pei; phase; plasmid; plasmid dna; plga; potential; promising; protection; protein; recent; receptors; recombinant; related; respiratory; responses; risk; route; rsv; safety; sars; similar; site; size; specific; spike; strong; studies; study; surface; syncytial; system; systemic; t cells; targeting; time; tissue; toxicity; transfection; tuberculosis; type; uptake; use; vaccination; vaccine; vaccine delivery; vector; viral; virus; viruses; vivo cache: cord-296886-0bma2749.txt plain text: cord-296886-0bma2749.txt item: #444 of 647 id: cord-296967-qiil3gqk author: Tatlow, Dean title: A novel concept for treatment and vaccination against Covid‐19 with an inhaled chitosan‐coated DNA vaccine encoding a secreted spike protein portion date: 2020-08-08 words: 2264 flesch: 46 summary: Many studies have proven DNA vaccines to be safe and well tolerated. These antigenic proteins expressed and secreted by plasmid DNA vaccines access both the exogenous and endogenous pathways in the activation of both humoral and cellular mediated immune responses. keywords: ace2; antigen; article; binding; cells; chitosan; competitive; construct; copyright; coronavirus; cov-2; development; dna; expression; immune; immunity; infection; inhaled; lung; mhc; novel; plasmid; protein; receptor; respiratory; response; rights; sars; secretion; spike; tatlow; treatment; vaccination; vaccine; viral; zika cache: cord-296967-qiil3gqk.txt plain text: cord-296967-qiil3gqk.txt item: #445 of 647 id: cord-297078-pxggjaby author: Poole, Anthony M. title: Modern mRNA Proofreading and Repair: Clues that the Last Universal Common Ancestor Possessed an RNA Genome? date: 2005-03-16 words: 8291 flesch: 40 summary: A glycyl radical site in the crystal structure of a class III ribonucleotide reductase Mutation accumulation in transfer RNAs: molecular evidence for Muller#s ratchet in mitochondrial genomes The genome sequence of the SARS-associated coronavirus Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes The involvement of RNA in ribosome function Viroid replication is inhibited by alpha-amanitin A minimal gene set for cellular life derived by comparison of complete bacterial genomes The driving force for molecular evolution of translation Structure and function of the transcription elongation factor GreB bound to bacterial RNA polymerase Evolution of the genetic apparatus Intrinsic transcript cleavage activity of RNA polymerase AlkB restores the biological function of mRNA and tRNA inactivated by chemical methylation Characterization of a viroid-derived RNA promoter for the DNA-dependent RNA polymerase from Escherichia coli Binding site of Escherichia coli RNA polymerase to an RNA promoter Overlapping messages and survivability The nature of the last universal common ancestor A single mutation in poliovirus RNA-dependent RNA polymerase confers resistance to mutagenic nucleotide analogs via increased fidelity Early evolution: prokaryotes, the new kids on the block Methyl-RNA: an evolutionary bridge between RNA and DNA? Under Scenario 2, the LUCA possessed an RNA genome, and if the inherent potential for RNA repair by RNA polymerases was realized, both the genome and expressed transcripts would be subject to proofreading and repair, as both would be synthesized by RNA polymerase. keywords: active; activity; alkb; ancestor; apparatus; aravind; archaea; available; bacteria; capacity; catalytic; class; cleavage; coding; coli; common; complex; control; data; dependent; dna; dna polymerases; dna replication; domain; early; elongation; et al; eukaryotic; evidence; evolution; evolutionary; exonuclease; factors; feature; fidelity; fig; form; forterre; function; genes; genetic; genome; greb; horizontal; iii; koonin; leipe; luca; mechanism; metal; modern; mrna; multisubunit; origin; polymerase; poole; possible; present; proofreading; protein; quality; reductases; repair; replication; residues; ribonucleotide; rna; rna genome; rna polymerase; rna repair; rnap; role; scenario; sequence; single; site; stage; steitz; stimulatory; structure; subject; subunits; synthesis; tfiis; transcription; transcripts; transfer; transition; trna; universal; viral; viruses; world cache: cord-297078-pxggjaby.txt plain text: cord-297078-pxggjaby.txt item: #446 of 647 id: cord-297203-f3f31h4r author: Afrough, B. title: Emerging viruses and current strategies for vaccine intervention date: 2019-04-16 words: 5915 flesch: 30 summary: The ease of direct manipulation of viral genomes together with a growing understanding of their biology has led to the development of attenuated virus vaccines with increased safety and immunogenicity. For live attenuated RNA virus vaccines which incorporate error-prone polymerases, reversion to virulence is a distinct possibility after multiple rounds of replication. keywords: 17d; ability; advantages; africa; animal; antigen; approach; attenuated; basic; candidates; cases; cells; clinical; control; delivery; development; disease; dna; ebola; effective; efficacy; emergence; expression; fever; gene; global; glycoprotein; health; heterologous; high; host; human; humoral; immune; immunity; immunogenicity; infectious; interest; international; intervention; key; lassa; lasv; live; long; major; model; multiple; mva; new; non; novel; particles; pathogens; platform; populations; potential; protective; public; range; recent; recombinant; replication; replicon; research; responses; result; rna; rvfv; safety; self; similar; single; species; strategies; successful; target; technology; threat; transmission; understanding; vaccination; vaccines; vaccinia; vectors; viral; virulence; virus; viruses; vsv; west; wildlife; work; years; yellow; zoonoses; zoonotic cache: cord-297203-f3f31h4r.txt plain text: cord-297203-f3f31h4r.txt item: #447 of 647 id: cord-297790-tpjxt0w5 author: Mandl, Judith N. title: Going to Bat(s) for Studies of Disease Tolerance date: 2018-09-20 words: 9488 flesch: 28 summary: Given the diversity of the Chiroptera order (Figure 1) , we may simply see more bat viruses because there are so many (>1,300) species of bats (31) . Fewer studies have examined the adaptive immune system than those probing innate immune pathways, but experimental infections with bat borne viruses have demonstrated that bats generate low or absent antibody responses which often wane rapidly. keywords: activation; adaptations; aegyptiacus; alecto; analysis; antibody; antiviral; bat species; bats; blood; body; capable; cause; cell; challenge; changes; colonies; common; comparative; critical; damage; data; date; destructans; differences; disease; distinct; dna; ebov; echolocation; egyptian; evidence; evolution; experimental; expression; factors; family; flight; flying; fruit; function; genes; genome; greater; hendra; hibernation; high; history; host; humans; ifn; ifns; immune; immune responses; immunity; important; induction; infected; infection; inflammation; inflammatory; innate; levels; life; likely; lines; little; live; long; longevity; low; lps; mammalian; mammals; marburg; marv; mass; mechanisms; molecular; mortality; myotis; natural; nipah; non; north; nose; number; particular; pathogens; pathways; periods; phylogenetic; poliocephalus; populations; positive; potential; production; pteropid; pteropus; rabies; related; replication; reservoir; responses; results; rna; rousettus; selection; shedding; signaling; source; species; specific; stimulation; sting; strains; studies; study; susceptible; syndrome; tissue; tnfα; tolerance; traits; transmission; type; unique; viral; virus; viruses; white; zoonotic cache: cord-297790-tpjxt0w5.txt plain text: cord-297790-tpjxt0w5.txt item: #448 of 647 id: cord-298051-ej8qxkce author: Louten, Jennifer title: Detection and Diagnosis of Viral Infections date: 2016-05-06 words: 11215 flesch: 55 summary: Sequencing also allows us to track the genetic differences between related subtypes and strains of viruses, and it assists scientists in identifying novel viruses by comparing genome sequences with those of known viruses. Consequently, the first efforts to identify specific viruses relied upon serology, the analysis of the protein antibodies found in blood that the immune system synthesizes against pathogens. keywords: able; acid; agglutination; air; amplification; amplified; antibodies; antibody; antigen; antiviral; assays; beads; binding; blood; bound; bscs; capture; cause; cells; class; clinical; color; colored; control; culture; detection; diagnostic; different; dna; dye; effects; elisa; environment; enzyme; fig; filter; fluorescence; gel; genome; hepa; hiv; indirect; infected; infection; influenza; laboratory; latex; light; line; liquid; medium; membrane; methods; microarray; nucleic; number; patient; patient sample; pcr; plaques; plasma; plate; polymerase; positive; presence; present; primers; probes; process; proteins; quencher; reaction; real; red; reporter; sample; sequences; serum; size; special; specific; specimens; sterile; substrate; suit; test; time; tissue; tube; viral; viral antigen; virus; viruses; visible; way; work; zone cache: cord-298051-ej8qxkce.txt plain text: cord-298051-ej8qxkce.txt item: #449 of 647 id: cord-298136-mel9fxw8 author: O'Malley, Maureen A. title: Whole-genome patenting date: 2005-05-10 words: 4107 flesch: 36 summary: Patent patents take one step towards answering this question. Genome patents in the second category direct their claims to specified open reading frames (ORFs) or polynucleotides, but do so in the context of a broader specification of the invention that argues for the whole sequenced genome as an integral part of the invention. keywords: applications; arguments; bioinformatics; biological; category; claims; commercial; complete; computer; criteria; dna; epo; example; fragments; function; gene; genome; genome patents; genome sequence; genomic; human; information; intellectual; invention; inventive; isolated; microorganism; non; novelty; nucleotide; organism; patenting; patents; practice; property; public; related; reports; research; sars; scientists; sequence; shift; similar; single; specific; step; strains; table; text text; text texttext; use; uspto; utility; virus; way cache: cord-298136-mel9fxw8.txt plain text: cord-298136-mel9fxw8.txt item: #450 of 647 id: cord-298183-cisrvghj author: Fredricks, David N title: The infectious aetiology of disease: the search for new agents date: 2005-03-01 words: 1313 flesch: 36 summary: Future attempts to identify novel microbes associated with human disease may use sequence-based approaches. Less dramatically, newly described microbes have been linked to human diseases since 1980 ( Figure 1 ). keywords: acid; angiomatosis; approach; bacillary; bacterial; cause; coronavirus; disease; dna; fever; host; human; identification; infectious; microarrays; microbes; microbial; novel; nucleic; pathogens; sequences; tissues; treatment; unique; viral cache: cord-298183-cisrvghj.txt plain text: cord-298183-cisrvghj.txt item: #451 of 647 id: cord-298514-l2hs1h9c author: Ghosh, Soma title: Central Role of Ubiquitination in Genome Maintenance: DNA Replication and Damage Repair date: 2012-02-08 words: 5384 flesch: 34 summary: Non-proteolytic, proteasome-independent functions of ubiquitin involving monoubiquitination and polyubiquitination of DNA repair proteins contribute significantly to the signaling of DNA repair pathways. Ubiquitination has emerged as a key regulatory mechanism in DNA repair pathways and a powerful means for pharmacological intervention. keywords: activation; activity; addition; apc; apoptosis; atm; atr; binding; brca1; breaks; cancer; cdc25a; cdh1; cell; chains; checkpoint; chromatin; complex; cop1; cycle; damage; ddb; degradation; dependent; dna; dna damage; dna repair; dna replication; double; dubs; enzyme; excision; fancd2; fanci; fanconi; fork; form; function; genome; genomic; human; inhibitors; interaction; key; lesions; ligase; like; mechanism; modifications; monoubiquitination; pathway; pcna; phosphorylation; polymerases; process; proteasome; protein; recombination; regulated; regulation; repair; replication; response; rnf8; role; signaling; site; strand; stress; synthesis; targets; therapeutic; translesion; ubiquitin; ubiquitination; usp1 cache: cord-298514-l2hs1h9c.txt plain text: cord-298514-l2hs1h9c.txt item: #452 of 647 id: cord-298697-v1qdizwx author: Chang, Jia Jin Marc title: Takeaways from Mobile DNA Barcoding with BentoLab and MinION date: 2020-09-24 words: 7224 flesch: 49 summary: We sought to investigate if the basecalling model had an impact on MinION barcodes generated from an error correction pipeline like miniBarcoder. We then performed MinION barcode calling using the miniBarcoder pipeline [35] . keywords: accuracy; accurate; ambiguities; amplicons; amplification; bands; barcodes; barcoding; basecalling; bases; bentolab; biodiversity; capacity; cell; check; chemistry; consolidated; correction; cost; cycles; dataset; diversity; dna; dna barcodes; downstream; entire; error; extraction; fast; field; figure; file; final; flow; free; gel; generation; genomic; hac; high; identification; illumina; improved; laboratory; laptop; library; mafft; marine; metabarcoding; minibarcoder; minion; minion barcodes; model; molecular; nanopore; number; observed; pair; pcr; phase; pipeline; portable; primer; process; r10.3; r9.4.1; racon; rapid; raw; reaction; reads; remaining; run; samples; second; sequence; sequencing; singapore; situ; solution; species; specimen; step; study; success; supplementary; taxonomic; technologies; throughput; time; tissue; total; usd; use; vessel; workflow cache: cord-298697-v1qdizwx.txt plain text: cord-298697-v1qdizwx.txt item: #453 of 647 id: cord-298998-n5rhhzc9 author: Vashee, Sanjay title: Cloning, Assembly, and Modification of the Primary Human Cytomegalovirus Isolate Toledo by Yeast-Based Transformation-Associated Recombination date: 2017-10-04 words: 9360 flesch: 42 summary: Passage 7 of HCMV Toledo contains both wild-type and mutated ULb' regions. Next-generation sequence analysis of an early passage of HCMV Toledo. keywords: ability; adjacent; analysis; appropriate; assembly; bac; bacterial; biology; cas9; cells; cerevisiae; clinical; clones; cloning; coli; complex; contrast; culture; cytomegalovirus; dna; endothelial; fibroblasts; fig; fragments; genbank; generation; genetic; genomes; genomic; growth; half; hcmv; hcmv genomes; hcmv toledo; human; individuals; infected; infection; intact; isolate; kit; large; length; likely; low; method; mice; min; mixture; mobilization; multiple; mutations; new; number; p7 toledo; parental; passage; passaging; pcr; plasmid; positive; possible; primary; primers; protein; purified; reads; recombinant; recombination; reconstituted; regions; restriction; rl13; sample; sequence; sequencing; snps; strain; synthetic; table; tar; tar01; tissue; toledo; tools; towne; transformants; transformation; type; ul128; ul133; vaccine; vector; viral; viruses; vitro; vivo; weeks; wild; ycpbac; yeast cache: cord-298998-n5rhhzc9.txt plain text: cord-298998-n5rhhzc9.txt item: #454 of 647 id: cord-299731-sis9952k author: Mehmel, Mario title: Nicotinamide Riboside—The Current State of Research and Therapeutic Uses date: 2020-05-31 words: 10125 flesch: 33 summary: Here, we summarize currently available data on NR effects on metabolism, and several neurodegenerative and cardiovascular disorders, through to its application as a treatment for specific pathophysiological conditions. In this regard, we have summarized the available data from human and animal studies on NR effects on metabolic, neurodegenerative, and cardiovascular disorders, along with the advantages of NR over other available NAD + precursors. keywords: acid; activation; activity; addition; adenine; adp; aging; alzheimer; available; axonal; beneficial; bioavailability; biosynthesis; blood; brain; cardiac; cardiovascular; cd38; cells; clinical; conditions; content; coronavirus; damage; day; decrease; degeneration; dependent; depletion; derivatives; development; dinucleotide; disease; disorders; dna; dose; effective; effects; enzymes; evidence; expression; failure; fatty; form; function; health; heart; high; homeostasis; human; hypertrophy; immune; increase; infection; inflammation; inflammatory; inhibition; injury; insulin; intermediates; levels; life; lifespan; liver; longevity; lung; mammalian; mechanism; metabolism; mice; mitochondrial; models; mononucleotide; mouse; muscle; muscular; naad; nad; nampt; neurodegenerative; new; niacin; nicotinamide; nicotinamide riboside; nicotinic; nmn; nmrk2; novel; nrh; nuclear; numerous; observed; oral; oxidative; parps; pathway; patients; potential; precursors; protects; protein; remodeling; repair; research; resistance; response; ribose; riboside; role; safety; salvage; sars; sir2; sirt1; sirtuins; skeletal; specific; state; stem; stress; studies; study; supplementation; syndrome; synthesis; therapeutic; tissue; treatment cache: cord-299731-sis9952k.txt plain text: cord-299731-sis9952k.txt item: #455 of 647 id: cord-299943-wzkh04dv author: Santhanam, Manikandan title: DNA/RNA Electrochemical Biosensing Devices a Future Replacement of PCR Methods for a Fast Epidemic Containment date: 2020-08-18 words: 7358 flesch: 37 summary: In electrochemical DNA sensors, nucleic acid hybridization is coupled with the electrochemical reaction for selective detection of target DNA [13, 14] . To simplify DNA detection for point-of-care testing, other alternative approaches are being developed, namely, colorimetric keywords: acid; amplification; amplifier; analysis; approach; bead; biosensor; biotinylated; capture; carbon; cds; circle; circular; coated; complex; current; dependent; detection; dna; double; electrochemical; electrode; enzyme; event; figure; gene; glucose; gold; helicase; high; hiv; hrp; hybridization; iii; immobilized; influenza; invertase; isothermal; limit; lipase; low; magnetic; methods; molecular; molecules; multiple; nanoparticles; nucleic; number; pathogen; pcr; polymerase; presence; primer; probe; products; range; reaction; recognition; redox; reporter; review; rna; rolling; sample; sensitive; sensors; sequence; signal; signal amplification; similar; single; specific; ssdna; strand; streptavidin; sucrose; surface; synthetic; system; target; target dna; temperature; transcription; ultrasensitive; virus; voltammetry cache: cord-299943-wzkh04dv.txt plain text: cord-299943-wzkh04dv.txt item: #456 of 647 id: cord-300040-rvrp5zvv author: Dutta, Noton Kumar title: Search for potential target site of nucleocapsid gene for the design of an epitope-based SARS DNA vaccine date: 2008-06-15 words: 4694 flesch: 49 summary: The result suggests that the truncated recombinant protein except N-terminal of SARS N protein, containing a highly conserved motif, is more useful for designing a DNA vaccine [3, 30] . The truncated recombinant N1 and N3 (but not N2) proteins were identified by Western blotting with mouse SARS N protein antibody (Fig. 1e) . keywords: acute; antibodies; antibody; antigen; assay; cells; cellular; coli; control; coronavirus; cov; data; development; dna; effective; electroporation; elisa; expression; fig; fragments; gene; group; high; human; humoral; igg; igg1; igg2a; immune; immunization; immunized; length; mice; monoclonal; mouse; negative; nucleocapsid; patients; pbs; plasmid; potential; proliferation; protein; purified; pvax; pvax-1; recombinant; residues; respiratory; responses; rna; sars; sequence; sera; severe; specific; study; syndrome; target; terminal; usa; vaccination; vaccine; viral cache: cord-300040-rvrp5zvv.txt plain text: cord-300040-rvrp5zvv.txt item: #457 of 647 id: cord-300061-l2pfl776 author: Zhang, Ren title: A rebuttal to the comments on the genome order index and the Z-curve date: 2011-02-16 words: 6598 flesch: 61 summary: Elhaik et al. confuse S (a single number) with Z-curve (a series of 3D coordinates), which are distinct. The debate originated from a paper published in 1991, in which we defined a quantity S = a 2 + c 2 + g 2 + t 2 , where a, c, g and t denote corresponding base frequencies in a DNA sequence, and we studied S values for protein coding genes [1] . keywords: 1/3; analysis; author; bacterial; base; biological; components; composition; conclusion; content; coordinate; curve; deviations; distribution; dna; elhaik; elhaik et; entropy; equivalent; et al; functions; genes; genomes; index; inscribed; large; mapping; nucleotide; order; original; points; pr2; protein; radius; reduced; replication; second; sequences; shannon; single; sphere; system; values cache: cord-300061-l2pfl776.txt plain text: cord-300061-l2pfl776.txt item: #458 of 647 id: cord-300122-k71s33rg author: Liu, Hung-Jen title: Retardation of cell growth by avian reovirus p17 through the activation of p53 pathway date: 2005-10-21 words: 4597 flesch: 51 summary: Western blot analysis also demonstrated that p17 expressing cells synthesized a greater amount of p21 cip1/waf1 than vector transfected cells (Fig. 4B) . The avian reovirus genome segment S1 is functionally tricistronic gene that express one structural and two nonstructural proteins in infected cells Mechanisms of p53 degradation Rates of p16 (MTS1) mutations in primary tumors with 9p loss Evaluation of a tetrazolium-based semiautomated colorimetric assay: assessment of chemosensitivity testing The Epstein-Barr virus bZIP transcription factor Zta causes G0/G1 cell cycle arrest through induction of cyclin-dependent kinase inhibitors Murine coronavirus nonstructural protein p28 arrests cell cycle in G0/G1 phase Alternation of cell cycle in cervical tumor associated with human papillomavirus-cyclin-dependent kinase inhibitors The second open reading frame of the avian reovirus S1 gene encodes a transcription-dependent and CRM1-independent nucleocytoplasmic shuttling protein WAF1, a potent mediator of p53 tumor suppression Structure of the C-terminal region of p21 (WAF1/ CIP1) complexed with human PCNA Perturbation of cell cycle progression and cellular gene expression as a function of herpes simplex virus ICP0 Avian reovirus infections Differential effects by the p21 CDK inhibitor on PCNA-dependent DNA replication and repair Epstein-Barr virusnuclear antigen 2 retards cell growth, induces p21 WAF1 expression, and modulates p53 activity post-translationally Herpes simplex virus type 1 immediateearly protein Vmw110 inhibits progression of cells through mitosis and from G(1) into S phase of the cell cycle Reovirus-induced G (2)/M cell cycle arrest requires sigma1s and occurs in the absence of apoptosis Alternative reading frames of the INK4a tumor suppressor gene encode two unrelated proteins capable of inducing cell cycle arrest Avian reovirus Transforming growth factor-b 1 upregulates p15, p21 and p27 and blocks cell cycling in G1 in human prostate epithelium Interaction of the human papillomavirus type 16 E6 oncoprotein with wild-type and mutant human p53 proteins G1 phase progression: cycling on cue CDK inhibitors: positive and negative regulators of G1-phase progression Avian reovirus sigmaC protein induces apoptosis in cultured cells Sequential partially overlapping gene arrangement in the tricistronic S1 genome segments of avian reovirus and Nelson Bay reovirus: implications for translation initiation Human T-cell leukemia virus type 1 (HTLV-1) and HTLV-2 tax oncoproteins modulate cell cycle progression and apoptosis Measurement of lymphocyte cytotoxicity by assessing endogenous alkaline phosphatase activity of the target cells Induction of hepatoma cells migration by phosphoglucose isomerase/autocrine motility factor through the upregulation of matrix metalloproteinase-3 function and dysfunction Effect of deleted pancreatic cancer locus 4 gene transfection on biological behaviors of human colorectal carcinoma cells This work was supported by a grant from the National Science Council (NSC93-2313-B-320-002). keywords: activation; activity; analysis; antibody; apoptosis; arrest; arv; assay; avian; bhk; blue; cdk; cells; cellular; cip1; control; cultured; cycle; data; death; dependent; dominant; effect; expression; fig; function; gene; growth; hela; human; incubation; induced; induction; inhibitors; ldh; level; lower; luciferase; mtt; negative; non; nuclear; p17; p21; p21 cip1; p53; pcdna3.1(à; pcr; plasmid; progression; protein; reovirus; reporter; retardation; serum; specific; structural; time; transcription; transfection; trypan; vector; vero; waf1 cache: cord-300122-k71s33rg.txt plain text: cord-300122-k71s33rg.txt item: #459 of 647 id: cord-301128-woe6knpv author: Joyeux, Marc title: Requirements for DNA-bridging proteins to act as topological barriers of the bacterial genome date: 2020-08-12 words: 4508 flesch: 37 summary: Marcel Dekker Use of site-specific recombination as a probe of DNA structure and metabolism in vivo Structure and reactions of closed duplex DNA DNA gyrase: structure and function Transcription-coupled hypernegative supercoiling of plasmid DNA by T7 RNA polymerase in Escherichia coli topoisomerase I-deficient strains Potent stimulation of transcription-coupled DNA supercoiling by sequence-specific DNA-binding proteins Large-scale conformational transitions in supercoiled DNA revealed by coarse-grained simulation Hyperplectonemes: A higher order compact and dynamic DNA self-organization Viscous nonlinear dynamics of twist and writhe Twist and writhe dynamics of stiff polymers Structural basis for recognition of AT-rich DNA by unrelated xenogeneic silencing proteins Domain organization and oligomerization among H-NS like nucleoid-associated proteins in bacteria Protein occupancy landscape of a bacterial genome Fis protein forms DNA topological barriers to confine transcription-coupled DNA supercoiling in Escherichia coli Genes on a wire: The nucleoid-associated protein HU insulates transcription units in Escherichia coli Shape and compaction of Escherichia coli nucleoids DNA condensation in bacteria: Interplay between macromolecular crowding and nucleoid proteins Physical descriptions of the bacterial nucleoid at large scales, and their biological implications From structure to function of bacterial chromosomes: Evolutionary perspectives and ideas for new experiments Polymer solutions: An introduction to physical properties A combined wormlike-chain and bead model for dynamic simulations of long linear DNA Conformational and thermodynamic properties of supercoiled DNA References (70,71) The role of high affinity nonspecific DNA binding by Lrp in transcriptional regulation and DNA organization DNA supercoiling, a critical signal regulating the basal expression of the lac operon in Escherichia coli bp LacI-mediated, negatively supercoiled DNA loop by atomic force microscope Description of non-specific DNA-protein interaction and facilitated diffusion with a dynamical model Dynamical model of DNA protein interaction: effect of protein charge distribution and mechanical properties Comparison of kinetic and dynamical models of DNA-protein interaction and facilitated diffusion A model of H-NS mediated compaction of bacterial DNA Equilibration of complexes of DNA and H-NS proteins on charged surfaces: A coarse-grained model point of view Role of salt valency in the switch of H-NS proteins between DNAbridging and DNA-stiffening modes Compaction of bacterial genomic DNA: keywords: bacterial; barriers; beads; binding; chain; chromosome; circular; coli; different; diffusion; dna; domains; dynamics; equilibrium; escherichia; fig; formation; independent; intrication; laci; like; loops; model; molecule; nucleoid; order; point; properties; proteins; relaxation; results; rotation; segment; single; sites; stress; structure; supercoiling; topological; topological barriers; torsional; transcription; twist; work; writhe cache: cord-301128-woe6knpv.txt plain text: cord-301128-woe6knpv.txt item: #460 of 647 id: cord-301167-101lnq4f author: Liu, Quanjun title: Microarray-in-a-Tube for Detection of Multiple Viruses date: 2007-02-01 words: 3256 flesch: 40 summary: Microarray detection is a good method, but requires complex procedures for multiple virus detection. Methods: We developed a novel PCR assay, the microarray-in-a-tube system, which integrates multiple PCR processes and DNA microarrays for multiple virus detection. keywords: acute; agarose; amplification; assays; buffer; cap; control; coronavirus; detection; devices; dna; eppendorf; fig; film; fluorescence; gene; hcov; high; hybridization; image; influenza; inner; intensity; microarray; min; multiple; negative; pcr; plastic; position; positive; probes; rapid; respiratory; results; rna; samples; sars; severe; solution; surface; syndrome; system; temperature; tube; virus; viruses cache: cord-301167-101lnq4f.txt plain text: cord-301167-101lnq4f.txt item: #461 of 647 id: cord-301293-jqy7lcbk author: Gupta, Vandana title: SARS coronavirus nucleocapsid immunodominant T-cell epitope cluster is common to both exogenous recombinant and endogenous DNA-encoded immunogens date: 2006-03-30 words: 7679 flesch: 30 summary: The pronounced Th-2 and humoral response to N protein plus adjuvant are in contrast to the balanced IFN-γ and IL-4 responses and strong memory CTL responses to the LAMP-N chimera. N protein was purified from lysates of infected High5 cells using Ni-NTA agarose beads (Invitrogen), and the protein preparation was verified by Western blot analysis with mouse monoclonal Penta-His-antibody (Qiagen, GmBH) and anti-N (Imgenex) antibodies. keywords: -114; activation; adjuvant; amino; analysis; antibody; antigen; assays; associated; balb; cd4; cd8; cell; cell responses; cellular; chimera; class; class ii; compartments; complex; construct; control; coronavirus; cov; ctl; culture; days; delivery; dendritic; differences; different; dna; elisa; elispot; envelope; epitopes; et al; exogenous; expression; fig; forms; freund; gag; gst; hel; histocompatibility; hiv-1; human; ifn; il-4; immune; immunization; immunized; immunodominant; immunogens; induction; lamp; lysosomal; lysosome; major; membrane; memory; mhc; mhc class; mice; molecules; motifs; mouse; multiple; n chimera; n protein; negative; nucleocapsid; pathways; peptides; plasmid; presentation; primary; processing; protein; recombinant; responses; rna; sars; sequence; singapore; single; specific; strongest; system; targeting; trafficking; transfected; vaccine; vector; viral; vivo; weeks cache: cord-301293-jqy7lcbk.txt plain text: cord-301293-jqy7lcbk.txt item: #462 of 647 id: cord-302486-z36hcvrx author: Cobo, Fernando title: Diagnostic approaches for viruses and prions in stem cell banks date: 2006-03-30 words: 7277 flesch: 32 summary: However, viral contamination of cell cultures and feeder cells, which is a common risk in all biotechnological products derived from the cell lines, is the most challenging and potentially serious outcome to address, due to the difficulty involved in virus detection and the potential to cause serious disease in recipients of these cell products (Cobo et al., 2005) . Viral and prion contamination of cell cultures and “feeder” cells, which is a common risk in all biotechnological products derived from the cell lines, is the most challenging and potentially serious outcome to address, due to the difficulty involved in virus and prion detection and the potential to cause serious disease in recipients of these cell products. keywords: acid; advantages; agents; amplification; analysis; animal; antibodies; antibody; antigens; arrays; assay; banks; biological; biotechnological; blood; blot; bovine; cell; cell cultures; cell lines; chain; clinical; contaminants; contamination; culture; detection; diagnostic; different; direct; disease; dna; donors; ecotropic; electron; et al; fact; fas; feeder; fluorescent; hepatitis; high; human; hybridization; identification; important; infections; infectivity; label; laboratory; like; lines; means; method; microarrays; microscopy; molecular; multiplex; murine; need; negative; new; nucleic; origin; particles; pcr; polymerase; potential; presence; present; prion; products; protein; prp; quality; rapid; reaction; reagents; real; recipients; research; respect; retroviruses; reverse; risk; safety; samples; screening; sensitive; sensitivity; sequence; serum; species; specific; specificity; specimen; staining; stem; stem cell; target; techniques; testing; tests; time; tissue; transcriptase; transmission; viral; virology; viruses cache: cord-302486-z36hcvrx.txt plain text: cord-302486-z36hcvrx.txt item: #463 of 647 id: cord-302880-sizk6mk6 author: Rummun, Nawraj title: Terminalia bentzoë, a Mascarene Endemic Plant, Inhibits Human Hepatocellular Carcinoma Cells Growth In Vitro via G0/G1 Phase Cell Cycle Arrest date: 2020-10-12 words: 8428 flesch: 43 summary: To assess the antiproliferative properties of the T. bentzoë leaf extract on cancer cells, first, the influence of the extracts on the cell viabilities of five cancer cell lines, notably human liposarcoma (SW872), human lung carcinoma (A549), human hepatocellular carcinoma (HepG2), and human ovarian carcinoma OVCAR-4 and OVCAR-8 cells, was investigated using the methyl thiazolyl diphenyl-tetrazolium bromide (MTT) assay. On one hand, where a moderate ROS level promotes the transformation of normal cells to malignant cells, elevating the ROS level in cancer cells beyond the cell tolerance threshold may promote oxidative stress-induced cell cytotoxicity [38] keywords: ability; acid; activities; activity; agents; analysis; anticancer; antioxidant; apoptosis; apoptotic; arrest; assay; bentzoë; bentzoë leaf; bioactive; butanol; cancer; cancer cell; carcinoma; cell cycle; cells; colonies; comet; compounds; concentration; control; crude; cycle; cytotoxic; cytotoxicity; damage; death; differences; different; discovery; dna; drugs; effect; ellagic; endemic; extract; figure; flavonoids; forest; fraction; fractionation; gallic; graphpad; growth; hepg2; hepg2 cells; hplc; human; leaf; leaf extract; leaves; levels; lines; liquid; mascarene; mauritius; mean; medicinal; methyl; min; mixture; necrosis; nmr; novel; olive; ovarian; oxidative; percentage; phase; phenolic; plant; potential; progression; punicalagin; radical; results; ros; signaling; significant; software; species; study; subfractions; supplementary; survival; t. bentzoë; table; tail; terminalia; test; total; treatment; untreated; value; viability; water cache: cord-302880-sizk6mk6.txt plain text: cord-302880-sizk6mk6.txt item: #464 of 647 id: cord-302895-471zei5o author: Deng, Zengqin title: Structural basis for the regulatory function of a complex zinc-binding domain in a replicative arterivirus helicase resembling a nonsense-mediated mRNA decay helicase date: 2013-12-24 words: 8489 flesch: 43 summary: Previous studies identified the nsp carrying RNA helicase activity (arterivirus nsp10 and coronavirus nsp13) as one of the two most evolutionarily conserved nidovirus proteins. Therefore, our study not only provides the first insights into the structural basis for nidovirus RNA helicase function, but also creates a basis to propose a role for this protein in the posttranscriptional quality control of viral mRNAs. keywords: acid; activities; activity; arterivirus; atoms; atpase; backbone; base; basis; binding; bonds; chain; channel; characterized; clef; complex; conservation; conserved; control; core; coronavirus; cys; data; decay; dna; domain; double; duplex; eav; enzymatic; enzyme; extensive; factor; figure; finger; fold; function; genome; hel1; helicase; helix; hepes; hydrogen; interactions; large; length; like; module; molecular; mrna; multi; multiple; mutants; mutations; nidovirus; nonsense; nsp10; nucleic; observed; organization; properties; proposed; protein; putative; quality; replacement; replicase; replication; residues; respiratory; ring; rmsd; rna; role; sequence; sf1; similar; single; site; size; solved; specific; structure; studies; study; substrate; supplementary; supplementary figure; syndrome; synthesis; terminal; transcription; treble; unique; unwinding; upf1; viral; viruses; vitro; zbd; zinc; zinc finger cache: cord-302895-471zei5o.txt plain text: cord-302895-471zei5o.txt item: #465 of 647 id: cord-303265-v6ci69n0 author: Domingo, Esteban title: Introduction to virus origins and their role in biological evolution date: 2019-11-08 words: 15691 flesch: 36 summary: Group 1 (with a replicative scheme abbreviated as RNA/RNA) includes RNA viruses whose genomic replication cycle involves only RNA. The extent of genetic variation and its biological consequences have been less investigated for DNA viruses than for RNA viruses. keywords: absence; acid; activities; activity; agents; amino; ancestral; ancient; atmosphere; available; bacteriophages; behavior; biological; biology; biosphere; capacity; catalytic; cells; cellular; cellular dna; century; changes; chapter; chemical; chemistry; code; complexity; composition; compounds; concept; conditions; copying; current; cycle; darwinian; day; day viruses; dependent; development; different; differentiated; discovery; disease; diversity; dna; domingo; dynamics; early; earth; eigen; elements; endogenous; energy; entities; environment; enzymes; error; essential; et al; events; evidence; evolution; evolutionary; evolved; experimental; expression; extinction; features; fig; fold; forms; functional; general; generation; genes; genetic; genome; genomic; giant; group; hdv; hepatitis; high; historical; host; human; implications; important; individuals; infected; infection; information; inorganic; interactions; introduction; key; later; lateral; lazcano; life; like; likely; limited; lipid; living; long; major; material; matter; mechanisms; membrane; metabolism; microbial; miller; mineral; mirazo; model; modules; molecular; molecules; mrna; multiple; natural; new; nucleic; nucleotide; number; organic; organisms; organization; orgel; origin; parasites; particles; phenotypic; physical; place; plant; polymerase; population; positive; possible; potential; prebiotic; precursors; presence; present; primitive; processes; progeny; prone; protein; quasispecies; radiation; reactions; related; relevant; replication; replicons; retroviruses; rna; rna viruses; rna world; rnas; role; ruiz; section; selection; selective; self; selfish; sequences; single; space; spread; stage; structure; surface; synthesis; systems; term; theories; theory; thought; time; today; traits; transfer; transition; transmission; twentieth; type; variation; vesicles; views; villarreal; viral; virology; virus evolution; viruses; way; world; years cache: cord-303265-v6ci69n0.txt plain text: cord-303265-v6ci69n0.txt item: #466 of 647 id: cord-303319-v3iyur78 author: Abe, Takayuki title: Cytosolic DNA‐sensing immune response and viral infection date: 2019-02-26 words: 7830 flesch: 31 summary: Another interesting point is that cGAMP may be transferred from virus-infected cells to neighboring uninfected cells via gap-junction channels, thereby promoting STING activation independently of type I IFN signaling mediated by the IFN-receptor/JAK-STAT axis 5 protein inhibits STING activation that restricts viral replication Modulation of the cGAS-STING DNA sensing pathway by gammaherpesviruses Cytoplasmic isoforms of Kaposi sarcoma herpesvirus LANA recruit and antagonize the innate immune DNA sensor cGAS Evasion of innate cytosolic DNA sensing by a gammaherpesvirus facilitates establishment of latent infection Inhibition of cGAS DNA sensing by a herpesvirus virion protein DNA tumor virus oncogenes antagonize the cGAS-STING DNA-sensing pathway Hepatitis C virus NS4B protein targets STING and abrogates RIG-I-mediated type I interferon-dependent innate immunity Hepatitis C virus NS4B blocks the interaction of STING and TBK1 to evade host innate immunity Viral evasion of intracellular DNA and RNA sensing DENV inhibits type I IFN production in infected cells by cleaving human STING Dengue virus targets the adaptor protein MITA to subvert host innate immunity Species-specific disruption of STING-dependent antiviral cellular defenses by the Zika virus NS2B3 protease Zika virus elicits inflammation to evade antiviral response by cleaving cGAS via NS1-caspase-1 axis Coronavirus papain-like proteases negatively regulate antiviral innate immune response through disruption of STING-mediated signaling The papain-like protease of porcine epidemic diarrhea virus negatively regulates type I interferon pathway by acting as a viral deubiquitinase SARS coronavirus papain-like protease inhibits the type I interferon signaling pathway through interaction with the STING-TRAF3-TBK1 complex HTLV-1 Tax impairs K63-linked ubiquitination of STING to evade host innate immunity Influenza A virus targets a cGAS-independent STING pathway that controls enveloped RNA viruses HIV-1 evades innate immune recognition through specific cofactor recruitment The capsids of HIV-1 and HIV-2 determine immune detection of the viral cDNA by the innate sensor cGAS in dendritic cells Dengue virus NS2B protein targets cGAS for degradation and prevents mitochondrial DNA sensing during infection Cytosolic DNA-sensing immune response and viral infection keywords: acid; activation; activity; adaptor; addition; antiviral; axis; cdns; cells; cgamp; cgas; conjugation; cyclic; cytoplasmic; cytosolic; cytosolic dna; damage; ddx41; degradation; dependent; detection; direct; diseases; dna; dsdna; evasion; factor; family; function; gene; hbv; host; hsv-1; human; ifi16; ifn; ifns; immune; immune response; immunity; induction; infection; inflammatory; innate; innate immune; interaction; interferon; intracellular; irf3; k63; kinase; ligase; like; manner; mechanism; molecules; nucleic; pathogen; pathway; phosphorylation; poly; production; protease; protein; recent; recognition; response; rig; rna; role; self; senescence; sensing; sensor; signal; signaling; specific; sting; strategies; strategy; studies; surveillance; synthetic; tbk1; type; ubiquitination; viral; virus; viruses cache: cord-303319-v3iyur78.txt plain text: cord-303319-v3iyur78.txt item: #467 of 647 id: cord-303978-z3888e3g author: Hong, Ka Lok title: Single-Stranded DNA Aptamers against Pathogens and Toxins: Identification and Biosensing Applications date: 2015-06-23 words: 15737 flesch: 39 summary: After the retrieval of target bound ssDNA molecules for each round of selection, a small-scale PCR can be carried out to determine the cycles of PCR needed to successfully amplify the library. It then summarizes advancements in the identification and biosensing application of ssDNA aptamers specific for bacteria, viruses, their associated molecules, and selected chemical toxins. keywords: able; acid; activities; addition; affinities; affinity; aflatoxin; alpha; amplification; analysis; anthrax; antibodies; antibody; antigen; application; aptamers; aptasensor; assay; associated; atrazine; aunps; aureus; authors; bacteria; beads; best; binding; biosensing; biosensor; bisphenol; bont; botulinum; bovine; candidate; candidate mre; capillary; capture; capturing; carbon; cause; cell; cfu; change; characterization; coated; coli; colorimetric; conformational; counter; coworkers; cross; detection; detection assay; determination; development; different; difficile; dna aptamers; electrochemical; electrode; electrophoresis; elements; enterotoxin; environmental; enzyme; escherichia; et al; figure; flow; fluorescence; food; free; general; gold; gram; graphene; group; high; high affinity; human; identification; immobilization; immobilized; impedimetric; increase; infections; influenza; label; library; linked; listeria; lod; low; magnetic; method; modified; molecular; molecules; monocytogenes; mre; mre specific; mres; multiple; nanomolar; nanoparticles; negative; negative selection; nucleic; ochratoxin; ota; oxide; pcr; pesticides; positive; primer; process; protein; random; range; rapid; recognition; redox; region; reported; resonance; review; rna; rounds; salmonella; samples; sandwich; selected; selection; selective; selex; sensitive; sensitivity; separation; sequences; serum; signal; similar; single; small; solution; species; specific; specificity; spores; spr; ssdna; ssdna mre; staphylococcus; strains; strand; streptavidin; streptococcus; study; surface; system; target; target selection; time; toxins; tuberculosis; type; typhimurium; ultrasensitive; unbound; use; values; vibrio; virus; water; wine cache: cord-303978-z3888e3g.txt plain text: cord-303978-z3888e3g.txt item: #468 of 647 id: cord-304188-1nm1tbig author: Moody, M. Anthony title: Modulation of HIV-1 immunity by adjuvants date: 2014-04-10 words: 5163 flesch: 37 summary: The role of cytokine DNAs as vaccine adjuvants for optimizing cellular immune responses Vaccine adjuvants: putting innate immunity to work This is an excellent review of adjuvants and the role of PRRs in triggering the immune system. This review will highlight recent work in adjuvant development for HIV-1 vaccines with particular emphasis on antibody responses. keywords: addition; adjuvant; aids; alum; animal; antibodies; antibody; boost; candidate; cell; comparative; cytokines; delivery; development; different; dna; effective; effects; efficacy; electroporation; elicit; emulsion; env; envelope; formulations; freund; gp120; group; head; hiv-1; human; immune; immunity; immunization; immunodeficiency; immunogenicity; immunogens; ligand; liposomes; macaques; mice; mucosal; novel; oil; peptide; phase; plasmid; poxvirus; prime; protein; recent; recombinant; regimen; responses; review; rhesus; risk; safety; series; specific; strategies; studies; superior; system; time; trials; type; vaccination; vaccine; vectors; viral; virus; water; work cache: cord-304188-1nm1tbig.txt plain text: cord-304188-1nm1tbig.txt item: #469 of 647 id: cord-304283-nv4ret1f author: Hung, Chuan-Fu title: A novel siRNA validation system for functional screening and identification of effective RNAi probes in mammalian cells date: 2006-08-04 words: 7126 flesch: 33 summary: As compared with the results obtained from using the active RNAi targeting sequence sisAg3, the inactive sisAg1 totally had no inhibition effects on targeting reporter gene expression in all tested systems including sisAg1 fused at the 5 0 -or 3 0 -UTR of EGFP or firefly luciferase or inserted within EGFP-Fluc+ fusion gene, as well as pHsH1-expressed shsAg1 and pDual-expressed sisAg1 (Fig. S2) . Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans Killing the messenger: short RNAs that silence gene expression Hairpin RNAs and retrotransposon LTRs effect RNAi and chromatin-based gene silencing A potential role for RNA interference in controlling the activity of the human LINE-1 retrotransposon The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi RNAi-mediated pathways in the nucleus Functional genomics: RNA sets the standard A large-scale RNAi screen in human cells identifies new components of the p53 pathway A resource for large-scale RNA-interference-based screens in mammals RNA-interferencebased functional genomics in mammalian cells: reverse genetics coming of age RNAi: gene-silencing in therapeutic intervention Unlocking the potential of the human genome with RNA interference Approaches for the sequence-specific knockdown of mRNA Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells siRNAs: applications in functional genomics and potential as therapeutics Synthetic shRNA as potent RNAi triggers system for stable expression of short interfering RNAs in mammalian cells A DNA vector-based RNAi technology to suppress gene expression in mammalian cells Short hairpin RNAs (shRNAs) induce sequence-specific silencing in mammalian cells Effective expression of small interfering RNA in human cells Expression of small interfering RNAs targeted against HIV-1 rev transcripts in human cells U6 promoter-driven siRNAs with four uridine 3 0 overhangs efficiently suppress targeted gene expression in mammalian cells keywords: -utr; active; addition; anti; bhk; cells; corresponding; dna; ebv; effective; effects; efficacy; egfp; expressed; expression; expression vector; fig; firefly; fluc+; fragment; functional; fusion; gene; gene expression; gst; hbsag; human; inhibition; interference; levels; luciferase; mammalian; mmp-7; mouse; oligonucleotides; p53; pcmv; pdual; pegfp-3utr; phsh1; pluc+-3utr; posttransfection; previous; probes; protein; renilla; reporter; reporter expression; reporter gene; results; rnai; rnai targeting; rnas; screening; selected; sequence; short; siakt1; silencing; silmp1; sip53; sirna; sirna expression; sirna validation; sisag3; specific; studies; synthetic; system; targeting; targeting sequence; total; usa; validation; vector; virus cache: cord-304283-nv4ret1f.txt plain text: cord-304283-nv4ret1f.txt item: #470 of 647 id: cord-304375-l5gvpat3 author: Singh, Kamaljit title: 2-Aminopyrimidine based 4-aminoquinoline anti-plasmodial agents. Synthesis, biological activity, structure–activity relationship and mode of action studies date: 2012-03-13 words: 6633 flesch: 45 summary: Evidently, the compounds have anti-plasmodial activity in the nM range and against the CQ R strain of P. falciparum, in some cases activity was found to be even superior to CQ. Replacing the C-4 phenyl group in 10c by a methyl group to create 10m resulted in nearly 5 times increase in anti-plasmodial activity (IC 50 42.1 nM) against the CQ S strain. keywords: 10c; 10i; 10r; absorbance; active; activity; addition; agents; analog; analysis; anti; antimalarial; antiplasmodial; appropriate; association; binding; cell; chain; chloroquine; comparison; compounds; concentrations; constant; control; cq r; cultures; cytostatic; data; decrease; dhfr; dmso; dna; docking; drug; enzyme; etoac; falciparum; fig; formation; hematin; heme; high; higher; increase; inhibition; interaction; log; mode; molecular; monomeric; new; nmr; oxo; parasite; plasmodial; plasmodial activity; potent; puc18; pyrimidine; quinoline; range; reaction; resistance; rich; series; solid; solution; spacer; stoichiometry; strain; structure; studies; synthesis; table; temperature; thermal; titration; values; variation; virus; wr99210; yellow cache: cord-304375-l5gvpat3.txt plain text: cord-304375-l5gvpat3.txt item: #471 of 647 id: cord-304424-048xo7jn author: Greninger, Alexander L. title: A decade of RNA virus metagenomics is (not) enough date: 2018-01-15 words: 9614 flesch: 26 summary: Mining of publicly available transcriptome data has contributed greatly to the discovery of novel RNA viruses (Basler et al., 2005; Schomacker et al., 2004) . The greatest paradigm shifter in recent viral metagenomics work has been the sheer number and diversity of novel RNA viruses present in arthropods and invertebrates. keywords: acute; additional; allander; amplification; analysis; ancient; approaches; arenavirus; arthropods; assembly; astrovirus; author; available; background; bacterial; bacteriophage; bats; best; biology; bovine; cdna; cell; century; characterization; clinical; committee; common; complete; coronavirus; culture; current; data; day; decade; dependent; depth; derisi; detection; direct; discoveries; discovery; disease; divergent; diverse; diversity; dna; dnase; draft; environmental; et al; eukaryotic; evolution; evolutionary; families; family; far; feces; field; fig; function; generation; genes; genetic; genome; greninger; greninger et; growth; hepatitis; high; host; human; ictv; identification; incredible; infection; international; known; koonin; koonin et; krishnamurthy; li et; libraries; library; like; likely; low; mass; metagenomics; methods; modifications; molecular; mrna; multiple; n.d; naccache; naccache et; nanopore; ncbi; negative; new; nomenclature; non; novel; novel rna; novel viruses; nucleic; number; organisms; origin; pace; particles; parvovirus; past; pcr; phages; picornaviridae; picornavirus; plant; positive; potential; preparation; present; profiling; protein; protocol; rapid; reads; recent; recombination; recovery; replication; respiratory; review; rna; rna viral; rna viruses; samples; screens; sensitivity; sequence; sequencing; shi et; shotgun; single; species; spectrometry; stool; studies; taxonomy; test; thousands; time; transcriptome; treatment; understanding; viral; virology; virome; virus metagenomics; viruses; wastewater; work; world; years; zika cache: cord-304424-048xo7jn.txt plain text: cord-304424-048xo7jn.txt item: #472 of 647 id: cord-304685-s0bfhwtn author: None title: Susceptibility to cytotoxic T lymphocyte-induced apoptosis is a function of the proliferative status of the target date: 1994-02-01 words: 3701 flesch: 44 summary: We therefore, sought to determine whether the susceptibility of target cells to CTLinduced apoptosis was cdl cycle-related and show here that it is. Effector Cells. Target cells were processed and assayed as in Fig. 1 in AIM-V media without or with 10% FBS as indicated. keywords: 3t3; a20; a31; apoptosis; assay; cells; competence; ctl; cycle; cytotoxic; day; dna; early; expression; fbs; fig; fragmentation; growth; herpes; hsv-1; immediate; infected; infection; l929; lcmv; level; log; lysis; membrane; myc; p815; phase; protein; quiescent; release; serum; simplex; state; susceptibility; susceptible; synthesis; target; time; type; viral; virus; viruses cache: cord-304685-s0bfhwtn.txt plain text: cord-304685-s0bfhwtn.txt item: #473 of 647 id: cord-304794-z2kx314h author: Métifiot, Mathieu title: G-quadruplexes in viruses: function and potential therapeutic applications date: 2014-11-10 words: 9130 flesch: 38 summary: Interestingly, TAg can unwind G4 DNA structures (122, 123) ; thus, it might play a crucial role in regulating replication as well as early and late transcription. Even if a 200-bp cis-regulatory element is necessary for efficient initiation, G4 structure formation at ORIs might be the key to selecting the firing origins (67, 68) . keywords: acid; activity; affinity; agents; anti; antigen; antiviral; applications; aptamers; binding; cancer; cells; cellular; central; circular; class; coding; complex; conformations; control; crucial; cycle; dependent; development; dimeric; dimerization; disease; dna; domain; double; drug; early; element; end; expression; family; figure; formation; forms; function; g4s; gene; genome; genomic; guanine; guanosine; hav; helicase; high; hiv; hpv; human; immune; immunodeficiency; important; infection; inhibition; inhibitors; instability; integrase; interaction; isolated; ligands; long; loop; mechanism; molecular; molecule; motifs; mrna; myc; ncp7; nef; new; non; novel; ns1; nuclear; nuclease; nucleic; nucleocapsid; nucleotides; oligonucleotide; origin; parallel; phase; polymerase; potential; presence; present; promoter; properties; protease; protein; quadruplex; quartet; recombination; region; regulation; regulatory; repeat; replication; retroviral; reverse; rich; rna; rnase; role; sars; sequences; single; small; specific; strand; structures; studies; sv40; switch; targeting; targets; telomerase; telomeric; terminal; tetrads; therapeutic; transcriptase; transcription; translation; type; upstream; viral; virus; viruses; vitro; vivo cache: cord-304794-z2kx314h.txt plain text: cord-304794-z2kx314h.txt item: #474 of 647 id: cord-304869-l6a68tqn author: Bielińska-Wąż, Dorota title: Graphical and numerical representations of DNA sequences: statistical aspects of similarity date: 2011-08-28 words: 15415 flesch: 58 summary: Though q may be easily increased up to higher-orders, as we shall see, the information about similarity sequences is specific enough up to the fourth order. Two bases belonging to different sequences, both located on the p-th positions are represented by a pair of numbers, {x p , n p }. keywords: alignment; alternative; analysis; aspects; authors; axis; bases; case; characteristic; clusterization; component; consequence; considered; correspond; curve; degeneracy; density; descriptors; differences; different; dissimilarity; distributions; dna sequences; eigenvalues; equal; example; exon; fig; function; gene; graphical; graphical representation; graphs; histone; horizontal; human; identical; information; larger; lengths; lines; long; mass; matrices; matrix; mean; measure; methods; model; molecular; moments; nandy; new; non; number; numerical; objects; ones; order; pair; particular; parts; plots; properties; range; related; relations; representation; resolution; results; second; sequences; set; similarity; similarity measure; smaller; space; species; spectral; spectrum; standard; statistical; structure; studies; table; values; vectors; visualization; walk; way; work; zero cache: cord-304869-l6a68tqn.txt plain text: cord-304869-l6a68tqn.txt item: #475 of 647 id: cord-305024-343l2ha7 author: Sonntag, Michael title: New Adenovirus in Bats, Germany date: 2009-12-17 words: 1690 flesch: 33 summary: The obtained sequence of a fragment of the DNA polymerase gene (≈550 bp) indicated that the viruses were a novel virus type within the genus Mastadenovirus and was tentatively named bat adenovirus 2 (bat AdV-2) strain P. pipistrellus virus 1 (PPV1). To obtain additional sequence information of bat AdV-2, a random PCR method (virus discovery based on cDNA-amplifi ed fragment length polymorphism) (11) was applied, which showed >20 adenovirus sequences distributed over the genome (Figure 1, panel B) . keywords: abs; adenovirus; amplifi; animal; bats; cation; cells; copy; detection; dna; europe; figure; fragment; gene; generic; germany; host; infections; isolated; isolation; new; partial; pathogens; pcr; pipistrellus; polymerase; samples; sequence; species; tissue; vespertilionid; virus; viruses cache: cord-305024-343l2ha7.txt plain text: cord-305024-343l2ha7.txt item: #476 of 647 id: cord-305143-mqd4ioj4 author: Zmasek, Christian M. title: Classification of human Herpesviridae proteins using Domain-architecture Aware Inference of Orthologs (DAIO) date: 2019-01-06 words: 7272 flesch: 36 summary: Protein domains were analyzed using hmmscan from HMMER v3.1b2 (Eddy, 2011) and the Pfam 31.0 database (Finn et al., 2016) . The ortholog conjecture is untestable by the current gene ontology but is supported by RNA sequencing data ICP27 interacts with the Cterminal domain of RNA polymerase II and facilitates its recruitment to herpes simplex virus 1 transcription sites, where it undergoes proteasomal degradation during infection Herpesvirus systematics Evolution of the herpesviruses Fast and accurate phylogeny minimum-evolution principle Specific inhibition of herpes simplex virus DNA polymerase by helical peptides corresponding to the subunit interface Accelerated profile HMM searches Phylogenomics: improving functional predictions for uncharacterized genes by evolutionary analysis The Pfam protein families database: towards a more sustainable future Distinguishing homologous from analogous proteins Construction and properties of a mutant of herpes simplex virus type 1 with glycoprotein H coding sequences deleted Multiple functions of DNA polymerases Transcriptional analysis of the murine cytomegalovirus HindIII-I region: identification of a novel immediate-early gene region Human herpesvirus 6 open reading frame U12 encodes a functional beta-chemokine receptor Evolutionary history and functional implications of protein domains and their combinations in eukaryotes Orthologs and paralogs -we need to get it right MAFFT multiple sequence alignment software version 7: improvements in performance and usability A comparative study of uracil-DNA glycosylases from human and herpes simplex virus type 1 aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity A herpes simplex virus mutant in which glycoprotein D sequences are replaced by beta-galactosidase sequences binds to but is unable to penetrate into cells Characterization of the protease and other products of aminoterminus-proximal cleavage of the herpes simplex virus 1 UL26 protein Intranuclear delivery of an antiviral peptide mediated by the B subunit of Escherichia coli heatlabile enterotoxin keywords: addition; alignment; alphaherpesvirinae; analysis; approach; architecture; associated; available; aware; beta-; betaherpesvirinae; cell; classification; cmv; common; conserved; contrast; corresponding; cytomegalovirus; daio; data; database; different; distribution; dna; dna polymerase; domain; domain architecture; duplications; et al; eukaryotic; events; evolution; evolutionary; example; expression; factor; families; family; fig; functional; gammaherpesvirinae; gene; genome; glycoprotein; glycosylase; groups; herpesviridae; herpesviruses; history; host; human; inference; members; model; multifunctional; multiple; names; new; novel; orthologs; pfam; phylogenetic; phylogeny; polymerase; present; processivity; protein; rearrangements; receptor; regulator; related; replication; rna; sequence; simplex; simplexvirus; single; sog; sogs; species; specific; subunit; suffix; table; taxonomic; tegument; terminal; tree; type; uracil; us22; vipr; viral; work; zmasek cache: cord-305143-mqd4ioj4.txt plain text: cord-305143-mqd4ioj4.txt item: #477 of 647 id: cord-305872-66vij492 author: Caasi, Donna Ria J. title: A multi-target, non-infectious and clonable artificial positive control for routine PCR-based assays date: 2013-09-05 words: 4835 flesch: 39 summary: APCs will streamline and standardize routine PCR, improve reliability and biosafety, and create opportunities for development and commercialization of new synthetic positive control sequences. An array of APC priming sequences from different organisms and/or previously tested primers can be accommodated in a large and flexible number of positive control targets. keywords: amplification; analysis; apc; apcs; artificial; biosafety; bydv; charrel; controls; design; detection; different; dna; energy; et al; expected; fig; forward; gene; infected; inserts; kcal; mol; mosaic; nad5; new; number; oklahoma; optimal; pathogens; pcr; plant; plasmid; plot; positive; positive controls; possible; primer; product; reaction; reference; restriction; reverse; sample; sbwmv; secondary; sequences; sets; sites; size; structure; subopt; supplementary; synthesis; synthetic; table; targets; trimv; use; virus; viruses; wheat; wsmv cache: cord-305872-66vij492.txt plain text: cord-305872-66vij492.txt item: #478 of 647 id: cord-305973-i3raopi6 author: Perley, Casey C. title: Anti-HFRS Human IgG Produced in Transchromosomic Bovines Has Potent Hantavirus Neutralizing Activity and Is Protective in Animal Models date: 2020-05-07 words: 8070 flesch: 42 summary: Human IgG purified from the LNP-formulated animal (SAB-159), had anti-HTNV neutralizing antibody titers >100,000. Similarly, marmosets administered SAB-159 had ∼10-fold reduced levels of anti-HTNV antibody after HTNV challenge. keywords: 2014a; activity; adjuvant; andv; animal; antibodies; antibody; assay; blood; bovine; brocato; cattle; cells; challenge; clinical; concentration; control; data; day; days; device; disease; dna; dna vaccine; dose; double; elisa; escape; et al; exposure; figure; fold; h304y; hamsters; hantaan; hantavirus; hfrs; high; higher; hooper; hooper et; htnv; human; igg; immunoglobulin; infected; infection; k795q; lethal; levels; lnp; mab; marmosets; material; models; monoclonal; multiple; mutants; mutation; nau; need; negative; neutralization; neutralizing; non; normal; pfu; plasma; plasmid; polyclonal; post; potency; potent; product; protective; pseudovirions; psvna; pulmonary; purified; puuv; pwrg; research; response; sab-159; segment; sera; serum; single; specific; study; syndrome; tcb; titers; treatment; trial; use; vaccination; vaccine; values; virus; viruses; weeks cache: cord-305973-i3raopi6.txt plain text: cord-305973-i3raopi6.txt item: #479 of 647 id: cord-306059-plsspth8 author: Liao, Bo title: Coronavirus phylogeny based on 2D graphical representation of DNA sequence date: 2006-06-02 words: 1622 flesch: 58 summary: In recent years several authors outlined different graphical representation of DNA sequences based on 2D, 3D, or 4D. 29, 33 Based on these graphical representation several authors outlined some approaches to make comparison of DNA sequences keywords: alignment; analysis; coronavirus; curves; different; distance; dna; evolutionary; figure; genomes; graphical; matrix; methods; multiple; parameters; phylogenetic; representation; sequences; species; tree cache: cord-306059-plsspth8.txt plain text: cord-306059-plsspth8.txt item: #480 of 647 id: cord-306104-hezi2tf9 author: Abad-Valle, Patricia title: Genosensor on gold films with enzymatic electrochemical detection of a SARS virus sequence() date: 2005-05-15 words: 7155 flesch: 51 summary: key: cord-306104-hezi2tf9 authors: Abad-Valle, Patricia; Fernández-Abedul, M. Teresa; Costa-García, Agustín title: Genosensor on gold films with enzymatic electrochemical detection of a SARS virus sequence() date: 2005-05-15 journal: Biosens Bioelectron DOI: 10.1016/j.bios.2004.10.019 sha: doc_id: 306104 cord_uid: hezi2tf9 A hybridisation-based genosensor was designed on a 100 nm sputtered gold film. In this paper, a DNA hybridisation assay with enzymatic electrochemical detection was carried out on a 100 nm sputtered gold film that allows working with small volumes. keywords: -naphthol; acid; agent; albumin; area; assay; background; base; biotin; biotinylated; blocking; buffer; case; cleaning; complementary; concentration; detection; different; dna; drop; electrochemical; electrodes; enzymatic; enzyme; et al; evaporation; fig; film; gold; group; hcl; hexanethiol; higher; hybridisation; immobilisation; indigo; interaction; measurements; min; mismatch; nucleic; oligonucleotide; order; place; potential; probe; procedure; results; room; sars; sequence; signal; similar; solution; strand; streptavidin; study; substrate; surface; target; temperature; thiol; time; tris; use; volume; water cache: cord-306104-hezi2tf9.txt plain text: cord-306104-hezi2tf9.txt item: #481 of 647 id: cord-306175-p5rtp31m author: Weissbrich, Benedikt title: Frequent detection of bocavirus DNA in German children with respiratory tract infections date: 2006-07-11 words: 3232 flesch: 52 summary: Respiratory tract infections are a major cause of human morbidity and are caused by a broad spectrum of microbial agents. Viruses account for the largest number of respiratory tract infections. keywords: age; assay; association; bocavirus; children; clinical; data; detection; different; diseases; distribution; dna; frequency; germany; hbov; high; human; infants; infections; influenza; lower; median; npa; npas; number; patients; pcr; positive; possible; previous; products; respiratory; rsv; samples; screening; studies; study; tract; viruses; years cache: cord-306175-p5rtp31m.txt plain text: cord-306175-p5rtp31m.txt item: #482 of 647 id: cord-306754-qohrnpgq author: Lee, Justin S. title: Targeted Enrichment for Pathogen Detection and Characterization in Three Felid Species date: 2017-05-23 words: 7194 flesch: 44 summary: Despite this limitation, it is encouraging that although the percentage of on-target reads for most samples was low, the number of pathogen reads was sufficient to accurately characterize the pathogens in most samples analyzed. Both DNA and RNA pathogens were detected in this study, although this method was more readily applied to the detection of DNA genomes. keywords: abundance; acids; alignment; analysis; assays; average; capture; cat; cats; cdna; clinical; concentration; copies; copy; data; depth; detection; diagnostic; diversity; dna; domestic; enrichment; feline; fig; fiv; fold; following; gapdh; generation; genome; genomic; high; host; inc; increase; libraries; library; low; methods; multiplex; ngs; nucleic; number; pathogens; pcr; plvb; positive; preparation; present; probe; proportion; protocol; quality; range; reads; reference; relative; rna; samples; sequences; sequencing; species; specific; standard; step; study; table; target; targeted; taxa; technologies; technology; tgc; total; traditional; unenriched; veterinary; viral; virus cache: cord-306754-qohrnpgq.txt plain text: cord-306754-qohrnpgq.txt item: #483 of 647 id: cord-306780-9xelf8oh author: Dale, Timothy D. title: Enhancement of wildlife disease surveillance using multiplex quantitative PCR: development of qPCR assays for major pathogens in UK squirrel populations date: 2016-07-28 words: 6936 flesch: 40 summary: When viral loads were calculated as RQ values, the correlation coefficients for comparison of uniplex and multiplex assays were r = 1.00 and 1.00 (n = 8) for grey squirrel SQPV and SADV assays and r = 0.85 and 1.00 (n = 8) for red squirrel SQPV and SADV assays, respectively. (2010) SYBR® green assay, showing good qualitative agreement; k value (agreement) of 0.75 (n = 7) and 1.00 (n = 12) for grey and red squirrel assays, respectively. keywords: adenovirus; amplification; arm; assays; atkin; blood; comparison; control; copies; cutaneous; data; detection; developed; development; diagnostic; disease; dna; endogenous; epidemiology; et al; everest; fig; gastrointestinal; gene; grey; high; highest; individuals; infected; infection; lesions; low; mean; molecular; mortality; multiplex; negative; online; pathogen; positive; presence; prevalence; primer; probe; qpcr; quantitative; quantity; reaction; red; red squirrels; reference; resource; results; sadv; samples; sciurus; sensitivity; sequences; skin; species; specific; sqpv; squirrelpox; squirrels; standard; studies; surveillance; swabs; target; tem; time; tissue; uniplex; use; values; viral; virus; vulgaris; wildlife cache: cord-306780-9xelf8oh.txt plain text: cord-306780-9xelf8oh.txt item: #484 of 647 id: cord-306798-f28264k3 author: Walsh, Geraldine M. title: Blood-Borne Pathogens: A Canadian Blood Services Centre for Innovation Symposium date: 2016-02-23 words: 15316 flesch: 41 summary: The 2003 SARS and 2014 Ebola outbreaks illustrate the potential of epidemics unlikely to be transmitted by blood transfusion but disruptive to blood systems. Dr Turner began by mentioning some milestones in the history of blood transfusion, highlighting a number of events that took place in his adopted home city of Edinburgh, Scotland. keywords: adult; africa; agents; american; analysis; antibodies; approach; areas; available; babesia; babesiosis; bacterial; biological; blood; blood cells; blood safety; blood services; blood supply; blood transfusion; canada; canadian; canadian blood; care; cases; cbs; cells; cerus; chagas; challenges; chikv; clinical; components; concentrates; context; control; cost; countries; cruzi; culture; current; data; decision; dengue; detection; developed; development; different; differentiation; disease; dna; dodd; donation; donor; dr naccache; ebola; economic; effective; efforts; eids; emergence; endemic; environment; epidemic; erythroid; established; evidence; example; factors; fearon; framework; future; generation; genome; global; group; hbv; hcv; health; healthcare; hematopoietic; hepatitis; high; hiv; human; impact; important; inactivation; infected; infectious; infectious disease; information; infrastructure; intercept; international; interventions; laboratory; lack; leone; liberia; light; likely; making; marrow; mcgeer; medical; medicine; mirasol; naccache; national; new; ngs; north; novel; number; operators; order; outbreaks; overview; past; pathogen; pathogen inactivation; patients; plasma; platelet; platform; pluripotent; potential; present; prions; process; products; public; qaly; quality; rapid; rbcs; recent; red blood; reduction; related; research; resources; response; results; riboflavin; risk; rna; safety; sample; schubert; screening; sensitivity; sequence; sequencing; services; sierra; single; species; specific; spread; states; study; supply; support; surveillance; symposium; system; technologies; technology; testing; tests; threats; time; transfusion; transmissible; transmission; travel; treatment; trial; ttis; turner; ucsf; ultraviolet; united; virus; viruses; vivo; west; wnv; world; years cache: cord-306798-f28264k3.txt plain text: cord-306798-f28264k3.txt item: #485 of 647 id: cord-306904-8iteddug author: Uversky, Vladimir N title: Unreported intrinsic disorder in proteins: Building connections to the literature on IDPs date: 2014-12-12 words: 18448 flesch: 37 summary: Digested disorder: quarterly intrinsic disorder digest Digested disorder, issue #2: quarterly intrinsic disorder digest Digested disorder, issue #3: quarterly intrinsic disorder digest Comprehensive comparative assessment of in-silico predictors of disordered regions eIF4B and eIF4G jointly stimulate eIF4A ATPase and unwinding activities by modulation of the eIF4A conformational cycle New initiation factor activity required for globin mRNA translation The mechanism of eukaryotic translation initiation and principles of its regulation Molecular mechanism of scanning and start codon selection in eukaryotes mRNA helicases: the tacticians of translational control The DEAD-box helicase eIF4A: paradigm or the odd one out Exploiting heterogeneous sequence properties improves prediction of protein disorder Predicting intrinsic disorder from amino acid sequence Sequence complexity of disordered protein PONDR-FIT: a meta-predictor of intrinsically disordered amino acids Prediction of protein binding regions in disordered proteins ANCHOR: web server for predicting protein binding regions in disordered proteins Remarkable stabilization of plasminogen activator inhibitor 1 in a molecular sandwich complex Interaction of T4 Furthermore, based on the combination of literature mining and a brief computational analysis 20 hidden gems were found; i.e., papers that missed protein disorder. keywords: ability; able; acid; activation; activities; activity; agreement; aibss; aipl1; alternative; amino; amsh; analysis; anchor; antiviral; apc; apoa; atp; authors; bacteria; bacteriophage; basic; binding; box; catalytic; cell; cellular; chaperone; characterization; coli; common; complex; complexes; computational; conditions; conformational; conserved; creb; crucial; crystal; cspc; curiously; cycle; cyclin; cytoplasmic; defensins; density; dependent; different; direct; diseases; disordered; disordered protein; disordered regions; distinct; dna; dnat; domain; e2f; eif4a; escherichia; et al; eukaryotic; evidence; expression; factor; family; features; field; figure; filament; flexible; formation; forms; frmpd1; functional; fusion; gene; gerd; gp32; half; heat; helicase; helices; helix; highly; host; human; hybrid; idps; immune; immunodeficiency; important; initiation; innate; integrin; interaction; interesting; intrinsic; intrinsic disorder; involved; isoforms; kinase; leading; length; lgn; like; line; lipoprotein; localization; long; loop; major; mavs; mechanisms; member; membrane; mitochondrial; modifications; molecular; motif; mouse; multiple; mutations; new; novel; nuclear; nucleocapsid; number; numerous; osteocalcin; pai-1; papers; pdb; pecam-1; peculiarities; peptide; pho85; phosphatase; phosphorylation; plasma; pondr; possesses; post; potential; predictors; presence; primosome; process; protein; protein c; protein interactions; protein intrinsic; pten; publications; pukovnik; pup; range; recent; receptors; recognition; recombination; regions; regulation; regulatory; related; replication; residues; response; restriction; results; review; rich; rna; role; samhd1; sequence; series; shock; short; signaling; significant; single; sirt1; sirtuins; sites; small; solution; specific; splicing; ssdna; strand; string; structure; study; substrate; subunit; tail; terminal; terminal domain; terminal region; terminus; tetherin; tonb; tpr; transcription; translation; type; ubiquitin; unfolded; uniprot; unreported; unwinding; uvsw; viperin; viral; virus; viruses; wide; xis cache: cord-306904-8iteddug.txt plain text: cord-306904-8iteddug.txt item: #486 of 647 id: cord-307603-uqr6r14u author: Kauppinen, S. title: Locked Nucleic Acid: High-Affinity Targeting of Complementary RNA for RNomics date: 2006 words: 5812 flesch: 32 summary: The focus of this chapter is on LNA antisense, LNA-modified DNAzymes (LNAzymes), LNA-modified small interfering (si)RNA (siLNA), LNA-enhanced expression profiling by real-time RT-PCR and detection and analysis of microRNAs by LNA-modified probes. Several studies in vitro or in cells support the usefulness of LNA antisense for gene silencing (Obika et al. 2001; Hansen et al. 2003) . keywords: acid; activity; affinity; analysis; antisense; applications; base; cells; cleavage; coding; complementary; corresponding; degradation; design; detection; different; dna; duplexes; effects; efficient; elegans; et al; expression; gapmers; gene; genome; growth; high; human; important; improved; increase; inhibition; koshkin; lna; lnas; lnazymes; locked; micrornas; mirnas; mixmers; molecules; monomers; mrna; non; northern; novel; nucleic; obika; oligonucleotides; pcr; petersen; poly(a; potent; probes; profiling; properties; protein; real; recent; recognition; rna; rnai; rnase; sequence; short; significant; silencing; single; sirna; small; splicing; stability; studies; study; sugar; targeting; telomerase; time; transcription; use; vivo; wengel cache: cord-307603-uqr6r14u.txt plain text: cord-307603-uqr6r14u.txt item: #487 of 647 id: cord-307768-xx46w6dc author: Ding, Yun title: From single-molecule detection to next-generation sequencing: microfluidic droplets for high-throughput nucleic acid analysis date: 2017-03-10 words: 9495 flesch: 32 summary: Common actuating sources for such purposes include pneumatic pressure (Unger et al. 2000; Willaime et al. 2006; Zeng et al. 2009 ), mechanical forces , electrical fields (Link et al. 2006) , magnetic fields (Vekselman et al. 2015) , acoustic waves (Collins et al. 2013) , optical traps (Lorenz et al. 2006 ) and thermal gradients (Baroud et al. 2007) . Droplet surface area is nearly minimised by producing spherical ends (Baroud et al. 2010) keywords: ability; accurate; acid; amplification; analysis; applications; approach; aqueous; assays; barcode; beads; biological; cancer; cell; centrifugal; chain; chamber; channel; chemical; chip; complex; components; continuous; control; copyright; cost; critical; current; cycling; data; ddpcr; demand; detection; developments; device; digital; dna; droplet; effect; efficient; egfr; emulsion; encapsulation; et al; example; experimentation; experiments; expression; fashion; fig; flow; formation; formats; fragments; free; functional; gel; generation; genetic; genome; griffiths; gruner; high; hydrogel; immiscible; important; incubation; individual; inlet; integrated; interface; isothermal; key; lamp; large; level; long; loop; magnetic; manner; merging; methods; microfluidic; microparticles; millions; molecular; molecule; multiple; mutations; new; ngs; novel; nucleic; number; oil; oils; operations; packed; pairing; parallel; partitioning; passive; pcr; permission; phase; platform; point; polymerase; pressure; production; quantitative; range; rapid; rare; reaction; read; reagent; recent; ref; respect; reverse; rna; robust; sample; scale; screening; sequencing; short; significant; single; size; small; sorting; standard; step; surface; systems; target; technologies; template; term; throughput; time; timescales; transport; ultra; unique; use; utility; volume; wide; workflows cache: cord-307768-xx46w6dc.txt plain text: cord-307768-xx46w6dc.txt item: #488 of 647 id: cord-307909-7vbxyns0 author: Ronda, Luca title: Rational Design of a User-Friendly Aptamer/Peptide-Based Device for the Detection of Staphylococcus aureus date: 2020-09-02 words: 9360 flesch: 37 summary: Figure 6 shows the image acquired by a scanner/reader of SA23 fluorescent aptamer spotted on a glass slide coated with ns-ZrO 2 for various concentrations, namely 1, 2, 4 and 8 µM. The isotherms showing the adhesion of SA23 aptamer on different substrates are reported in Figure 7 . Circular dichroism experiments were carried out on λ-Cro peptide mutants optimized to interact with the double strand portion of SA23 aptamer in 20 mM phosphate buffer, pH 7.4. keywords: able; absence; acid; adhesion; affinity; approach; aptamer; aptamer complex; atoms; aureus; backbone; bacteria; binding; biosensors; biotin; bonds; care; cell; circular; cluster; coated; code; complex; concentrations; cro; cro protein; data; design; detection; development; device; dichroism; different; displacement; dna; double; electrochemical; electrostatic; figure; films; fluorescein; fluorescence; folding; functionality; helix; high; identification; iia2; iia2 peptide; immobilization; immobilized; incubation; interaction; materials; measurements; methods; microarray; min; molecular; molecules; nucleic; pathogen; pbsm; pdb; peptide; peptide binding; point; potential; promising; protein; rapid; recognition; region; residues; resistant; respect; results; s. aureus; sa23; sa23 aptamer; sa23 short; secondary; sequence; short; signal; simulation; specific; spectra; staphylococcus; staphylococcus aureus; strand; streptavidin; structure; substrate; suitable; surface; system; target; teg; time; trajectory; turn; use; washing; water; zirconia; zro cache: cord-307909-7vbxyns0.txt plain text: cord-307909-7vbxyns0.txt item: #489 of 647 id: cord-307914-lgprrwee author: Bartok, Eva title: Immune Sensing Mechanisms that Discriminate Self from Altered Self and Foreign Nucleic Acids date: 2020-07-14 words: 17786 flesch: 34 summary: Unless modified nucleotides or specific sequences precluding the formation of the complementary strand are used, IVT can potentially generate RIG-I ligands from a variety of templates (Hornung et al., 2006; Kim et al., 2004; Schlee et al., 2009; Both sensors contribute to the immune response to dsRNA viruses, such as reoviridae (Loo et al., 2008) , but RIG-I-mediated sensing dominates the response to many (-) ssRNA viruses such as influenza, which form shorter dsRNA panhandles in their genomes (Rehwinkel et al., 2010; Schlee et al., 2009) , whereas MDA5 has a greater role in the host defense against (+) ssRNA viruses, many of which are known to generate large amounts of dsRNA during replication . keywords: 2'o; accessory; acid; activation; activity; acts; adaptor; adar1; addition; aim2; altered; antiviral; apoptosis; assembly; availability; bacterial; base; binding; box; cap; cap0; caspase; cell; cellular; cgamp; cgas; cleavage; cpg; cyclic; cytokines; cytosolic; cytosolic dna; damage; date; death; defense; deficiency; degradation; dependent; dexd; disease; distinct; distinction; dna; domain; double; downstream; dsrna; editing; effector; endogenous; endolysosome; endosomal; essential; et al; evolutionary; exonuclease; exosome; expression; factor; family; field; figure; finger; form; formation; functions; gao et; gene; genome; genomic; hartmann; helicase; host; human; ifi16; ifn; iii; immune; immunity; important; induced; induction; infection; inflammasome; inflammatory; influenza; innate; innate immune; interaction; interferon; intracellular; irf3; irf5; ivt; kinase; length; lgp2; ligands; like; localization; long; longer; machinery; macrophages; mammalian; mavs; mda5; mechanisms; methylation; mice; modifications; molecular; molecules; monocytes; motifs; mouse; mrna; multiple; murine; necessary; necroptosis; nlrp3; non; note; nuclear; nucleases; nucleic; ostendorf; particular; pathogens; pathway; pcd; pkr; pld3; pld4; pocket; polyi; precise; primary; processing; production; products; protein; pyroptosis; recent; receptor; recognition; regulated; release; replication; reported; research; response; restriction; rich; rig; rna; rnai; rnase; role; rrna; samhd1; schlee; second; secondary; self; self dna; senses; sensing; sensor; sequence; signaling; single; species; specific; ssdna; stimulatory; sting; strand; strategy; structures; studies; study; synthesis; system; termini; terminus; tlr3; tlr7; tlr8; tlr9; toll; transcription; transcripts; translation; trex1; triphosphate; type; unclear; unique; unknown; unmethylated; variants; viral; viral rna; virus; viruses; zcchc3 cache: cord-307914-lgprrwee.txt plain text: cord-307914-lgprrwee.txt item: #490 of 647 id: cord-308497-zltp8ei4 author: Zhu, Kaichun title: A continuous method for the large-scale extraction of plasmid DNA by modified boiling lysis date: 2007-01-31 words: 3536 flesch: 54 summary: During plasmid DNA extraction, the step of lysing bacterial cells without losing plasmids is probably the most critical for downstream processing 8 , as the quantity of plasmid DNA recovered is mostly determined by this step after fermentation 9, 10 . key: cord-308497-zltp8ei4 authors: Zhu, Kaichun; Jin, Huali; He, Zhonghuai; Zhu, Qinghong; Wang, Bin title: A continuous method for the large-scale extraction of plasmid DNA by modified boiling lysis date: 2007-01-31 journal: keywords: antibiotic; appropriate; bacteria; bath; boiling; buffer; cells; centrifugation; coil; critical; culture; dna; extraction; fermentation; fermented; fiber; gene; ice; large; lysis; medium; membrane; method; module; plasmid; plasmid dna; preparation; process; production; protocol; purification; recombinant; scale; step; temperature; therapy; thermal; use; volume; water; yield cache: cord-308497-zltp8ei4.txt plain text: cord-308497-zltp8ei4.txt item: #491 of 647 id: cord-308687-wrzzb9cy author: Brunner, Jesse L. title: Pooled samples and eDNA-based detection can facilitate the “clean trade” of aquatic animals date: 2020-06-24 words: 6490 flesch: 35 summary: Here I present formulae for pooled individual samples (e.g,. swabs) and eDNA samples collected from finite populations and discuss key assumptions and considerations for their use with a focus on detecting Batrachochytrium salamandrivorans, an emerging pathogen that threatens global salamander diversity. (12)-(14) provides a useful starting point, illustrating how eDNA concentrations, and thus per sample detection www.nature.com/scientificreports www.nature.com/scientificreports/ probabilities, vary with volume, time, and rates of shedding and degradation (Fig. 3) . keywords: amphibian; analyte; animals; aquatic; assumption; batrachochytrium; bsal; captive; case; chytrid; clean; consignments; degradation; dendrobatidis; dependent; detection; diagnostic; disease; edna; environmental; fig; formula; fungus; important; increase; individual; infected; infection; international; introduction; key; large; level; likely; live; low; material; model; number; pathogen; pcr; pet; pooled; pooling; pools; populations; positive; probability; rare; rates; results; risk; salamanders; salamandrivorans; samples; sampling; screening; sensitivity; settings; shedding; size; small; species; specificity; spread; surveillance; swabs; target; taxa; tests; time; trade; use; volume; water; wildlife; www.nature.com/scientificreports/ cache: cord-308687-wrzzb9cy.txt plain text: cord-308687-wrzzb9cy.txt item: #492 of 647 id: cord-309083-ew9cwiw0 author: Su, Hang title: Cyprinid viral diseases and vaccine development date: 2018-09-07 words: 11170 flesch: 39 summary: In the late 1990s, the commercialization of fish vaccines developed rapidly and as a result, there are 38 global approvals in 2003, over 100 in 2006, and over 140 in 2012 according to incomplete statistics [7] . In the following decades, many researchers make extensive explorations of the preparation of fish vaccines to prevent the sudden emergence of fish diseases that are difficult to control with drugs. keywords: addition; adjuvant; administration; amplification; analysis; animals; antigen; antiviral; aquaculture; aquatic; assay; attenuated; auratus; bacterial; carassius; carp; carp virus; carpio; cells; china; clinical; common; common carp; complete; control; crucian; ctenopharyngodon; cultured; cyhv-3; cyprinid; cyprinus; detection; development; diagnosis; different; disease; dna; dna vaccine; edema; effect; effective; emergence; environmental; europe; expression; factors; family; farmed; farming; fish; fishes; food; freshwater; gcrv; gene; genetic; genome; gill; global; goldfish; grass; grass carp; hematopoietic; hemorrhagic; herpesvirus; high; host; idella; identification; ifn; ihnv; immersion; immune; immunity; immunization; immunized; inactivated; industry; infected; infection; innate; interferon; international; isolates; isothermal; khv; khvd; kidney; koi; koi herpesvirus; ksd; large; like; live; loop; major; method; molecular; mortality; mucosal; mucus; mykiss; necrosis; necrosis virus; new; oral; ornamental; pathogens; pcr; polymerase; potential; pox; preparation; present; prevention; protection; protein; quality; quantitative; rainbow; rapid; real; recent; receptors; recognition; recombinant; relative; reovirus; researches; responses; rhabdovirus; rig; sequence; shows; signs; skin; sleepy; species; specific; spleen; spring; studies; subunit; surface; svcv; symptoms; system; technology; temperature; time; tissues; toll; trout; type; vaccination; vaccine; vhsv; viraemia; viral; virus; viruses; water cache: cord-309083-ew9cwiw0.txt plain text: cord-309083-ew9cwiw0.txt item: #493 of 647 id: cord-309642-wwaa6ls0 author: Potgieter, Leon N.D. title: Pathogenesis of Viral Infections date: 1986-11-30 words: 10859 flesch: 33 summary: The respiratory tract is a very common site at which virus infections are initiated, usually as the result of airborne infections. The inert superficial protective layers of the intact skin usually are impervious to virus infection. keywords: activation; activity; alterations; alveolar; animals; antibody; antigens; bacterial; bluetongue; bovine; canine; cause; cells; cellular; central; certain; certain viruses; changes; cns; complement; complex; complexes; cytotoxicity; defective; dengue; destruction; development; diarrhea; direct; disease; dissemination; distemper; dna; early; effect; endocrine; envelope; epithelial; event; evidence; example; expression; factor; feline; fetal; fetus; function; genetic; genome; growth; herpesviruses; host; human; hypothesis; immune; immunity; immunopathology; immunosuppression; impaired; important; infected; infection; influenza; injury; instances; integration; interferon; intracellular; known; lesions; leukemia; lymphocytes; macrophages; manner; material; mechanisms; membrane; metabolism; mice; nature; nervous; neurons; nonpermissive; normal; number; oncogene; oncogenesis; oncogenic; organ; particles; particular; parvovirus; pathogenesis; pathogenicity; penetration; peritonitis; permeability; plasma; possible; pregnancy; presence; production; progeny; protein; pulmonary; rabies; receptors; replication; resistance; respiratory; response; restricted; result; retrovirus; rna; role; secondary; site; species; specific; spread; studies; suppressor; surface; susceptibility; susceptible; system; tissue; tract; transformation; transformed; tropism; turn; type; viral; virus; virus infection; virus replication; viruses cache: cord-309642-wwaa6ls0.txt plain text: cord-309642-wwaa6ls0.txt item: #494 of 647 id: cord-310268-8q4tk6fd author: Zhu, Qinchang title: DNA Aptamers in the Diagnosis and Treatment of Human Diseases date: 2015-11-25 words: 8657 flesch: 42 summary: DNA polymerase In vitro selection of RNA molecules that bind specific ligands Selection in vitro of single-stranded DNA molecules that fold into specific ligand-binding structures Selection of single-stranded DNA molecules that bind and inhibit human thrombin Aptamers as therapeutics Single-Stranded DNA Aptamers against Pathogens and Toxins: Identification and Biosensing Applications A Highlight of Recent Advances in Aptamer Technology and Its Application Aptamers and their biological applications Applications of aptamers for chemistry analysis, medicine and food security Outlook for Aptamers after Twenty Five Years RNA aptamers as genetic control devices: The potential of riboswitches as synthetic elements for regulating gene expression Pegaptanib (Macugen): Treating neovascular age-related macular degeneration and current role in clinical practice Aptamer nanomedicine for cancer therapeutics: Barriers and potential for translation Aptamers Market-Global Forecast to 2020 Post-SELEX chemical optimization of a trypanosome-specific RNA aptamer Building oligonucleotide therapeutics using non-natural chemistries Inhibition of HIV-1 protease expression in T cells owing to DNA aptamer-mediated specific delivery of siRNA Improving the Stability of Aptamers by Chemical Modification Influence of the 2 1 -hydroxyl group conformation on the stability of A-form helices in RNA Oligonucleotide Aptamers: New Tools for Targeted Cancer Therapy In vitro selection of functional nucleic acids Aptamers Overview: Selection, Features and Applications Single-stranded DNA (ssDNA) production in DNA aptamer generation Development of a novel DNA aptamer ligand targeting to primary cultured tumor endothelial cells by a cell-based SELEX method DNA aptamer evolved by cell-SELEX for recognition of prostate cancer Development of an efficient targeted cell-SELEX procedure for DNA aptamer reagents A two-step stimulus-response cell-SELEX method to generate a DNA aptamer to recognize inflamed human aortic endothelial cells as a potential in vivo molecular probe for atherosclerosis plaque detection Evolution of DNA aptamers through in vitro metastatic-cell-based systematic evolution of ligands by exponential enrichment for metastatic cancer recognition and imaging In silico maturation of binding-specificity of DNA aptamers against Proteus mirabilis A novel protocol for generating high-affinity ssDNA aptamers by using alternating magnetic fields Magnetic-assisted rapid aptamer selection (MARAS) for generating high-affinity DNA aptamer using rotating magnetic fields Rapid one-step selection method for generating nucleic acid aptamers: Development of a DNA aptamer against alpha-bungarotoxin Array-based evolution of DNA aptamers allows modelling of an explicit sequence-fitness landscape Single-Round Patterned DNA Library Microarray Aptamer Lead Identification The application of a modified nucleotide in aptamer selection: Novel thrombin aptamers containing 5-(1-pentynyl)-2 1 -deoxyuridine Molecular evolution of functional nucleic acids with chemical modifications Novel combinatorial selection of phosphorothioate oligonucleotide aptamers Chemically modified nucleic acid aptamers for in vitro selections: Evolving evolution Effect of 3 1 -end capping of aptamer with various 2 1 ,4 1 -bridged nucleotides: Enzymatic post-modification toward a practical use of polyclonal aptamers Application of locked nucleic acids to improve aptamer in vivo stability and targeting function Locked nucleic acids: A promising molecular family for gene-function analysis and antisense drug development Selection of LNA-containing DNA aptamers against recombinant human CD73 Synthesis and properties of mirror-image DNA Simple PEG Modification of DNA Aptamer Based on Copper Ion Coordination for Tumor Targeting A multivalent DNA aptamer specific for the B-cell receptor on human lymphoma and leukemia Affinity analysis of DNA aptamer-peptide interactions using gold nanoparticles Aptamer-functionalized PEG-PLGA nanoparticles for enhanced anti-glioma drug delivery Selective Delivery of an Anticancer Drug with Aptamer-Functionalized Liposomes to Breast Cancer Cells in vitro and in vivo DNA aptamer-micelle as an efficient detection/delivery vehicle toward cancer cells Applications of Aptasensors in Clinical Diagnostics In vitro selection of DNA aptamers to anthrax spores with electrochemiluminescence detection DNA Aptamer Selected against Pancreatic Ductal Adenocarcinoma for in vivo Imaging and Clinical Tissue Recognition Cell-SELEX based selection and characterization of DNA aptamer recognizing human hepatocarcinoma Molecular Recognition of Human Liver Cancer Cells Using DNA Aptamers Generated via Cell-SELEX Cell-SELEX based selection and optimization of DNA aptamers for specific recognition of human cholangiocarcinoma QBC-939 cells A cell-based single-stranded DNA aptamer specifically targets gastric cancer A DNA aptamer with high affinity and specificity for molecular recognition and targeting therapy of gastric cancer In Vitro Selection of DNA Aptamers for Metastatic Breast Cancer Cell Recognition and Tissue Imaging Selection of DNA Aptamers against Glioblastoma Cells with High Affinity and Specificity DNA aptamers that target human glioblastoma multiforme cells overexpressing epidermal growth factor receptor variant III in vitro Selection of DNA Aptamers against Epithelial Cell Adhesion Molecule for Cancer Cell Imaging and Circulating Tumor Cell Capture Probing high affinity sequences of DNA aptamer against VEGF165 Selection of DNA aptamers against VEGF(165) using a protein competitor and the aptamer blotting method In Vitro Selection of DNA Aptamers to Glioblastoma Multiforme Selection and characterization of DNA aptamers for use in detection of avian influenza virus H5N1 Development of a fluorescent enzyme-linked DNA aptamer-magnetic bead sandwich assay and portable fluorometer for sensitive and rapid leishmania detection in sandflies Label-free detection of prion protein with its DNA aptamer through the formation of T-Hg2+-T configuration Application of a novel in vitro selection technique to isolate and characterise high affinity DNA aptamers binding mammalian prion proteins Structural basis for discriminatory recognition of Plasmodium lactate dehydrogenase by a DNA aptamer Screening of DNA Aptamers against Myoglobin Using a Positive and Negative Selection Units Integrated Microfluidic Chip and Its Biosensing Application Development of a DNA aptamer for direct and selective homocysteine detection in human serum DNA aptamer-based detection of prostate cancer DNA aptamers against the MUC1 tumour marker: Design of aptamer-antibody sandwich ELISA for the early diagnosis of epithelial tumours Sensitive point-of-care monitoring of cardiac biomarker myoglobin using aptamer and ubiquitous personal glucose meter C-reactive protein, inflammation and coronary heart disease DNA aptamer-based surface plasmon resonance sensing of human C-reactive protein Homocysteine level and coronary heart disease incidence: A systematic review and meta-analysis Thrombin, inflammation, and cardiovascular disease: An epidemiologic perspective Aptamer binding assays for proteins: The thrombin example-A review Design strategies for aptamer-based biosensors Aptamer-based molecular recognition for biosensor development Aptamer in bioanalytical applications Aptamer-based biosensors for biomedical diagnostics Structure-switching signaling aptamers Structure-switching signaling aptamers: Transducing molecular recognition into fluorescence signaling Enzyme-Linked Small-Molecule Detection Using Split Aptamer Ligation Target-induced conjunction of split aptamer fragments and assembly with a water-soluble conjugated polymer for improved protein detection An aptamer-based biosensor for sensitive thrombin detection keywords: acid; affinity; antibodies; antibody; application; aptamers; as1411; aunps; beads; binding; biomarkers; cancer; cells; change; chemical; clinical; cost; delivery; detection; development; diagnosis; diseases; dissociation; dna; dna aptamers; drug; evolution; example; factor; figure; fluorescence; form; generation; gold; high; human; imaging; immobilized; increase; library; like; magnetic; metastatic; method; mode; modification; modified; molecular; molecules; myoglobin; nanoparticles; negative; non; nuclease; nucleic; oligonucleotides; pcr; pdac; phase; potential; process; promising; protein; rapid; recognition; rna; samples; sandwich; selected; selection; selex; sequences; signal; single; small; specific; specificity; ssdna; stability; step; structure; studies; surface; switching; target; targeted; targeting; therapeutic; therapy; thrombin; tissue; tools; treatment; trial; tumor; use; virus; vivo; way; xq-2d cache: cord-310268-8q4tk6fd.txt plain text: cord-310268-8q4tk6fd.txt item: #495 of 647 id: cord-310734-6v7oru2l author: Bolatti, Elisa M. title: A Preliminary Study of the Virome of the South American Free-Tailed Bats (Tadarida brasiliensis) and Identification of Two Novel Mammalian Viruses date: 2020-04-09 words: 8482 flesch: 37 summary: Ubiquitous Viruses With Small Genomes and a Diverse Host Range Determination of the origin cleavage and joining domain of geminivirus Rep proteins Identification of the nicking tyrosine of geminivirus Rep protein A single rep protein initiates replication of multiple genome components of faba bean necrotic yellows virus, a single-stranded DNA virus of plants Geminivirus replication proteins are related to prokaryotic plasmid rolling circle DNA replication initiator proteins Conserved sequence and structural motifs contribute to the DNA binding and cleavage activities of a geminivirus replication protein Functional analysis of a novel motif conserved across geminivirus Rep proteins A new superfamily of putative NTP-binding domains encoded by genomes of small DNA and RNA viruses A common set of conserved motifs in a vast variety of putative nucleic acid-dependent ATPases including MCM proteins involved in the initiation of eukaryotic DNA replication The oligomeric Rep protein of Mungbean yellow mosaic India virus (MYMIV) is a likely replicative helicase DNA Helicase Activity Is Associated with the Replication Initiator Protein Rep of Tomato Yellow Leaf Curl Geminivirus Contaminating viral sequences in high-throughput sequencing viromics: A linkage study of 700 sequencing libraries Clinical Metagenomic Next-Generation Sequencing for Pathogen Detection Development and Optimization of Metagenomic Next-Generation Sequencing Methods for Cerebrospinal Fluid Diagnostics Quality control implementation for universal characterization of DNA and RNA viruses in clinical respiratory samples using single metagenomic next-generation sequencing workflow Metagenomic Analysis of Viruses from Bat Fecal Samples Reveals Many Novel Viruses in Insectivorous Bats in China Evaluation of rapid and simple techniques for the enrichment of viruses prior to metagenomic virus discovery Limited reverse transcriptase activity of phi29 DNA polymerase Deciphering the bat virome catalog to better understand the ecological diversity of bat viruses and the bat origin of emerging infectious diseases High diversity of rabies viruses associated with insectivorous bats in Argentina: The analysis also identified (although in low counts) viral sequences related to the family Alloherpesviridae, which infects fish and amphibians. keywords: acid; addition; alignments; american; amino; analysis; arrows; assembly; associated; background; bat; bat species; bats; binding; blue; brasiliensis; centrifuge; characteristic; characterization; circular; classification; classified; complete; complete genome; contigs; criteria; data; demarcation; detection; different; diversity; dna; domain; families; family; figure; filtering; geminivirus; gemykibivirus; genbank; gene; genome; genomoviridae; genus; green; helicase; high; histograms; host; human; identification; identity; insectivorous; laboratory; level; likely; mammalian; matrices; maximum; metagenomic; motif; multiple; muscle; new; ngs; non; novel; novo; nucleic; nucleotide; number; oral; pairs; pairwise; papillomaviridae; papillomavirus; phylogenetic; presence; present; protein; putative; pvs; read; read pairs; reference; related; rep; replication; samples; sequence; sequencing; single; skin; south; species; studies; study; support; swab; system; table; tadarida; taxonomic; tbgkyv1; tbrapv1; total; type; typical; values; version; viral; viral families; virome; viruses; workflow; world; zoonotic cache: cord-310734-6v7oru2l.txt plain text: cord-310734-6v7oru2l.txt item: #496 of 647 id: cord-311023-4ge4glq9 author: Hsieh, Yi-Fan title: A Lego(®)-like swappable fluidic module for bio-chem applications date: 2014-12-01 words: 3398 flesch: 45 summary: Cancer cell separator using size-dependent filtration in microfluidic chip Platinum nanoparticle-facilitated reflective surfaces for non-contact temperature control in microfluidic devices for PCR amplification Development of a continuous-flow polymerase chain reaction device utilizing a polymer disk with a spiral microchannel of gradually varying width Gold nanoparticle chemiresistors operating in biological fluids On-chip electrochemical detection of bio/chemical molecule by nanostructures fabricated in a microfluidic channel Microfluidic sensing devices employing in situ-formed liquid crystal thin film for detection of biochemical interactions Programmable autonomous micromixers and micropumps Lateral tunable liquid microlenses for enhanced fluorescence emission in microfluidic channels A modular microfluidic system for cell pre-concentration and genetic sample preparation Microfluidic integration of nanomechanical resonators for protein analysis in serum SmartBuild-A truly plug-n-play modular microfluidic system A micro heater platform with fluid channels for testing micro-solid oxide fuel cell components Rapid prototyping of microfluidic systems in poly(dimethylsiloxane) Rapid fabrication of microfluidic devices in poly(dimethylsiloxane) by photocopying Rapid method for design and fabrication of passive micromixers in microfluidic devices using a direct-printing process Shrinky-Dink microfluidics: 3D polystyrene chips Poly(dimethylsiloxane) as a material for fabricating microfluidic devices A modular microfluidic architecture for integrated biochemical analysis Flexible casting of modular self-aligning microfluidic assembly blocks Multidimensional modular microfluidic system Microfluidic assembly blocks Modular component design for portable microfluidic devices A novel vortex mixer actuated by one-shot electricity-free pumps Rapid DNA amplification in a capillary by natural convection with single isothermal heater A real-time convective PCR machine in a capillary tube instrumented with a CCD-based fluorometer Microfluidic devices have enormous potential in biological and chemical analysis applications [1] [2] keywords: -like; acid; amplification; applications; assembly; aunps; bio; block; capillary; ccpcr; chamber; channel; chen; components; design; devices; dna; electricity; female; fig; finger; flow; fluids; free; gold; heater; heating; integrated; left; lego; microfluidic; min; mixer; mixing; modular; nanoparticles; national; pcr; pdms; procedures; pump; rapid; reaction; right; sample; schematic; sfms; study; system; temperature; tube; type; vortex; zone cache: cord-311023-4ge4glq9.txt plain text: cord-311023-4ge4glq9.txt item: #497 of 647 id: cord-311328-k751tehv author: Rabti, Amal title: DNA markers and nano-biosensing approaches for tuberculosis diagnosis date: 2020-06-19 words: 7749 flesch: 29 summary: Cases in point, the QDs were used as biosensors for Mtb DNA detection. In this context, Chen et al. developed a sandwich-type of Mtb DNA biosensor based on the use of polyaniline-reduced graphene oxide, which was decorated with DNA label immobilized onto gold nanoparticles ( Fig. 13.1 ) keywords: acid; aggregation; amplification; analytical; applications; approaches; assay; aunps; available; biosensing; biosensor; carbon; care; changes; clinical; coated; colorimetric; complementary; complex; concentration; cost; detection; detection limit; developed; development; diagnosis; different; dna; dna detection; electrochemical; electrode; enzyme; et al; fact; fig; fluorescence; gene; genomic; gold; graphene; high; hybridization; identification; immobilization; increase; is6110; isothermal; label; large; limit; low; magnetic; markers; metal; method; molecular; mtb; mtb dna; mwcnts; mycobacterium; mycobacterium tuberculosis; nanocomposite; nanomaterials; nanoparticles; nanoprobe; nanotechnology; nanotubes; new; nucleic; oligonucleotide; oxide; pcr; platform; point; polyaniline; prepared; presence; probe; properties; qds; quantum; range; rapid; reaction; redox; reduced; reported; response; results; rpob; samples; selective; sensitive; sensitivity; sequence; signal; simple; single; size; solution; specific; specificity; spr; surface; system; target; target dna; techniques; time; tuberculosis; tuberculosis detection; use cache: cord-311328-k751tehv.txt plain text: cord-311328-k751tehv.txt item: #498 of 647 id: cord-311349-145kwny3 author: Mariani, Stefano title: Surface plasmon resonance applications in clinical analysis date: 2014-02-25 words: 13457 flesch: 33 summary: Advances in surface plasmon resonance biosensor technology towards high-throughput, food-safety analysis Recent developments and applications of surface plasmon resonance biosensors for the detection of mycotoxins in foodstuffs Surface plasmon resonance for detection of genetically modified organisms in the food supply Direct detection of E. Coli O157:H7 in selected food systems by a surface plasmon resonance biosensor Surface plasmon resonance in doping analysis Realtime and label-free bio-sensing of molecular interactions by surface plasmon resonance: a laboratory medicine perspective Cancer biomarker detection by surface plasmon resonance biosensors Proteomic applications of surface plasmon resonance biosensors: analysis of protein arrays Surface plasmon resonance mass spectrometry in proteomics Rapid and label-free bacteria detection by surface plasmon resonance (SPR) biosensors Recent advancements in surface plasmon resonance immunosensors for detection of small molecules of biomedical, food and environmental interest Emerging optofluidic technologies for point-of-care genetic analysis systems: a review Surface plasmon resonance sensors: review Advances in surface plasmon resonance biosensor analysis Present and future of surface plasmon resonance biosensors Recent advances in surface plasmon resonance based techniques for bioanalysis Surface plasmon resonance sensors for detection of chemical and biological species Surface plasmon resonance imaging Surface plasmon resonance imaging for affinity-based biosensors Surface plasmon resonance imaging measurements of ultrathin organic films Surface plasmon resonance imaging as a tool to monitor biomolecular interactions in an array based format On a remarkable case of uneven distribution of light in a diffraction grating spectrum Radiative decay of non-radiative surface plasmons excited by light Excitation of nonradiative surface plasma waves in silver by the method of frustrated total reflection Surface plasmon resonance sensing of nucleic acids: a review Immunosensors-principles and applications to clinical chemistry Surface plasmon resonancebased immunoassays Surface plasmon resonance imaging for nucleic acid detection Artificial DNA and surface plasmon resonance New trends in affinity sensing: aptamers for ligand binding Aptamer-based molecular recognition for biosensor development From oligonucleotide shapes to genomic SELEX: novel biological regulatory loops Methods developed for SELEX Advances in the manufacture of MIP nanoparticles Molecularly imprinted polymers and their use in biomimetic sensors The art of immobilization for SPR sensors. SPR based biosensor belongs to refractometric devices, since the propagation of the SPW is sensitive to changes in the refractive index of the dielectric. keywords: 1:10; abs; achieved; acid; addition; adsorption; affinity; alcam; amino; amplification; analysis; analyte; analytical; anti; antibodies; antibody; antigen; applications; approach; assay; authors; autoantibodies; biacore; binding; biological; biomarker; bioreceptors; biosensor; blood; bnp; buffer; cancer; cardiac; cell; chemistry; chip; chip surface; clinical; coated; complex; concentration; control; conventional; correlation; coupling; cv%; detection; developed; development; dextran; diagnostics; dielectric; different; diluted; discrimination; diseases; dls; dna; doping; edc; elisa; et al; excellent; fast; fig; free; functionalized; gene; genetic; glycol; glycoprotein; gold; good; growth; hbs; healthy; high; home; hormones; human; imaging; immobilization; immobilized; immunoassay; immunosensor; indirect; innovative; insulin; interaction; interest; key; label; layer; levels; light; limit; linear; low; matrices; measurements; metal; method; molecular; molecules; monitoring; multi; mutation; nanoparticles; new; nhs; nonspecific; nps; nucleic; optical; particular; pathogens; patients; pbs; pcr; peptides; performances; plasma; plasmon; plasmon resonance; platform; point; pretreatment; probes; protein; range; rapid; real; recent; reference; related; reproducibility; resonance; response; results; review; salmonella; samples; sandwich; secondary; sensing; sensitive; sensitivity; sensors; sera; serum; signal; single; snp; solution; specific; specificity; spr; spr biosensor; spri; step; strategy; streptavidin; suitable; surface; surface plasmon; synthetic; system; target; technology; test; therapy; time; tp53; type; urine; virus; years cache: cord-311349-145kwny3.txt plain text: cord-311349-145kwny3.txt item: #499 of 647 id: cord-311839-61djk4bs author: Wei, Dan title: A novel hierarchical clustering algorithm for gene sequences date: 2012-07-23 words: 8046 flesch: 58 summary: Major algorithms used in gene sequence clustering can be divided into two categories according to the result format: hierarchical clustering algorithms and partitional clustering algorithms We have applied mBKM with DMk in clustering gene sequences and performing phylogenetic analysis. keywords: additional; algorithm; alignment; analysis; approach; average; better; biological; bisecting; blastclust; centroids; clustering; clusters; comparison; complexity; data; datasets; different; distance; dmk; dna; dna sequences; experiments; figure; file; free; gene; h1n1; hierarchical; higher; hit; information; initial; input; large; length; linkage; mbkm; measure; method; muscle; new; number; order; performance; phylogenetic; protein; real; results; sequences; set; sets; similarity; single; size; species; step; swine; table; time; tree; tuple; tuple distance; upgma; values cache: cord-311839-61djk4bs.txt plain text: cord-311839-61djk4bs.txt item: #500 of 647 id: cord-312001-8p7scli8 author: Majzoub, Karim title: The Innate Antiviral Response in Animals: An Evolutionary Perspective from Flagellates to Humans date: 2019-08-16 words: 10087 flesch: 37 summary: [corrected] gene induction by the interferon regulatory factor family of transcription factors Cutting edge: TNFR-associated factor (TRAF) 6 is essential for MyD88-dependent pathway but not toll/IL-1 receptor domain-containing adaptor-inducing IFN-beta (TRIF)-dependent pathway in TLR signaling Interferon-alpha induction through Toll-like receptors involves a direct interaction of IRF7 with MyD88 and TRAF6 Helical assembly in the MyD88-IRAK4-IRAK2 complex in TLR/IL-1R signalling Protein kinase IKKbeta-catalyzed phosphorylation of IRF5 at Ser462 induces its dimerization and nuclear translocation in myeloid cells An oligomeric signaling platform formed by the Toll-like receptor signal transducers MyD88 and IRAK-4 IKKbeta is an IRF5 kinase that instigates inflammation Interleukin-1 receptor-associated kinase-1 plays an essential role for Toll-like receptor (TLR)7-and TLR9-mediated interferon-{alpha} induction Structural basis of RNA recognition and activation by innate immune receptor RIG-I Structural basis for the activation of innate immune pattern-recognition receptor RIG-I by viral RNA MDA5 assembles into a polar helical filament on dsRNA Cooperative assembly and dynamic disassembly of MDA5 filaments for viral dsRNA recognition TRIM25 RING-finger E3 ubiquitin ligase is essential for RIG-I-mediated antiviral activity Ubiquitin-induced oligomerization of the RNA sensors RIG-I and MDA5 activates antiviral innate immune response Riplet/RNF135, a RING finger protein, ubiquitinates RIG-I to promote interferon-beta induction during the early phase of viral infection The ubiquitin ligase Riplet is essential for RIG-I-dependent innate immune responses to RNA virus infection IPS-1, an adaptor triggering RIG-I-and Mda5-mediated type I interferon induction Cardif is an adaptor protein in the RIG-I antiviral pathway and is targeted by hepatitis C virus Identification and characterization of MAVS, a mitochondrial antiviral signaling protein that activates NF-kappaB and IRF 3 Essential role of IPS-1 in innate immune responses against RNA viruses An autoinhibitory mechanism modulates MAVS activity in antiviral innate immune response MAVS forms functional prion-like aggregates to activate and propagate antiviral innate immune response Structural basis for the prion-like MAVS filaments in antiviral innate immunity MAVS recruits multiple ubiquitin E3 ligases to activate antiviral signaling cascades Activation of IKK by TNFalpha requires site-specific ubiquitination of RIP1 and polyubiquitin binding by NEMO Sensing of Lys 63-linked polyubiquitination by NEMO is a key event in NF-kappaB activation Key role of Ubc5 and lysine-63 polyubiquitination in viral activation of IRF3 STING is an endoplasmic reticulum adaptor that facilitates innate immune signalling The adaptor protein MITA links virus-sensing receptors to IRF3 transcription factor activation STING regulates intracellular DNA-mediated, type I interferon-dependent innate immunity STING is a direct innate immune sensor of cyclic di-GMP Coordinated regulation of accessory genetic elements produces cyclic di-nucleotides for V. cholerae virulence MPYS is required for IFN response factor 3 activation and type A conserved Toll-like receptor-to-NF-kappaB signaling pathway in the endangered coral Orbicella faveolata Genomic insights into the immune system of the sea urchin Massively parallel RNA sequencing identifies a complex immune gene repertoire in the lophotrochozoan Mytilus edulis Massive expansion and functional divergence of innate immune genes in a protostome Teleost TLR22 recognizes RNA duplex to induce IFN and protect cells from birnaviruses Adaptive evolution of virus-sensing toll-like receptor 8 in bats The evolution of bat nucleic acid-sensing Toll-like receptors Immune system modulation and viral persistence in bats: Understanding viral spillover Origin and evolution of the RIG-I like RNA helicase gene family Characterization of the mollusc RIG-I/MAVS pathway reveals an archaic antiviral signalling framework in invertebrates Retinoic acid-inducible gene I (RIG-I)-like receptors (RLRs) in fish: Current knowledge and future perspectives Chicken cells sense influenza A virus infection through MDA5 and CARDIF signaling involving LGP2 Association of RIG-I with innate immunity of ducks to influenza Genome of the Chinese tree shrew Loss of RIG-I leads to a functional replacement with MDA5 in the Chinese tree shrew The kinase IKKbeta regulates a STING-and NF-kappaB-dependent antiviral response pathway in Drosophila The Jak-STAT signaling pathway is required but not sufficient for the antiviral response of drosophila The RNA silencing endonuclease Argonaute 2 mediates specific antiviral immunity in Drosophila melanogaster Essential function in vivo for Dicer-2 in host defense against RNA viruses in drosophila Sensing viral RNAs by Dicer/RIG-I like ATPases across species The DExD/H-box helicase Dicer-2 mediates the induction of antiviral activity in drosophila Secreted Vago restricts West Nile virus infection in Culex mosquito cells by activating the Jak-STAT pathway Dicer-2-dependent activation of Culex Vago occurs via the TRAF-Rel2 signaling pathway Nucleic acid sensing in invertebrate antiviral immunity The RIG-I ATPase core has evolved a functional requirement for allosteric stabilization by the Pincer domain The selective footprints of viral pressures at the human RIG-I-like receptor family Evolution and functional impact of rare coding variation from deep sequencing of human exomes Cyclic di-nucleotide signaling enters the eukaryote domain Evolutionary origins of cGAS-STING signaling Toll signaling: The TIReless quest for specificity Analysis of Drosophila STING reveals an evolutionarily conserved antimicrobial function Modular architecture of the STING C-terminal tail allows interferon and NF-kappaB signaling adaptation Dampened STING-dependent interferon activation in bats Structure of human cGAS reveals a conserved family of second-messenger enzymes in innate immunity ] is the metazoan second messenger produced by DNA-activated cyclic GMP-AMP synthase Structural mechanism of cytosolic DNA sensing by cGAS Overlapping patterns of rapid evolution in the nucleic acid sensors cGAS keywords: able; acid; activation; activity; adaptive; adaptor; ancient; animals; antiviral; associated; authors; binding; cells; cgamp; cgas; complex; components; conserved; ctt; cyclic; cytokine; cytosolic; defense; dependent; detection; disease; dna; domain; double; downstream; drosophila; dsrna; dynamic; early; elements; emergence; encode; escape; essential; evasion; evolution; evolutionary; example; factor; family; figure; function; gene; genome; gmp; helicase; hepatitis; host; human; ifn; immune; immunity; important; induction; infection; influenza; innate; innate immune; interferon; intracellular; irf3; kappab; kinase; lgp2; ligase; like; loss; major; mammalian; mammals; mavs; mda5; mechanism; mice; molecular; myd88; nucleic; pamps; pathogen; pathways; pattern; phosphorylation; polymerase; present; production; protease; protein; prrs; receptor; recognition; regulatory; replication; response; responsible; rig; rlrs; rna; rnai; rnas; role; sea; second; self; sense; sensing; sensor; signaling; somatic; specialized; species; specific; sting; strategies; strategy; strong; structural; studies; system; targeting; targets; tbk1; terminal; tir; tlr3; tlr4; tlrs; toll; transcription; trif; type; ubiquitin; ubiquitination; vertebrate; viral; viruses cache: cord-312001-8p7scli8.txt plain text: cord-312001-8p7scli8.txt item: #501 of 647 id: cord-312278-rin733w4 author: Wang, Yung‐Chih title: Current diagnostic tools for coronaviruses–From laboratory diagnosis to POC diagnosis for COVID‐19 date: 2020-08-13 words: 2256 flesch: 41 summary: Bat coronaviruses in China SARS and MERS: recent insights into emerging coronaviruses From SARS to MERS, thrusting coronaviruses into the spotlight Isolation of a novel coronavirus from a man with pneumonia in Saudi Arabia A novel coronavirus from patients with pneumonia in China Technical Advisory Group for Infectious H. COVID-19: what is next for public health? Clinical features of patients infected with 2019 novel coronavirus in Wuhan Baseline characteristics and outcomes of 1591 patients infected with SARS-CoV-2 admitted to ICUs of the Lombardy region Detection of SARS coronavirus in patients with severe acute respiratory syndrome by conventional and real-time quantitative reverse transcription-PCR assays Laboratory diagnosis of emerging human coronavirus infections-the state of the art Detection of SARS-CoV-2 in different types of clinical specimens The role of laboratory diagnostics in emerging viral infections: the example of the Middle East respiratory syndrome epidemic Serologic and molecular biologic methods for SARS-associated coronavirus infection Serology of severe acute respiratory syndrome: implications for surveillance and outcome Examination of seroprevalence of coronavirus HKU1 infection with S protein-based ELISA and neutralization assay against viral spike pseudotyped virus Coronavirus COVID-19 outbreak: Latest news, information and updates COVID-19) Emergency Use Authorizations for Medical Devices Genome composition and divergence of the novel coronavirus (2019-nCoV) originating in China Cryo-EM structure of the 2019-nCoV spike in the prefusion conformation A pneumonia outbreak associated with a new coronavirus of probable bat origin Primer design for quantitative real-time PCR for the emerging coronavirus SARS-CoV-2 The laboratory diagnosis of COVID-19 infection: current issues and challenges Correlation of chest CT and RT-PCR testing in coronavirus disease 2019 (COVID-19) in China: a report of 1014 cases Negative nasopharyngeal and Oropharyngeal swab does not rule out COVID-19 Molecular and serological investigation of 2019-nCoV infected patients: implication of multiple shedding routes Saliva as a non-invasive specimen for detection of SARS-CoV-2 Saliva is a reliable tool to detect SARS-CoV-2 The Applied Biosystems TaqPath COVID-19 Combo Kit Neutralizing antibodies against SARS-CoV-2 and other human coronaviruses The incubation period of coronavirus disease 2019 (COVID-19) from publicly reported confirmed cases: estimation and application Chembio Announces Launch of DPP COVID-19 Serological Point-of-Care Test BD Veritor™ System for Rapid Detection of SARS-CoV-2 Development of a colloidal gold-based immunochromatographic strip for rapid detection of Klebsiella pneumoniae serotypes K1 and K2 Development of immunochromatographic colloidal gold test strip for rapid detection of Haemophilus influenzae in clinical specimens Feasibility of using colloidal gold immunochromatography for point-of-care identification of parathyroid glands during thyroidectomy The COVID-19 IgG/IgM Rapid Test Accula SARS-CoV-2 Test VitaPCR™ COVID-19 Assay Vivalytic Rapid Test for COVID-19 COVID-19 Test (At-Home Kit Laboratory TaqPath SARS-CoV-2 Assay Fulgent Coronavirus Disease (COVID-19) RT-PCR test Everlywell COVID-19 Test Home Collection Kit Quest Self-collection Kit for COVID-19 Gravity Diagnostics COVID-19 Assay KPMAS COVID-19 Test Kroger Health COVID-19 keywords: acute; antibodies; approach; assay; bacteria; cas9; china; clinical; collection; coronavirus; cov-2; covid-19; crispr; current; detection; diagnosis; disease; dna; healthcare; home; human; infection; kit; kits; laboratory; mers; novel; patients; pcr; poc; presence; protein; rapid; respiratory; results; rna; sars; serological; severe; specimens; spike; syndrome; test; use cache: cord-312278-rin733w4.txt plain text: cord-312278-rin733w4.txt item: #502 of 647 id: cord-312336-784izxqd author: Fouret, Julien title: Sequencing the Genome of Indian Flying Fox, Natural Reservoir of Nipah Virus, Using Hybrid Assembly and Conservative Secondary Scaffolding date: 2020-07-29 words: 7530 flesch: 46 summary: Several different sequencing strategies have been used in the past years to sequence bat genomes, including (i) high coverage long-read sequencing strategy, e.g., 83x of PacBIO Eonycteris spelaea (Wen et al., 2018) , (ii) Illumina sequencing (e.g., 93x for paired-end libraries and 67x of matepair libraries) for P. alecto (Zhang et al., 2013) and also (iii) hybrid sequencing, e.g., 145x of Illumina short reads and 24x of PacBio long-reads for Rousettus aegyptecus (Pavlovich et al., 2018) . Interestingly, the value of NG50 for Ma_sr-lr_phylo assembly outperforms the NG50 of P. alecto assembly (16 Mb) (Zhang et al., 2013) , while having a smaller number of Ns (any nucleotide according to the IUPAC code) in its sequence (Supplementary Table S1 ). keywords: ace2; agouti; alecto; alignment; analysis; annotation; assemblies; assembly; available; bat; bats; better; cell; copy; data; database; depth; different; divergence; dna; end; et al; figure; flying; fox; fragmentation; gene; genome; graph; high; host; humans; illumina; indian; information; kit; long; lower; lr_phylo; lr_union100; ma_sr; material; medius; medius genome; mers; methods; metrics; multiple; nanopore; natural; new; ng50; nipah; number; order; p. alecto; p. medius; phylogenetic; present; pteropus; quality; ragout; reads; reference; repeats; results; rna; sars; scaff2link; scaffolding; scaffolds; secondary; sequence; sequencing; short; single; size; software; solid; sources; species; step; studies; study; supplementary; table; time; tree; understanding; use; vampyrus; virus cache: cord-312336-784izxqd.txt plain text: cord-312336-784izxqd.txt item: #503 of 647 id: cord-312517-b24zlaqt author: Kim, Denny title: The Brighton collaboration standardized template for collection of key information for benefit-risk assessment of nucleic acid (RNA and DNA) vaccines date: 2020-06-19 words: 1950 flesch: 37 summary: DNA vaccines have been under development since the early 1990s. The 2019 proposed revision of the WHO guidelines on DNA vaccines lists the approaches being employed to enhance the immunogenicity of a DNA vaccine [9] . keywords: acid; assessment; benefit; brighton; collaboration; column; considerations; covid-19; data; development; dna; humans; immunogen; information; issues; key; licensed; nucleic; risk; rna; safety; section; stakeholders; standardized; template; use; v3swg; vaccine; vector; viral; working cache: cord-312517-b24zlaqt.txt plain text: cord-312517-b24zlaqt.txt item: #504 of 647 id: cord-312522-mymgnf8z author: Nelson, Megan M. title: Rapid molecular detection of macrolide resistance date: 2019-02-12 words: 5149 flesch: 35 summary: Because the microbiome is a dynamic entity in which antimicrobial resistance genes are shared among members [53] , it is clinically vital to monitor levels of antibiotic resistance genes in commensal bacteria of healthy individuals that may contribute to more severe disease. While initially identified in S. pyogenes and S. pneumoniae [33] it has since been identified in an extremely wide range of gram-positive and negative bacteria worldwide [37] consistent with horizontal transfer of antimicrobial resistance genes. Using purified DNA, a panel of bacteria cultures, and broth dilution antimicrobial resistance testing, we demonstrate extreme sensitivity and specificity of the RPA assay, and we confirm that positive results correctly predict antimicrobial resistance. keywords: accession; acid; agalactiae; amplification; antibiotic; antimicrobial; antimicrobial resistance; assay; bacterial; clinical; commensal; copies; culture; detection; diagnostic; dilution; disease; dna; efflux; erythromycin; fig; genome; genomic; group; healthy; human; infection; isothermal; levels; lysates; macrolide; mef(a; methods; mgas10394; microbiome; min; molecular; negative; new; non; nucleic; pathogens; patient; pcr; pneumoniae; polymerase; positive; presence; primers; probe; pyogenes; rapid; raw; reaction; real; recombinase; resistance; results; rpa; salivarius; samples; sensitive; sensitivity; signal; single; specific; specificity; strains; streptococcus; study; target; testing; thermofisher; time; total; virus; work cache: cord-312522-mymgnf8z.txt plain text: cord-312522-mymgnf8z.txt item: #505 of 647 id: cord-312757-58p5b2vw author: Pérez-Montoto, Lázaro G. title: Scoring function for DNA–drug docking of anticancer and antiparasitic compounds based on spectral moments of 2D lattice graphs for molecular dynamics trajectories date: 2009-11-30 words: 4829 flesch: 54 summary: Abstract We introduce here a new class of invariants for MD trajectories based on the spectral moments πk (L) of the Markov matrix associated to lattice network-like (LN) graph representations of Molecular Dynamics (MD) trajectories. In the study, we grouped the LNs on two sets; set1: DNA–drug complex MD trajectories for active compounds and set2: MD trajectories of non-active compounds or no-optimal MD trajectories of active compounds. keywords: active; activity; addition; amino; analysis; angular; biological; blood; complexes; composition; compounds; different; dna; docking; drug; folding; form; function; furocoumarins; general; graph; information; intercalation; lattice; lns; markov; matrix; method; model; molecular; molecule; moments; networks; new; node; optimal; order; parasite; photo; previous; protein; pseudo; puva; qsar; qsbr; quantitative; representations; scoring; sense; sequence; series; skin; spectral; structure; studies; study; test; therapy; tis; trajectories; trajectory; treatment; type; use; validation; values cache: cord-312757-58p5b2vw.txt plain text: cord-312757-58p5b2vw.txt item: #506 of 647 id: cord-313161-07iwwsfz author: Lundstrom, Kenneth title: Alphavirus-Based Vaccines date: 2014-06-16 words: 6857 flesch: 24 summary: Treatment efficacy and evidence for immunoediting in a stringent rat mammary tumor model Alphaviral vector-transduced dendritic cells are successful therapeutic vaccines against neu-overexpressing tumors in wild-type mice Immunization strategy against cervical cancer involving an alphavirus vector expressing high levels of a stable fusion protein of human papillomavirus 16 E6 and E7 Superior therapeutic efficacy of alphavirus-mediated immunization against human papilloma virus type 16 antigens in a murine tumour model: Effects of the route of immunization Sindbis virus replicon particles encoding calreticulin linked to a tumor antigen generate long-term tumor-specific immunity Eradication of established tumors by vaccination with Venezuelan equine encephalitis virus replicon particles delivering human papillomavirus 16 E7 RNA Augmentation of alphavirus vector-induced human papilloma virus-specific immune and anti-tumour responses by coexpression of interleukin-12 Cancer immunotherapy using Sindbis virus replicon particles encoding a VP22-antigen fusion Treatment of rapidly growing K-BALB and CT26 mouse tumours using Semliki Forest virus and its derived vector Inhibition of angiogenesis by a Semliki Forest virus vector expressing VEGFR-2 reduces tumour growth and metastasis in mice Induction of a therapeutic antitumor immunological response by intratumoral injection of genetically engineered Semliki Forest virus to produce interleukin-12 Biology and application of alphaviruses in gene therapy Immunotherapeutic synergy between anti-CD137 mAb and intratumoral administration of a cytopathic Semliki Forest virus encoding IL-12 Immunization against MUC18/MCAM, a novel antigen that drives melanoma invasion and metastasis An alphavirus vector overcomes the presence of neutralizing antibodies and elevated numbers of Tregs to induce immune responses in humans with advanced cancer A phase I dose escalation trial of vaccine replicon particles (VRP) expressing prostatespecific membrane antigen (PSMA) in subjects with prostate cancer A novel alphavirus vaccine encoding prostate-specific membrane antigen elicits potent cellular and humoral immune responses In vivo effects of vaccination with six-transmembrane epithelial antigen of the prostate: A candidate antigen for treating prostate cancer Prostate stem cell antigen vaccination induces a long-term protective immune response against prostate cancer in the absence of autoimmunity Immunotherapy with recombinant SFV-replicons expressing the P815A tumor antigen or IL-12 induces tumor regression Innovative cancer vaccine strategies based on the identification of tumour-associated antigens Induction of P815 tumor immunity by recombinant Semliki Forest virus expressing the P1A gene Enhancement of tumorspecific immune response with plasmid DNA replicon vectors Genetic immunization against cervical carcinoma: induction of cytotoxic T lymphocyte activity with a recombinant alphavirus vector expressing human papillomavirus type 16 E6 and E7 Enhancement of sindbis virus self-replicating RNA vaccine potency by targeting antigen to endosomal/lysosomal compartments Establishment of an HLA-A*0201 human papillomavirus type 16 tumor model to determine the efficacy of vaccination strategies in HLA-A*0201 transgenic mice Antitumor efficacy of Venezuelan equine encephalitis virus replicon particles encoding mutated HPV16 E6 and E7 genes Induction of an antitumor immunological response by an intratumoral injection of dendritic cells pulsed with genetically engineered Semliki Forest virus to produce interleukin-18 combined with the systemic administration of interleukin-12 An immunological profile of Balb/c mice protected from airborne challenge following vaccination with a live attenuated Venezuelan equine encephalitis virus vaccine Improved mucosal protection against Venezuelan equine encephalitis virus is induced by the molecularly defined, live-attenuated V3526 vaccine candidate Recombinant chimeric western and eastern equine encephalitis viruses as potential vaccine candidates Phase II safety and immunogenicity study of live chikungunya virus vaccine TSI-GSD-218 A DNA vaccine against chikungunya virus is protective in mice and induces neutralizing antibodies in mice and nonhuman primates Design of chimeric alphaviruses with a programmed, attenuated, cell type-restricted phenotype Development of a stable virus-like particle vaccine formulation against Chikungunya virus and investigation of the effects of polyanions RNA interference mediated inhibition of Chikungunya virus replication in mammalian cells In vitro and in vivo characterization of microRNAtargeted alphavirus replicon and helper RNAs Role for mucosal immune responses and cell-mediated immune functions in protection from airborne challenge with Venezuelan equine encephalitis virus Immunogenicity and protective efficacy of a DNA vaccine against Venezuelan equine encephalitis virus aerosol challenge in nonhuman primates Transmission potential of two chimeric Chikungunya vaccine candidates in the urban mosquito vectors, Aedes aegypti and Ae. albopictus Artificial microRNAs can effectively inhibit replication of Venezuelan equine encephalitis virus Nanopatch-targeted skin vaccination against West Nile Virus and Chikungunya virus in mice Semliki Forest virus expression system: Production of conditionally infectious recombinant particles In another study, DNA vaccines based on the SAV E1 and E2 spike proteins were compared to whole virus vaccine in Atlantic salmon [65] . keywords: administration; alphavirus; animals; antibodies; antibody; antigen; approach; attenuated; cancer; cells; cellular; challenges; chik; chikungunya; chimeric; cmv; combined; context; delivery; development; dna; doses; efficacy; encephalitis; encoding; enhanced; envelope; equine; expression; forest; gene; helper; hemagglutinin; high; hpv; human; humoral; il-12; immune; immunity; immunization; immunogenicity; induction; infectious; influenza; injection; intramuscular; intratumoral; lethal; macaques; melanoma; mice; model; mucosal; naked; neutralizing; non; number; particles; plasmid; potential; primates; promoter; prostate; protection; proteins; recombinant; replication; replicon; responses; rna; salmon; semliki; sfv; significant; sin; sindbis; specific; strain; strong; structural; study; survival; system; table; therapeutic; tumor; type; vaccinated; vaccination; vaccine; vectors; vee; venezuelan; viral; virus; viruses; vivo cache: cord-313161-07iwwsfz.txt plain text: cord-313161-07iwwsfz.txt item: #507 of 647 id: cord-313957-hviv5zar author: Masucci, Maria Grazia title: Viral Ubiquitin and Ubiquitin-Like Deconjugases—Swiss Army Knives for Infection date: 2020-08-01 words: 11785 flesch: 30 summary: Hence, UbL-regulated cellular functions are exploited for viral entry, transcription and replication of the viral genomes, synthesis of viral proteins, and assembly of new virions and for the maturation and exit of viral particles from the infected cell [32] [33] Thus, the ISGylation of de novo synthesized viral proteins may hinder their interaction with host proteins that are required for replication, may disrupt their catalytic function, or may alter the oligomerization of capsid proteins leading to a decrease in the number and infectivity of virus particles keywords: activation; active; activity; acute; addition; adenovirus; analysis; antiviral; assembly; associated; attachment; barr; binding; bond; bplf1; capacity; capsid; catalytic; cells; cellular; chains; cleavage; complex; conjugation; conserved; coronavirus; cov; covalent; cullin; cycle; cys; deconjugases; degradation; dependent; deubiquitinase; different; dna; domain; dubs; ebv; enzymes; epstein; essential; establishment; example; expression; factor; family; figure; fold; formation; function; genome; herpesvirus; host; human; identification; ifn; immune; immunity; important; infected; infection; inhibition; inhibitors; innate; interaction; interferon; involvement; irf3; isg15; isgylation; large; levels; ligase; like; like protease; mers; modification; mouse; nedd8; neddylation; new; nuclear; papain; particles; pathogenesis; plpro; poly; processing; production; protease; protein; receptor; recognition; regulate; regulation; related; release; replication; residue; respiratory; response; rig; ring; role; sars; severe; signaling; similar; simplex; site; specific; specificity; stress; structure; substrates; sumo; sumoylation; syndrome; system; target; targeting; tegument; terminal; transcription; trim25; type; ub chains; ubiquitin; ubiquitination; ubl; ubls; ul36; viral; virus; virus replication; viruses cache: cord-313957-hviv5zar.txt plain text: cord-313957-hviv5zar.txt item: #508 of 647 id: cord-314415-yr0uxok2 author: Guo, Zijing title: Identification and genomic characterization of a novel CRESS DNA virus from a calf with severe hemorrhagic enteritis in China date: 2018-08-15 words: 3774 flesch: 45 summary: Circular replication-associated protein encoding DNA viruses identified in the faecal matter of various animals in New Zealand Identification of a novel circovirus in Australian ravens (Corvus coronoides) with feather disease Sequence-based taxonomic framework for the classification of uncultured single-stranded DNA viruses of the family Genomoviridae Smacoviridae: a new family of animal-associated singlestranded DNA viruses Plasma virome of cattle from forest region revealed diverse small circular ssDNA viral genomes Metagenomic analysis of viromes of dromedary camel fecal samples reveals large number and high diversity of circoviruses and picobirnaviruses Viral metagenomics analysis demonstrates the diversity of viral flora in piglet diarrhoeic faeces in China Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children Mfold web server for nucleic acid folding and hybridization prediction In addition to six recognized CRESS DNA viral families, a large number of novel CRESS DNA viruses, waiting to be classified by ICTV, have been rapidly discovered in faeces of humans and animals through viral metagenomics in recent years. keywords: accession; analysis; bovine; cap; china; circo; circovirus; circular; cress; database; diarrheic; dna; et al; families; family; fecal; fig; genbank; genome; genomoviridae; identity; kirkoviridae; large; like; like virus; new; novel; number; orfs; phylogenetic; protein; putative; reads; recombination; rep; residues; samples; sequences; sequencing; significant; single; size; ssdna; steel; strains; study; usa; viral; virus; viruses; zhao cache: cord-314415-yr0uxok2.txt plain text: cord-314415-yr0uxok2.txt item: #509 of 647 id: cord-314503-u1y1bznk author: Jaluria, Pratik title: A perspective on microarrays: current applications, pitfalls, and potential uses date: 2007-01-25 words: 7765 flesch: 37 summary: Microcirculation The use and analysis of microarray data Microarray expression profiling: capturing a genome-wide portrait of the transcriptome Microarray expression profiling: analysis and applications From patterns to pathways: gene expression data analysis comes of age Bioinformatics in microbial biotechnology -a mini review Computational analysis of microarray data Differential gene expression in recombinant Pichia pastoris analysed by heterologous DNA microarray hybridization An analysis of the use of genomic DNA as a universal reference in two channel DNA microarrays A framework to analyze multiple time series data: a case study with Streptomyces coelicolor Design of studies using DNA microarrays Applications of microarrays in the pharmaceutical industry Methods and approaches in the analysis of gene expression data Uncovering evolutionary patterns of gene expression using microarrays Microarray analysis of gene expression during the cell cycle Biological methods for cell-cycle synchronization of mammalian cells TM4: a free, open-source system for microarray data management and analysis Comparisons and validation of statistical clustering techniques for microarray gene expression data Cluster analysis and display of genome-wide expression patterns Systematic determination of genetic network architecture Fundamentals of Biostatistics Environmental genomics: exploring the unmined richness of microbes to degrade xenobiotics Transcriptional response of Candida albicans to nitric oxide and the role of the YHB1 gene in nitrosative stress and virulence High-resolution mutation mapping reveals parallel experimental evolution in Without these considerations, it can be exceedingly difficult to ascertain valuable information from microarray data. keywords: addition; analysis; application; arrays; articles; available; binding; biological; blotting; cdna; cells; channel; clustering; clusters; control; custom; data; design; detection; differences; different; distinct; dna; dyes; example; experiments; expression; figure; fluorescent; following; gene expression; genes; genome; genomic; goals; group; hybridization; hypothesis; identification; important; information; instance; intensities; labeling; levels; methods; microarray; microarray data; microarray technology; multiple; new; normalization; number; oligonucleotide; particular; patterns; pcr; potential; present; probe; quality; recent; relative; replicates; researchers; results; review; rna; samples; sequence; series; significance; similar; single; species; specific; statistical; steps; strains; studies; study; subsequent; system; target; techniques; technology; terms; test; testing; text; time; total; type; use cache: cord-314503-u1y1bznk.txt plain text: cord-314503-u1y1bznk.txt item: #510 of 647 id: cord-314642-oobbdgzh author: Campbell, Allan title: The future of bacteriophage biology date: 2003 words: 5949 flesch: 48 summary: The dodecameric portal protein rotates in the protein shell of the phage, in steps of 12 °, which reel in phage DNA and are powered by ATP hydrolysis (FIG. 2) . The insertion of phage DNA into the chromosome during lysogenization is a good example. keywords: acid; anti; bacterial; bacteriophage; base; binding; biology; cell; chromosome; cii; coli; common; connector; cro; cycle; diseases; dna; earlier; escherichia; evidence; evolution; evolutionary; examples; fig; form; future; genes; genetic; genomes; group; homology; host; human; infection; insertion; integrase; islands; lambdoid; lambdoid phages; large; long; lysogenic; lysogenization; lytic; mechanism; model; molecular; molecules; natural; nature; new; operator; origin; particles; partners; pathogenicity; phage; phage dna; present; primary; prophages; protein; questions; recent; recombination; repressor; research; rna; role; second; segments; sequencing; site; species; specific; structure; studies; surface; switch; synthesis; therapy; time; toxin; type; viral; viruses; work cache: cord-314642-oobbdgzh.txt plain text: cord-314642-oobbdgzh.txt item: #511 of 647 id: cord-315164-nidgnvvi author: Medkour, Hacène title: Adenovirus Infections in African Humans and Wild Non-Human Primates: Great Diversity and Cross-Species Transmission date: 2020-06-18 words: 6822 flesch: 55 summary: A comprehensive study of more than 45,000 routine PCR tests Pring-Åkerblom, P. Rapid and quantitative detection of human adenovirus DNA by real-time PCR SPAdes: A new genome assembly algorithm and its applications to single-cell sequencing Trimmomatic: A flexible trimmer for Illumina sequence data A tiling path-based gap closer that uses long reads to complete genome assembly Combining de novo and reference-guided assembly with scaffold _ builder Protein database searches for multiple alignments Basic local alignment search tool Host Immune Responses to Chronic Adenovirus Infections in Human and Nonhuman Primates Adenovirus and herpesvirus diversity in free-ranging great apes in the Sangha region of the Republic of Congo Multiple cross-species transmission events of human adenoviruses (HAdV) during hominine evolution Molecular epidemiological study of adenovirus infecting western lowland gorillas and humans in and around Moukalaba-Doudou National Park (Gabon) Chimpanzee adenovirus antibodies in humans, sub-Saharan Africa Adenovirus infection in savanna chimpanzees (Pan troglodytes schweinfurthii) in the Issa Valley Adenoviruses isolated from wild gorillas are closely related to human species C viruses All great ape samples were stored in absolute alcohol, and fresh samples and human samples were first stored at −20 • C before being sent from the Republic of Congo to France for analysis. keywords: addition; adenoviruses; advs; african; algeria; amplification; analysis; apes; assembly; available; baboons; captive; cell; chimpanzees; close; congo; culture; database; different; diseases; diversity; djibouti; dna; e members; evidence; fecal; feces; figure; france; genbank; gene; genome; gorillas; great; green; hadv; host; human; identity; infections; isolated; isolation; likelihood; macaques; mastadenovirus; maximum; mbo024; members; method; molecular; monkeys; nhps; non; number; order; pcr; polymerase; population; positive; potential; primates; qiagen; qpcr; republic; results; samples; sequences; sequencing; simian; species; specific; stool; strain; study; table; transmission; tree; types; usa; viral; wild; zoonotic cache: cord-315164-nidgnvvi.txt plain text: cord-315164-nidgnvvi.txt item: #512 of 647 id: cord-315541-tirod4t6 author: Henriques, Ana Margarida title: Development and validation of a real-time PCR for the detection and quantification of porcine circovirus type 2 date: 2018-07-17 words: 3567 flesch: 42 summary: The specificity was also evaluated by testing 13 samples positive for other swine diseases viruses, namely African swine fever virus (ASFV), classical swine fever virus (CSFV), European and American strains of porcine reproductive and respiratory syndrome virus (PRRSV), porcine epidemic diarrhea virus (PEDV), wild-type and gE deleted strains of pseudorabies virus (PRV), swine vesicular disease virus (SVDV), foot-and-mouth disease virus (FMDV), porcine parvovirus (PPV), swine influenza virus (SIV), swine coronavirus and swine rotavirus. Effect of vaccination against sub-clinical porcine circovirus type 2 infection in a high-health finishing pig herd: a randomised clinical field trial Multiplex PCR for detection and typing of porcine circoviruses Porcine circovirus type 2 (PCV2) infections: clinical signs, pathology and laboratory diagnosis Studying the effect of single mismatches in primer and probe binding regions on amplification curves and quantification in real-time PCR How good is a PCR efficiency estimate: recommendations for precise and robust qPCR efficiency assessments Development of isothermal recombinase polymerase amplification assay for rapid detection of porcine circovirus type 2 Detection of PCV2 DNA by SYBR Green I-based quantitative PCR Calibration curve obtained by the representation of the Ct values as a function of the logarithm of the plasmid copies number Rapid detection of porcine circovirus type 2 by TaqManbased real-time polymerase chain reaction assays Rapid detection of porcine circovirus type 2 using a TaqMan-based realtime PCR Loop-mediated isothermal amplification for detection of porcine circovirus type 2 Development and validation of a real-time PCR for the detection and quantification of… 361 Acknowledgements keywords: amplification; analysis; assay; available; circovirus; concentration; copies; detection; development; dilutions; disease; dna; inter; intra; limit; method; negative; nucleotide; number; pcr; pcv2; plasmid; porcine; positive; primers; probe; qpcr; reaction; real; samples; sensitivity; sequences; serial; specificity; strains; swine; syndrome; test; time; type; values; variability; viral; virus cache: cord-315541-tirod4t6.txt plain text: cord-315541-tirod4t6.txt item: #513 of 647 id: cord-315570-khm1veuv author: González-Mora, Alejandro title: Bacteriophage-Based Vaccines: A Potent Approach for Antigen Delivery date: 2020-09-04 words: 9972 flesch: 36 summary: Until now, phage display vaccines have been used for preventing or treating several diseases including cancer, viral, parasitic and fungal infection as well as their use in immunocontraception and drug abuse, among others [2, [15] [16] Until now, phage display vaccines have been used for preventing or treating several diseases including cancer, viral, parasitic and fungal infection as well as their use in immunocontraception and drug abuse, among others [2, [15] [16] keywords: activation; activity; administration; advantages; affinity; antibodies; antibody; antigen; applications; approach; authors; bacteria; bacteriophage; cancer; capable; capacity; capsid; carriers; cells; cellular; class; clinical; coat; components; correct; ctl; delivery; design; development; display; display systems; dna; dna vaccines; drug; effective; effects; efficiency; enhancement; environment; epitopes; eukaryotic; expression; features; figure; filamentous; filamentous phages; fusion; genetic; genome; hand; high; host; human; humoral; hybrid; identification; immune; immune response; immunization; immunogenic; immunogenicity; immunotherapy; important; infection; interest; large; limitations; low; lytic; m13; mhc; mice; mimotopes; model; new; non; novel; particles; peptides; phage; phage display; phage particles; potent; production; protein; pviii; recombinant; response; specific; strategies; strategy; surface; systems; table; technology; time; trials; tumor; use; vaccination; vaccine development; vaccines; vectors; viral; virus; vivo cache: cord-315570-khm1veuv.txt plain text: cord-315570-khm1veuv.txt item: #514 of 647 id: cord-315616-pvt0amth author: Poole, Anthony title: Methyl-RNA: an evolutionary bridge between RNA and DNA? date: 2004-06-17 words: 5630 flesch: 49 summary: Completeness of genomic RNA methylation depends on the processivity of the methylase, and if it is non-speci¢c, it may not necessarily methylate every residue. The importance of being modi¢ed: roles of mod-i¢ed nucleosides and Mg 2 in RNA structure and function Small nucleolar RNAs guide the ribose methylations of eukaryotic rRNAs On the function of modi¢ed nucleosides in the RNA world Modi¢ed nucleotides always were: an evolutionary model Divided genomes and intrinsic noise Parsimony, likelihood and the role of models in molecular phylogenetics Prospects for understanding the origin of the RNA world Peptide nucleic acids rather than RNA may have been the ¢rst genetic molecule Birth of the snoRNPs: the evolution of the modi¢cation-guide snoRNAs Homologues of small nucleolar RNAs in Archaea Modi¢cation of U6 spliceosomal RNA is guided by other small RNAs The speci¢city of interaction between S-adenosyl-L-methionine and a nucleolar 2P-O-methyltransferase Crystal structure of catechol O-methyltransferase The 1.85 A î structure of Vaccinia protein VP39: a bifunctional enzyme that participates in the modi¢cation of both mRNA ends Stereochemical course of the transmethylation catalysed by catechol O-methyltransferase Instability and decay of the primary structure of DNA Spontaneous methylation of hemoglobin by S-adenosyl-methionine by a speci¢c and saturable mechanism Nonenzymatic methylation of DNA by S-adenosylmethionine in vitro The crystal structure of an all-RNA hammerhead ribozyme: a proposed mechanism for RNA catalytic cleavage Solution structure of RNA duplexes containing alternating CG base pairs: NMR study of r(CGCGCG)2 and 2P-O-Me(CGCGCG)2 under low salt conditions Crystal structure of 2P-O-Me-(CGCGCG)2, an RNA duplex at 1.30 A î resolution. keywords: adomet; capacity; catalysis; catalytic; chemistry; class; complex; crucial; dna; dsrna; enzyme; evolution; evolutionary; figure; functional; genetic; genome; genomic; hydroxyl; iii; information; intermediate; large; limit; material; mechanism; methylase; methylation; methyltransferase; model; modern; modi¢cation; non; nucleic; nucleolar; origin; polymerase; post; pre; proof; protein; radical; reaction; reading; reductase; reduction; repair; ribonucleotide; ribose; ribozyme; rna; rna world; role; rrna; simple; single; site; snornas; speci¢c; step; structure; synthesis; transition; world; ¢rst cache: cord-315616-pvt0amth.txt plain text: cord-315616-pvt0amth.txt item: #515 of 647 id: cord-316033-xg8eb2nm author: Easton, Alice title: Molecular evidence of hybridization between pig and human Ascaris indicates an interbred species complex infecting humans date: 2020-11-06 words: 10463 flesch: 35 summary: Previous studies using Ascaris mitochondrial genomes or genes suggest there are A. lumbricoides-type (human-associated) and A. suum-type (pig-associated) clades (Anderson and Jaenike, 1997; Cavallero et al., 2013; Zhou et al., 2011) . Draft A. suum genomes have previously been constructed from worms obtained from pigs in Australia (Jex et al., 2011) and in the United States Wang et al., 2012) . keywords: a. suum; additional; alv5; analyses; ancestry; approach; ascariasis; ascaris; ascaris genome; ascaris lumbricoides; ascaris suum; assemblies; assembly; available; betson; blocks; chromosome; circos; clades; clusters; coding; color; comparative; comparison; complete; complex; coverage; current; data; denmark; differences; different; disease; distinct; diversity; dna; draft; elegans; elimination; endemic; et al; evolutionary; example; expansion; extensive; female; figure; file; frequency; genes; genetic; genome; genomic; germline; global; haplotypes; health; heterozygous; high; homozygous; hosts; human; human ascaris; illumina; individual; infected; infection; interbreeding; jex; kenya; lack; large; libraries; like; likely; local; low; lumbricoides; majority; methods; mitochondrial; mitochondrial genomes; model; molecular; multiple; nejsum; nematode; non; novo; nuclear; number; order; parasite; patterns; phylogenetic; phylogeny; pigs; population; positions; potential; present; protein; quality; ratio; reads; recombination; reference; regions; resistance; samples; scaffolds; sequences; sequencing; shared; significant; similar; similarity; single; snps; somatic; species; specimens; spp; structure; studies; study; supplementary; supplementary file; suum; table; tajima; time; transmission; treatment; tree; unique; use; variation; version; villages; wang; wang et; wide; windows; worms; zoonotic cache: cord-316033-xg8eb2nm.txt plain text: cord-316033-xg8eb2nm.txt item: #516 of 647 id: cord-316096-3fnwosst author: Jin, Huali title: Induction of Th1 type response by DNA vaccinations with N, M, and E genes against SARS-CoV in mice date: 2005-03-25 words: 4527 flesch: 48 summary: In the present study, it was consistent with their work that the N protein construct could induce the highest SARS-specific IgG, T cell proliferation, and in vivo CTL response (lysis rate of 50.6%) compared with M protein gene (lysis rate of 17%) and E protein gene (lysis rate of 5.6%) (Fig. 4) . As for the viral vaccine design, much attention has been focused on the induction of T cell responses, especially for the generation of cytotoxic T lymphocytes (CTL) . keywords: activity; analysis; antibodies; antibody; antigen; assay; cells; cfse; challenge; constructs; control; coronavirus; cov; ctl; day; dna; dth; encoding; expression; fig; gene; group; highest; human; ifn; immune; immunization; immunized; immunodeficiency; induction; infection; influenza; levels; lysis; mice; mouse; nucleocapsid; pcd3d; pcr; primer; products; proliferation; protection; protein; responses; rna; sars; specific; target; th1; total; type; vaccination; vaccine; vector; viral; virus; vivo cache: cord-316096-3fnwosst.txt plain text: cord-316096-3fnwosst.txt item: #517 of 647 id: cord-316434-mz4y5am2 author: Yang, Benjamin title: Co-administration with DNA encoding papillomavirus capsid proteins enhances the antitumor effects generated by therapeutic HPV DNA vaccination date: 2015-06-25 words: 5860 flesch: 39 summary: In addition, the observed enhancement of CD8 + T cell immune responses by DNA encoding L1 and L2 was also found to extend to HPV-16 L1/L2 system. Studies have shown that L1 and L2 are generally much more effective in eliciting CD4+ T cell responses keywords: administration; analysis; antigen; antitumor; bpv1; bpv1 l1; c57bl/6; cd4; cd8; cell; cell immune; combination; crt; cytometry; data; dna; effects; encoding; enhancement; flow; gene; generation; group; help; hpv; hpv-16; human; immune; immune responses; intracellular; mice; mouse; ova; papillomavirus; pcdna3; potency; responses; specific; specific cd8; splenocytes; strategies; strategy; t cell; therapeutic; tumor; vaccinated; vaccination; vaccine; week cache: cord-316434-mz4y5am2.txt plain text: cord-316434-mz4y5am2.txt item: #518 of 647 id: cord-316534-ep7ezoko author: Gamble, Lena J title: Current progress in the development of a prophylactic vaccine for HIV-1 date: 2010-12-22 words: 11976 flesch: 31 summary: 148, 253 In an effort to develop HIV-1 vaccines, researchers within this same group generated combinatorial libraries of HRV capsid-incorporated HIV-1 gp41 epitope. 149 Commercial and clinical Ad development of HIV-1 vaccines have progressed preferentially more than vector systems such as HRV because the flexibility of Ad generally exceeds current rhinovirus systems. keywords: ability; able; activity; ad5; adenovirus; administration; aids; amino; analysis; animal; antibodies; antibody; antigen; approach; attempts; attenuated; boost; capsid; cd4; cell; cellular; challenge; chimeric; colleagues; combination; control; delivery; design; development; different; disease; display; diversity; dna; drug; early; effective; efficacy; efforts; envelope; epitope; expression; fiv; gag; gene; glycoprotein; gp120; gp41; group; haart; helper; hexon; high; hiv infection; hiv vaccine; hiv-1; host; human; human immunodeficiency; humoral; hvr2; hvr5; hydrodynamic; immune; immune responses; immunity; immunization; immunodeficiency; immunodeficiency virus; immunogenicity; immunological; important; incorporated; incorporation; increased; individuals; induction; infection; levels; like; long; macaques; means; mice; models; molecular; monkeys; mper; mucosal; nabs; neutralization; neutralizing; novel; pathogenic; patients; pei; phase; placebo; plasmid; potential; prime; progression; promising; prophylactic; prophylactic vaccine; protection; protein; recombinant; replication; research; respect; response; results; review; rhesus; safe; safety; scientists; serotype; shiv; simian; site; siv; specific; step; strategies; strategy; structure; studies; study; subtype; system; systemic; term; thailand; therapy; transfer; transgene; transmission; trial; type; use; vaccination; vaccine; vaccine development; vaccine vectors; vectors; viral; virus; virus type; viruses; vivo cache: cord-316534-ep7ezoko.txt plain text: cord-316534-ep7ezoko.txt item: #519 of 647 id: cord-317021-o30zylrq author: Zhai, Yujia title: SmartBac, a new baculovirus system for large protein complex production date: 2019-02-10 words: 7698 flesch: 50 summary: Recently, the biGBac method enabled rapid multiple GECs assembly for large multiprotein complexes expression by a modular Mix and Match approach (Weissmann and Peters, 2018; Weissmann et al., 2016) . One method for obtaining large protein complexes is to extract them from biological tissues. keywords: 5v1tg; abcd; acceptor; affinity; assembly; bacmid; baculovirus; best; bigbac; cells; cloning; competent; complex; complexes; copy; cryo; different; dna; donor; dynactin; efficient; efgh; egfp; electron; entire; et al; exocyst; expressed; expression; fig; final; fluorescent; foreign; fragments; gecs; gene; gibson; high; human; infected; insect; kda; large; like; loxp; methods; molecular; multibac; multiple; multiprotein; new; origin; pcr; plasmid; polyprotein; positive; primers; production; promoter; protease; protein; purification; purified; recombinant; recombination; replication; scheme; screening; sequence; single; site; size; smartbac; specific; strategy; strep; structural; subunit; successful; system; table; tagged; tagrfp; target; terminal; terminus; tev; transfer; twin; types; usa; vectors; white cache: cord-317021-o30zylrq.txt plain text: cord-317021-o30zylrq.txt item: #520 of 647 id: cord-317213-vhprfb1o author: Tram, Dai Thien Nhan title: Advances in nanomaterials and their applications in point of care (POC) devices for the diagnosis of infectious diseases date: 2016-09-26 words: 11582 flesch: 39 summary: Apart from the aforementioned strengths of this system, it did exhibit certain limitations (Zhu et al., 2014) . More recently, Zhu et al. developed an immunoassay based on similar concepts, but with certain alterations to expunge the existing drawbacks (Zhu et al., 2014) . keywords: acid; addition; advances; amplification; analysis; analyte; antibodies; antibody; antigens; applications; assay; aunps; bacteria; beads; binding; biological; biomarkers; biosensors; blood; capable; capture; carbon; care; change; clinical; coli; complex; concentration; conventional; cost; dengue; density; detection; development; devices; diagnosis; different; diseases; disposable; dna; ecm; efficiency; electrochemical; electrodes; elisa; energy; enhanced; escherichia; et al; example; excellent; extent; field; fig; flow; fluorescence; free; gene; gold; graphene; hbv; hcv; hepatitis; hev; high; hiv; human; igg; immunoassay; immunosensors; infectious; isothermal; key; kinds; labels; lateral; level; liu; lod; magnetic; materials; metal; methods; microfluidic; min; mnps; molecules; multiplexed; nanoparticles; nanotechnology; nat; need; nps; nucleic; optical; oxide; pathogens; patients; pcr; performance; poc; point; poor; present; pretreatment; probes; process; produce; properties; proteins; qds; quantification; quantitative; quantum; range; rapid; real; recent; reported; reproducibility; research; resonance; resource; results; rna; role; salmonella; sample; selectivity; sensing; sensitive; sensitivity; separation; sequence; serum; signals; silver; simultaneous; single; size; solution; specific; step; strains; study; surface; system; target; techniques; technology; testing; tests; time; tuberculosis; type; typhimurium; use; viral; virus; viruses; water; world; zhu cache: cord-317213-vhprfb1o.txt plain text: cord-317213-vhprfb1o.txt item: #521 of 647 id: cord-317591-qa6oxy4j author: Fukushima, Akiko title: Development of a Chimeric DNA-RNA Hammerhead Ribozyme Targeting SARS Virus date: 2009-05-07 words: 3609 flesch: 49 summary: RNA ribozymes are rapidly degraded in both culture medium and living cells by RNase, which diminishes copy number of the ribozyme. Hammerhead ribozymes contain two functional modules: a catalytic core which cleaves the target RNA and contains several conserved bases, and flanking regions which, through nucleic acid complementarity, direct the ribozyme core to a specific target site. keywords: acute; catalytic; cells; chimeric; chimeric dna; cleavage; cleaved; coronavirus; cov; cov rna; dbt; diseases; dna; expression; gel; gene; guc; hammerhead; hammerhead ribozyme; hepatitis; inhibited; mhv; min; mismatch; mrna; multiplication; new; patients; phosphorothioate; polyethylenimine; reaction; respiratory; ribozyme; rna; rna hammerhead; sars; sequence; severe; site; specific; structure; study; syndrome; synthesized; synthetic; target; treatment; viral; virus; vitro; vivo cache: cord-317591-qa6oxy4j.txt plain text: cord-317591-qa6oxy4j.txt item: #522 of 647 id: cord-318276-so5jooj0 author: Bertholet, Christine title: Vaccinia virus produces late mRNAs by discontinuous synthesis date: 1987-07-17 words: 6229 flesch: 53 summary: Another interesting question is whether the leader RNA sequences are also translated. Synthesis of polyriboadenylic acid How do eucaryotic ribosomes select initiation regions in messenger RNA? Bifunctional messenger RNAs in eukaryotes The role of RNA priming rn viral and trypanosomal mRNA synthesis Characterization of leader RNA sequences on the virion and mRNAs of mouse hepatitis virus, a cytoplasmic RNA virus Arrangement of late mRNAs transcribed from a 7.1-kilobase EcoRl vaccinia virus DNA fragment Molecular Cloning: A Laboratory Manual Control of induced thymidine kinase activity rn the poxvirus infected cell The induction and repression of thymidine kinase in the poxvirus-infected HeLa cell Analysis of single-and double-stranded nucleic acids on polyacrylamide and agarose gels by using glyoxal and acridine orange Reproduction of poxviruses Replication of poxviruses Identification of a novel Y branch structure as an intermediate in trypanosome mRNA processing: evidence for Pans splicing Hybridization and sedimentation studies on early and late vaccinia messenger RNA A cDNA clomng vector that permrts expression of cDNA inserts in mammalian cells Soluble endoribonuclease activity from vaccinia virus: specific cleavage of virion-assocrated highmolecular weight RNA La crosse virions contain a primer-stimulated RNA polymerase and a methylated cap-dependent endonuclease A unique cap (m7GpppXm)-dependent influenza vrnon endonuclease cleaves capped RNAs to generate the primers that rmtiate vrral RNA transcnption Labeling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase keywords: analysis; atg; bertholet; cdna; cells; clones; cloning; codon; corresponding; different; dna; downstream; early; end; et al; expression; extension; figure; fragments; gene; genome; genomic; heterogeneity; hindlll; hybridization; infected; infection; initiation; late; late rna; leader; length; long; map; mechanism; molecules; moss; mrna; nuclease; nucleotides; poly(a; primer; probes; region; residues; rna; rnas; sequences; site; size; ssc; strand; stretch; structure; synthesis; transcribed; transcription; translation; upstream; vaccinia; vaccinia virus; viral; virus; wittek cache: cord-318276-so5jooj0.txt plain text: cord-318276-so5jooj0.txt item: #523 of 647 id: cord-318609-211m5b79 author: Yang, Chen title: Accurate, rapid and low-cost diagnosis of Mycoplasma pneumoniae via fast narrow-thermal-cycling denaturation bubble-mediated strand exchange amplification date: 2020-10-11 words: 4727 flesch: 34 summary: This result demonstrated that ASEA was able not only to accomplish the amplification of the target sequence of M. pneumoniae, but also to avoid non-specific amplification and to distinguish M. pneumoniae from other common pathogens, suggesting the feasibility and good specificity of this method for M. pneumoniae detection. The sensitivity of ASEA was evaluated by employing tenfold serial dilution of M. pneumoniae genomic DNA ranging from 1.0 × 10 −11 M to 1.0 × 10 −18 M as the templates. keywords: amplification; asea; clinical; conventional; cost; cycling; denaturation; detection; diagnosis; dna; exchange; extracts; fig; fluorescence; genomic; genomic dna; infection; isothermal; lamp; lower; method; min; mixture; mycoplasma; pathogens; patients; pcr; pneumoniae; polymerase; positive; primers; rapid; reaction; real; respiratory; results; sensitive; sensitivity; specificity; specimens; sputum; strand; symptoms; t t; temperature; thermal; time; time pcr; value; work cache: cord-318609-211m5b79.txt plain text: cord-318609-211m5b79.txt item: #524 of 647 id: cord-319116-2ts6zpdb author: Ruggiero, Emanuela title: G-quadruplexes and G-quadruplex ligands: targets and tools in antiviral therapy date: 2018-04-20 words: 9174 flesch: 33 summary: Mass spectrometry competition analysis revealed a stronger preference for HIV-1 G4s over HSV-1, but generally, viral G4s were preferentially bound, when compared to the telomeric G4. Since c-exNDI selectivity towards HSV-1 G4s in vitro resulted to be good but not outstanding, the marked anti-HSV-1 activity was likely due also to the massive presence of viral G4s in the cell nucleus, which was demonstrated to occur during HSV-1 replication (70) . keywords: able; acids; activity; addition; agents; analysis; antiviral; antiviral activity; b19; binding; biological; cancer; cell; cellular; chromatin; clinical; coding; compounds; conserved; control; core; cycle; data; date; dependent; different; diseases; dna; drug; duplex; ebna1; ebv; effects; family; figure; form; formation; function; g4 ligands; g4s; gene; general; genome; growth; hbv; hcv; herpes; herpesvirus; high; hiv-1; host; human; infected; infection; inhibition; interaction; key; kshv; latent; leading; life; ligands; likely; long; ltr; mechanism; molecular; molecules; mrna; nef; new; non; nucleic; parallel; pds; positive; possible; potential; presence; promising; promoter; properties; protein; putative; quadruplex; recent; region; regulation; regulatory; related; replication; reported; research; rich; rna; role; selective; selectivity; sequences; small; specific; stabilization; step; strand; structures; synthesis; targeting; targets; telomerase; telomeric; terminal; therapeutic; therapy; tmpyp4; transcription; treatment; unique; viral; viral g4s; virus; viruses; vivo cache: cord-319116-2ts6zpdb.txt plain text: cord-319116-2ts6zpdb.txt item: #525 of 647 id: cord-319799-h9kot3og author: Schäfer, Alexandra title: Epigenetic Landscape during Coronavirus Infection date: 2017-02-15 words: 10092 flesch: 29 summary: It is becoming well established that many DNA viruses, and to some lesser extent RNA viruses, have evolved functions that antagonize the regulatory machine of the host epigenome, leading to regulated changes in host gene expression that lead to a favorable environment for virus replication and spread [36] . Over the last decade, research efforts have revealed a dynamic range of epigenetic factors that shape and regulate chromatin status, leading to changes in host gene expression patterns, and therefore to alterations in phenotypes. keywords: acetylation; activation; active; acute; antiviral; approaches; binding; biology; calu3; cells; chip; chromatin; complex; control; coronavirus; cov; cpg; crucial; data; different; disease; dna; dna methylation; downstream; elements; enhancers; enzymes; epigenetic; epigenome; expression; factors; faire; figure; formaldehyde; function; gene; gene expression; genome; h3k4me3; h5n1; hand; high; histone; histone modifications; host; hpi; human; ifn; immune; immunity; important; induced; infection; influenza; innate; integration; interactions; interferon; isg; isgs; landscape; levels; like; marks; mechanisms; mers; method; methylation; modifications; molecules; new; non; ns1; nucleosome; outcomes; particular; pathogen; pathogenesis; pathways; patterns; post; promoter; protein; regions; regulated; regulation; regulatory; remodeling; replication; research; respiratory; response; rna; role; sars; sequence; sites; specific; start; state; status; structure; studies; study; syndrome; systems; tails; transcription; type; viral; viruses; wide cache: cord-319799-h9kot3og.txt plain text: cord-319799-h9kot3og.txt item: #526 of 647 id: cord-319884-d8n0aokl author: Natesan, Mohan title: Protein Microarrays and Biomarkers of Infectious Disease date: 2010-12-16 words: 7097 flesch: 31 summary: Drug Des Protein-protein interactions and selection: Array-based techniques for screening disease-associated biomarkers in predictive/early diagnosis Defining the humoral immune response to infectious agents using high-density protein microarrays Design of high-density antibody microarrays for disease proteomics: Key technological issues Extensive antibody cross-reactivity among infectious gram-negative bacteria revealed by proteome microarray analysis Analysis of the human immune response to vacccina by use of novel protein microarray suggests that antibodies recognize less than 10% of the total viral proteome Applications of protein microarrays for biomarker discovery Protein microarrays: High-throughput tools for proteomics Advances and perspectives in aptamer arrays Affibody molecules in protein capture microarrays: Evaluation of multidomain ligands and different detection formats Use of a single-chain antibody library for ovarian cancer biomarker discovery Reversephase protein microarrays: Application to biomarker discovery and translational medicine Development of reverse phase protein microarrays for clinical applications and patient-tailored therapy Reverse phase protein microarrays which capture disease progression show activation of pro-survival pathways at the cancer invasion front Analysis of signaling pathways in 90 cancer cell lines by protein lysate array Reverse-phase protein lysate microarrays for cell signaling analysis Multiplex approaches in protein microarray technology Printing proteins as microarrays for high-throughput function determination Self-assembling protein microarrays Global analysis of protein activities using proteome chips Proteome-wide analysis of the serological response to vaccinia and smallpox Antibody profiling by proteome microarray reveals the immunogenicity of the attenuated smallpox vaccine modified vaccinia virus ankara is comparable to that of Dryvax A Burkholderia pseudomallei protein microarray reveals serodiagnostic and cross-reactive antigens Protein microarray for profiling antibody responses to Yersinia pestis live vaccine Serologic survey of the sentinel animals for plague surveillance and screening for complementary diagnostic markers to F1 antigen by protein microarray Antibody profiling in plague patients by protein microarray From protein microarrays to diagnostic antigen discovery: A study of the pathogen Francisella tularensis Immunodominant Francisella tularensis antigens identified using proteome microarray Candidate antigens for Q fever serodiagnosis revealed by immunoscreening of a Coxiella burnetii protein microarray Large scale immune profiling of infected humans and goats reveals differential recognition of Brucella melitensis antigens A genome-wide proteome array reveals a limited set of immunogens in natural infections of humans and white-footed mice with Borrelia burgdorferi Genome-wide study of Pseudomonas aeruginosa outer membrane protein immunogenicity using self-assembling protein microarrays Bacterial protein microarrays for identification of new potential diagnostic markers for Neisseria meningitidis infections Analysis of phagosomal proteomes: From latex-bead to bacterial phagosomes Anthrax infection inhibits the AKT signaling involved in the E-cadherin-mediated adhesion of lung epithelial cells Capturing host-pathogen interactions by protein microarrays: Identification of novel streptococcal proteins binding to human fibronectin, fibrinogen, and C4BP Profiling the humoral immune response to infection by using proteome microarrays: high-throughput vaccine and diagnostic antigen discovery Identification of humoral immune responses in protein microarrays using DNA microarray data analysis techniques Single step generation of protein arrays from DNA by cell-free expression and in situ immobilisation (PISA method) Distinct formats of protein microarrays have been developed for different applications, including abundance-based and function-based methods. keywords: abundance; alternative; analysis; antibodies; antibody; antigens; applications; approach; assay; bacteria; bead; binding; biomarkers; capture; cell; chip; clinical; coli; complex; control; cross; data; detection; development; diagnostic; different; discovery; disease; dna; domains; dryvax; example; expression; fluorescent; format; free; function; genome; gst; high; host; human; identification; igg; immune; important; infection; interactions; label; limited; methods; microarrays; molecules; monkeypox; multiplexed; multiplexing; new; non; number; pathogen; patients; pestis; phase; plague; potential; printing; probes; profiling; protein; protein microarrays; proteome; purified; reactive; reactivity; recombinant; reported; research; responses; results; samples; screening; sera; serum; significant; similar; single; small; smallpox; specific; specificity; spr; studies; study; surface; system; technology; throughput; tularensis; usa; use; useful; vaccinated; vaccination; vaccine; vaccinia; viral; virus; vzv cache: cord-319884-d8n0aokl.txt plain text: cord-319884-d8n0aokl.txt item: #527 of 647 id: cord-320005-i30t7cvr author: Pardo, A. title: The Human Genome and Advances in Medicine: Limits and Future Prospects date: 2004-03-31 words: 4923 flesch: 45 summary: A blueprint for the genomic era Human genome sequencing Available at The genome sequence of Drosophila melanogaster Genome sequence of the rematode C. elegans: a platform for investigating biology. The identification of the different groups of genes involved in the pathogenic processes of human disease will also facilitate the discovery of new molecular targets that can eventually be used in the treatment of such diseases. keywords: analysis; bases; biology; case; cell; chromosome; code; complete; consortium; declaration; differences; disease; dna; drugs; elements; example; expression; factors; fibrosis; future; general; genes; genetic; genome; genomics; greater; health; hgp; human; human genome; individuals; international; medicine; molecular; new; noncoding; number; organisms; private; processes; project; proteins; public; pulmonary; recombination; regions; repetitive; research; result; rights; rise; sequences; sequencing; set; single; snps; specific; task; technologies; technology; understanding; virus; years cache: cord-320005-i30t7cvr.txt plain text: cord-320005-i30t7cvr.txt item: #528 of 647 id: cord-320015-lbr2q4qh author: Chinchar, V. Gregory title: The Molecular Biology of Frog Virus 3 and other Iridoviruses Infecting Cold-Blooded Vertebrates date: 2011-10-20 words: 9150 flesch: 36 summary: However, because the absence of a full-sized vIF-2α gene in FV3 does not adversely affect viral protein synthesis, other viral proteins may also play roles in maintaining viral protein synthesis in infected cells. As progressively larger amounts of viral proteins bind the membrane scaffold, crescent-shaped structures that resemble icosahedral vertices are formed. keywords: 18k; 53r; addition; analysis; antiviral; apoptosis; asmos; assembly; associated; atv; authors; capsid; cells; cellular; characterization; complete; control; core; dna; early; entry; enveloped; evasion; events; expression; factor; family; fish; following; formation; frog; frog virus; function; fv3; gene; gene expression; genome; genomic; grouper; groups; growth; homolog; host; icp46; iii; iiα; immediate; immune; immunity; infected; infection; inhibition; iridoviridae; iridovirus; k3l; kinase; knock; laevis; large; late; like; likely; marked; mcp; membrane; molecular; mutants; non; novel; order; orf; particles; pkr; polymerase; product; protein; putative; ranavirus; range; recombinant; recombination; replication; resistance; results; rna; rnase; role; sensitive; sequence; sgiv; singapore; sirna; small; species; specific; structural; studies; study; synthesis; targeted; temperature; tfv; transcription; transcripts; vaccinia; vas; vector; vertebrates; vif-2α; viral; viral dna; viral gene; viral proteins; virion; virus; viruses; vitro; vivo; vpol; xenopus cache: cord-320015-lbr2q4qh.txt plain text: cord-320015-lbr2q4qh.txt item: #529 of 647 id: cord-320501-xqgqq55q author: Theobald, Nigel title: Emerging vaccine delivery systems for COVID-19: Functionalised silica nanoparticles offer a potentially safe and effective alternative delivery system for DNA/RNA vaccines and may be useful in the hunt for a COVID-19 vaccine date: 2020-06-24 words: 1204 flesch: 41 summary: A DNA/RNA vaccine introduces the DNA/RNA into the cell to produce the spike protein, which will then be internally processed by the cell and presented on the cell surface to immune cells. The presence of PEI will facilitate the endosomal disruption and release of nucleic acid but also presents a danger signal that will up regulate surface markers and hence attract immune cells and boost the immune response. keywords: acid; antigen; cell; covid-19; delivery; dna; drug; electroporation; immune; lnps; nanoparticles; nucleic; nuvec; protein; response; rna; safe; silica; surface; system; vaccine; virus cache: cord-320501-xqgqq55q.txt plain text: cord-320501-xqgqq55q.txt item: #530 of 647 id: cord-320628-uc97t0ea author: Huguenin, Antoine title: Broad respiratory virus detection in infants hospitalized for bronchiolitis by use of a multiplex RT‐PCR DNA microarray system date: 2012-04-12 words: 3576 flesch: 32 summary: Detection of human metapneumovirus RNA sequences in nasopharyngeal aspirates of young French children with acute bronchiolitis by real-time reverse transcriptase PCR and phylogenetic analysis The association of newly identified respiratory viruses with lower respiratory tract infections in Korean children Simultaneous detection of influenza A, B, and C viruses, respiratory syncytial virus, and adenoviruses in clinical samples by multiplex reverse transcription nested-PCR assay Simultaneous detection of fourteen respiratory viruses in clinical specimens by two multiplex reverse transcription nested-PCR assays Assessment of the French Consensus Conference for Acute Viral Bronchiolitis on outpatient management: Progress between Detection of respiratory syncytial virus A and B and parainfluenzavirus 3 sequences in respiratory tracts of infants by a single PCR with primers targeted to the L-polymerase gene and differential hybridization Detection of respiratory syncytial virus, parainfluenzavirus 3, adenovirus and rhinovirus sequences in respiratory tract of infants by polymerase chain reaction and hybridization Bronchiolitis viruses Respiratory viruses in children admitted to hospital intensive care units: Evaluating the CLART1 Pneumovir DNA array Epidemiology and clinical presentations of the four human coronaviruses 229E, HKU1, NL63, and OC43 detected over 3 years using a novel multiplex real-time PCR method Strengths and weaknesses of FDA-approved/ cleared diagnostic devices for the molecular detection of respiratory pathogens Viral infections in relation to age, atopy, and season of admission among children hospitalized for wheezing Association of respiratory picornaviruses with acute bronchiolitis in French infants Epidemiological, molecular, and clinical features of enterovirus respiratory infections in French children between 1999 and Human Bocavirus quantitative DNA detection in French children hospitalized for acute bronchiolitis Respiratory picornaviruses and respiratory syncytial virus as causative agents of acute expiratory wheezing in children Comparison of real-time PCR assays with fluorescent-antibody assays for diagnosis of respiratory virus infections in children Simultaneous detection and high-throughput identification of a panel of RNA viruses causing respiratory tract infections Two RT-PCR based assays to detect human metapneumovirus in nasopharyngeal aspirates Detection of respiratory viruses by molecular methods In very young infants severity of acute bronchiolitis depends on carried viruses Lyophilized combination pools of enterovirus equine antisera: Preparation and test procedures for the identification of fields strains of 19 group A coxsackievirus serotypes Human picornavirus and coronavirus RNA in nasopharynx of children without concurrent respiratory symptoms Association of rhinovirus infection with increased disease severity in acute bronchiolitis High incidence of human bocavirus infection in children in Spain Rapid detection of respiratory tract viral infections and co-infections in patients with influenzalike illnesses by use of RT-PCR DNA microarray Systems The impact of dual viral infection in infants admitted to a pediatric intensive care unit associated with severe bronchiolitis Dual infection of infants by human metapneumovirus and human respiratory syncytial virus is strongly associated with severe bronchiolitis Multiple viral respiratory pathogens in children with bronchiolitis Acute viral bronchiolitis in children-A very common condition with few therapeutic options Nasopharyngeal aspirate samples were collected at the admission and routinely addressed to the virology laboratory for respiratory viruses detection by direct immunofluorescence and virus isolation on cell culture, divided in aliquots and then stored at À808C until processing with the multiplex RT-PCR DNA microarray. keywords: acute; admission; advs; assays; bronchiolitis; cases; children; classical; clinical; common; detection; direct; dna; dna microarray; epidemiological; et al; hbov; hospital; hrsv; human; immunofluorescence; infants; infections; mahony; marguet; microarray; mixed; multiplex; nasopharyngeal; pcr; pediatric; present; respiratory; results; samples; severity; single; specimens; study; syncytial; table; time; tract; viral; viruses cache: cord-320628-uc97t0ea.txt plain text: cord-320628-uc97t0ea.txt item: #531 of 647 id: cord-321386-u1imic5l author: Li, Chun title: Protein Sequence Comparison and DNA-binding Protein Identification with Generalized PseAAC and Graphical Representation date: 2018-02-17 words: 5524 flesch: 56 summary: The results illustrated the better performance of our method. Identification of DNA-binding proteins using support vector machines and evolutionary profiles DNA-prot: identification of DNA binding proteins from protein sequence information using random forest iDNA-prot: identification of DNA binding proteins using random forest with grey model enDNA-Prot: identification of DNA-binding proteins by applying ensemble learning gDNA-Prot: predict DNA-binding proteins by employing support vector machine and a novel numerical characterization of Protein sequence Numerical characterization of protein sequences based on the generalized Chou's pseudo amino acid composition Light-directed synthesis of peptide nucleic acids (PNAs) chips Protein structure prediction from sequence variation Principles that govern the folding of protein chains Prediction of protein cellular attributes using pseudoamino acid composition Using amphiphilic pseudo amino acid composition to predict enzyme subfamily classes Pseudo amino acid composition and its applications in bioinformatics, proteomics and system biology iNuc-STNC: a sequence-based predictor for identification of nucleosome positioning in genomes by extending the concept of SAAC and Chou's PseAAC PseKNC-General: a cross-platform package for generating various modes of pseudo nucleotide compositions Identify recombination spots with pseudo dinucleotide composition Sequence-based identification of recombination spots using pseudo nucleic acid representation and recursive feature extraction by linear kernel SVM Protein sequence comparison based on physicochemical properties and the position-feature energy matrix A Novel protein characterization based on pseudo amino acids composition and star-like graph topological indices Chaos game representation of protein sequences based on the detailed HP model and their multifractal and correlation analyses A computational approach to simplifying the protein folding problem Modeling study on the validity of a possibly simplified representation of proteins 2-D graphical representation of protein sequences and its application to coronavirus phylogeny Clustering of the protein design alphabets by using hierarchical self-organizing map A novel descriptor of protein sequences and its application BindN: a web-based tool for efficient prediction of DNA and RNA binding sites in amino acid sequences Amino acid difference formula to help explain protein Correlation analysis of some physical chemistry properties among genetic codons and amino acids Similarity analysis of protein sequences based on the normalized relative entropy On 3-D graphical representation of DNA primary sequences and their numerical characterization Analysis of similarity/dissimilarity of DNA sequences based on novel 2-D graphical representation Milestones in graphical bioinformatics Graphical representation of proteins Representation of proteins as walks in 20-D space Phylogenetic analysis of DNA sequences based on k-word and rough set theory On the characterization of DNA primary sequences by triplet of nucleic acid bases DV-Curve: A novel intuitive tool for visualizing and analyzing DNA sequences A Novel method for similarity analysis and protein sub-cellular localization prediction The Zagreb indices 30 years after On vertex-degree-based molecular structure descriptors Graphs with fixed number of pendent vertices and minimal Zeroth-order general Randic index New invariant of DNA sequences Genetic drift of human coronavirus OC43 spike gene during adaptive evolution WHO MERS-CoV global summary and risk assessment Assessing the accuracy of prediction algorithms for classification: an overview iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition Using deformation energy to analyze nucleosome positioning in genomes iRNA-PseU: identifying RNA pseudouridine sites Recognition of protein coding genes in the yeast genome at better than 95% accuracy based on the Z curve Using a Euclid distance discriminant method to find protein coding genes in the yeast genome The authors' greatest gratitude goes to the anonymous referees for their insightful suggestions and generous support. This study is undertaken to develop an efficient computational approach for timely encoding protein sequences and extracting the hidden information. keywords: acc; acids; adjacency; amino; amino acids; analysis; benchmark; binding; comparison; composition; coronaviruses; corresponding; covs; dataset; distance; dna; dnaset; edges; feature; fig; generalized; graph; graphical; group; identification; independent; index; information; letter; line; matrix; mcc; method; model; nbps; negative; novel; number; order; parameters; performance; positive; prediction; primary; properties; protein; protein sequence; pseaac; pseudo; representation; results; samples; sequence; species; spike; standard; structure; svm; table; terms; values; vector; vertices cache: cord-321386-u1imic5l.txt plain text: cord-321386-u1imic5l.txt item: #532 of 647 id: cord-321640-kx3t81yh author: Patrone, Paul N. title: Affine analysis for quantitative PCR measurements date: 2020-09-20 words: 7638 flesch: 51 summary: Radiology Viral dynamics in mild and severe cases of covid-19 Real-time cdpcr opens a window into events occurring in the first few pcr amplification cycles Comparison of analytic methods for quantitative real-time polymerase chain reaction data Kinetic outlier detection (kod) in real-time pcr Amplification efficiency: linking baseline and bias in the analysis of quantitative pcr data Real-time pcr: A review of approaches to data analysis Sigmoidal curve-fitting redefines quantitative realtime pcr with the prospective of developing automated highthroughput applications A kinetic-based sigmoidal model for the polymerase chain reaction and its application to high-capacity absolute quantitative real-time pcr Evaluation of qpcr curve analysis methods for reliable biomarker discovery: For example, amplification curves with late-cycle growth may only have a few points above the baseline. keywords: affine; amplification; analysis; approach; background; baseline; cases; collapse; confidence; constraints; copy; curve; cycle; data; detection; dna; effects; errors; example; exponential; factor; false; fig; figure; floor; fluorescence; general; growth; inequality; initial; large; lower; master; master curve; max; measurements; min; model; noise; non; ntcs; number; optimization; point; qpcr; quantitative; reaction; real; reference; relative; result; rna; samples; sars; scale; set; shows; signal; standard; subtraction; systematic; template; testing; threshold; time; transformation; uncertainty; use; values; work cache: cord-321640-kx3t81yh.txt plain text: cord-321640-kx3t81yh.txt item: #533 of 647 id: cord-321697-yua3apfi author: Crigna, Adriana Torres title: Cell-free nucleic acid patterns in disease prediction and monitoring—hype or hope? date: 2020-10-29 words: 10912 flesch: 32 summary: In breast tumour studies, many differentially expressed miRNA have been detected in breast cancer patients compared with healthy women. Additionally, 4 upregulated plasma miRNA (miR-148b, miR-376c, miR-409-3p and miR-801) managed to discriminate breast cancer patients from controls [166] . keywords: acids; activity; acute; advanced; analysis; anti; application; approach; associated; association; biomarkers; biopsy; blood; body; brain; breast; breast cancer; cancer; cancer detection; cancer patients; carcinogenesis; ccf; cell; cervical; cfdna; cfnas; chronic; clinical; cohort; colorectal; colorectal cancer; common; concentration; conditions; controls; covid-19; crc; damage; death; depressive; detection; development; diabetes; diabetic; diagnostic; disease; disorders; dna; dysfunction; early; egfr; evidence; example; exercise; exosomal; expression; factors; free; genetic; great; healthy; higher; hpv; human; identification; increased; individualised; individuals; inflammation; insulin; invasive; ischemic; kras; levels; liquid; lung; lung cancer; management; mdd; medicine; mellitus; meta; metastatic; methylation; micrornas; mir-126; mir-182; mir-21; mir-223; mir-375; mirna; mitochondrial; monitoring; mtdna; mutations; non; novel; nsclc; nucleic; obese; outcomes; overall; oxidative; panel; pathologies; pathology; patients; patterns; personalised; physical; plasma; potential; predictive; present; preventive; profiles; profiling; prognosis; progression; prostate; prostate cancer; psychological; related; risk; samples; sensitivity; serum; signature; significant; small; specific; specificity; stage; stress; stroke; studies; study; subjects; t1d; table; targeted; therapeutic; therapy; time; tool; treatment; tumour; type; upregulated; use cache: cord-321697-yua3apfi.txt plain text: cord-321697-yua3apfi.txt item: #534 of 647 id: cord-321762-7kiahjyy author: Nandy, Ashesh title: Chapter 5 The GRANCH Techniques for Analysis of DNA, RNA and Protein Sequences date: 2015-12-31 words: 9799 flesch: 43 summary: Developments in the graphical representation and numerical characterization of DNA sequences raised the possibilities of using similar analysis of protein sequences, albeit with difficulty arising from the fact that now we have to contend with 20 amino acids making up a protein chain whereas DNA sequences were made up of only four nucleotides. Paper presented at the Indo-US Workshop on Mathematical Chemistry Indexing scheme and similarity measures for macromolecular sequences On 3-D representation of DNA primary sequences Novel analysis of DNA and Protein sequences through Graphical Representation and Numerical Characterization techniques Novel Techniques of Graphical Representation and Analysis of DNA Sequences -A Review Visualization and analysis of DNA sequences using DNA walks Mathematical descriptors of DNA sequences: development and applications New Approaches to Drug-DNA Interactions Based on Graphical Representation and Numerical Characterization of DNA Sequences Graphical representation and mathematical characterization of protein sequences and applications to viral proteins DNA Sequence Visualization Charcaterizations of DNA Primary Sequences Molecular Descriptors for Chemoinformatics, Methods and Principles in Medicinal Chemistry Genome analysis: A new approach for visualisation of sequence organisation in genomes Mathematicalc haracterisationo f chaos, game representation: New algorithms for nucleotide sequence analysis Chaos game representation of similarities and differences between genomic sequences H curves, a novel method of representation of nucleotide series especially suited for long DNA sequences Random walk and gap plots of DNA sequences Graphical analysis of DNA sequence structure: III. keywords: 2d graphical; acids; amino; analysis; applications; approach; authors; axis; basak; bases; case; changes; characteristic; characterization; chemistry; cluster; coding; comparison; composition; compute; conserved; correlations; curves; degeneracy; descriptors; differences; different; dimensional; distance; dna; dna sequences; drug; eigenvalues; et al; evolutionary; exons; field; flu; fractal; gene; gene sequences; genome; globin; granch; graphical; graphical representation; graphs; h5n1; higher; human; interest; invariants; issues; liao; like; long; mathematical; matrices; matrix; method; molecular; moments; nandy; neuraminidase; new; novel; nucleotide; number; numerical; order; paper; phylogenetic; plots; points; possible; potential; primary; prof; properties; protein; protein sequences; randić; range; regions; representation; rna; scheme; sequences; similarities; similarity; species; square; structure; study; surface; techniques; theoretic; time; viral; walk; wang; way; workshop cache: cord-321762-7kiahjyy.txt plain text: cord-321762-7kiahjyy.txt item: #535 of 647 id: cord-322240-z8zkl2xh author: Maeda, Ken title: Isolation of Novel Adenovirus from Fruit Bat (Pteropus dasymallus yayeyamae) date: 2008-02-17 words: 1689 flesch: 42 summary: Until now, a number of RNA viruses have been isolated from bats, but isolation of DNA virus is rare (1) . The isolation of the novel adenovirus seems to be possible because of usage of the primary cells originated from the host; DNA viruses might have more restricted host range than RNA viruses and require host-originated cells for the growth. keywords: adenovirus; analysis; bats; cells; determination; dna; fruit; gbs; genavense; gene; homologous; infections; isolate; isolation; japan; kidney; letters; levofl; novel; oxacin; patient; primary; rapid; rdv; resistance; rna; rv1; sequence; system; transplant; viral; viruses cache: cord-322240-z8zkl2xh.txt plain text: cord-322240-z8zkl2xh.txt item: #536 of 647 id: cord-323029-7hqp8xuq author: Bognár, Zsófia title: Aptamers against Immunoglobulins: Design, Selection and Bioanalytical Applications date: 2020-08-11 words: 19355 flesch: 41 summary: In case of IgE aptamers, however, a salt induced aggregation can readily occur due to intermolecular hybridization of the AuNP modifying aptamer strands that was called hairpin aptamer sticky-end pairing effect by the authors. A method with wide applicability was published by He et al. where a mixture of fluorescentand quencher-labeled nucleic acid strands were able to hybridize to IgE aptamers in the absence of the target molecule bringing the labels in close proximity, which results in a very low fluorescence backgorund signal. keywords: able; absence; acid; activity; addition; affinity; affinity aptamer; amplification; amplified; analysis; antibodies; antibody; antigen; application; approach; aptamer; aptamer binding; aptamer candidates; aptamer complex; aptamer probe; aptamer selection; aptamer strands; aptasensor; assay; autoantibodies; bases; beads; binding; blue; buffer; cancer; capillary; capture; case; cell; change; colorimetric; complementary; complex; concentration; conditions; conjugation; constant; conventional; cross; current; dependent; detection; determination; diagnostic; different; direct; disease; dissociation; dna; domain; effect; electrochemical; electrode; electrode surface; electrophoresis; electrostatic; elisa; end; enhanced; enhancement; enzymatic; enzyme; fab; figure; flow; fluorescence; formation; free; glass; gold; high; higher; human; human ige; hybridization; iga; ige; ige antibodies; ige antibody; ige aptamer; ige binding; ige complex; ige concentration; ige detection; igg; igm; immobilization; immobilized; immune; immunoglobulin; improved; increase; induced; infection; interaction; label; large; length; ligands; limit; lod; magnetic; measured; measurements; membrane; method; migm; modification; modified; molecular; molecule; nanoparticles; negative; non; nucleic; pcr; position; presence; probe; process; processes; properties; protein; protein detection; proximity; quadruplex; r18; ramos; range; reagents; receptors; recognition; region; relevant; resistance; resonance; response; results; rna aptamer; salivary; samples; sandwich; secondary; selected; selection; selective; selectivity; selex; self; sensitive; sensitivity; sensor; separation; sequence; serum; siga; signal; silver; simple; single; specific; specific aptamer; specificity; spr; stability; step; strands; strategy; structure; surface; system; target; target binding; td05; td05 aptamer; temperature; terms; time; tracer; type; ultrasensitive; use; wide cache: cord-323029-7hqp8xuq.txt plain text: cord-323029-7hqp8xuq.txt item: #537 of 647 id: cord-323691-5s5almd2 author: Mishin, Vasiliy P title: A ‘minimal’ approach in design of flavivirus infectious DNA date: 2001-12-04 words: 5068 flesch: 41 summary: Hum Intron insertion facilitates amplification of cloned virus cDNA in Escherichia coli while biological activity is reestablished after transcription in vivo An enhancer in the first intron of the human purine nucleoside phosphorylase-encoding gene Synthesis and characterization of an infectious dengue virus type-2 RNA genome Phylogeny of the genus Flavivirus Construction of a stable and highly infectious intron-containing cDNA clone of plum pox potyvirus and its use to infect plants by particle bombardment An artificial enhancer with multiple response elements stimulates prokaryotic transcriptional activation medicated by various regulatory proteins Nucleotide sequence of the virulent SA-14 strain of Japanese encephalitis virus and its attenuated vaccine derivative, SA-14-14-2 Nucleotide sequence and infectious cDNA clone of the L1 isolate of Pea seed-borne mosaic potyvirus Infectious RNA transcripts from full-length dengue virus type 2 cDNA clones made in yeast In vitro processing of dengue virus type 2 nonstructural proteins NS2A, NS2B, and NS3 Cloned poliovirus complementary DNA is infectious in mammalian cells Flaviviridae: the viruses and their replication Transcription of infectious yellow fever RNA from fulllength cDNA templates produced by in vitro ligation Modulations of the in vitro translational efficiencies of Yellow Fever virus mRNAs: interactions between coding and noncoding regions Assaying the polyadenylation state of mRNAs Molecular Cloning: A Laboratory Manual Alphavirus vectors for gene expression and vaccines Production of infectious poliovirus from cloned cDNA is dramatically increased by SV40 transcription and replication signals Infectious Japanese encephalitis virus RNA can be synthesized from in vitro-ligated cDNA templates Complete nucleotide sequence of the Japanese encephalitis virus genome RNA Promoter-regulatory region of the major immediate early gene of human cytomegalovirus Stable high-level expression of heterologous genes In vitro and In vivo by noncytopathic DNA-based kunjin virus replicon vectors A new strategy in design of +RNA virus infectious clones enabling their stable propagation in E. coli We thank Dr S. Schlesinger for BHK-21 cells, Dr D. Trent for pM343 and pH756 plasmids, and Jennifer Ascañ o for help in manuscript preparation. key: cord-323691-5s5almd2 authors: Mishin, Vasiliy P; Cominelli, Fabio; Yamshchikov, Vladimir F title: A ‘minimal’ approach in design of flavivirus infectious DNA date: 2001-12-04 journal: Virus Research DOI: 10.1016/s0168-1702(01)00371-9 sha: doc_id: 323691 cord_uid: 5s5almd2 Abstract The ‘infectious DNA’ approach, which is based on in vivo transcription of (+)RNA virus genome cDNA cassettes from eukaryotic promoters in transfected cells, became a popular alternative to the classical scheme in the infectious clone methodology. keywords: 5%-utr; activity; analysis; approach; bhk; cassette; cdna; cells; characteristics; clone; cmv; coli; construct; control; design; dna; effect; encephalitis; enhancer; et al; eukaryotic; expression; extension; fig; flavivirus; fragment; gene; genome; growth; infectious; infectivity; isolated; johansen; lopez; luciferase; manufacturer; minimal; parent; pcmvmpje(bghtt; pfu; plaques; plasmid; pos; primer; production; products; promoter; proteins; recovered; reverse; rna; sequence; specific; spurious; stability; substantial; transcription; transfection; viral; virus; viruses; yamshchikov cache: cord-323691-5s5almd2.txt plain text: cord-323691-5s5almd2.txt item: #538 of 647 id: cord-323973-wszo9s3d author: Zhu, Hanliang title: The vision of point-of-care PCR tests for the COVID-19 pandemic and beyond date: 2020-07-20 words: 9786 flesch: 42 summary: This is an old technique that was used in the early days of PCR systems, with three baths with different temperatures and a laboratory technician or robot to move a basket with samples from bath to bath. There was another push to release PCR systems for POC applications and this has contributed to disease diagnosis during pandemics such as the 2014 Ebola outbreak. keywords: acid; amplification; analysis; answer; applications; assay; avian; beads; blood; capable; capillary; capture; care; cartridge; cdna; cell; chain; chamber; channels; chemical; chip; contact; control; cooling; coronavirus; cost; covid-19; cross; cycling; design; detection; development; devices; diagnostics; different; disease; dna; early; ebola; electrophoresis; external; fabrication; fast; field; figure; flow; fluorescence; genexpert; glass; health; heating; high; human; infection; influenza; integrated; isolation; isothermal; lab; lamp; level; lod; low; magnetic; master; materials; method; microchip; microfluidic; miniaturized; mix; molecular; multiple; novel; nucleic; number; pandemic; pathogens; pcr; pcr chip; pcr master; pcr system; pdms; plastic; platform; poc; point; polymerase; portable; preparation; primers; process; products; purification; qpcr; rapid; reaction; reagents; real; respiratory; results; reverse; rna; sample; sample preparation; sars; sequence; short; silica; single; solution; specific; step; subsequent; surface; system; techniques; technology; temperature; test; testing; thermal; time; time pcr; total; unit; value; viral; virus; viruses; vision; volume; world cache: cord-323973-wszo9s3d.txt plain text: cord-323973-wszo9s3d.txt item: #539 of 647 id: cord-324094-23kzr8rq author: Parida, M. M. title: Rapid and real-time detection technologies for emerging viruses of biomedical importance date: 2008-11-01 words: 5710 flesch: 39 summary: LAMP amplifi cation can also be accomplished with the two outer (F3 and B3) and two internal primers (FIP and BIP) but by using the two loop primers (FLP and BLP), the amplifi cation is accelerated and thereby shortens amplifi cation time by one third to one half ( (Notomi et al 2000) . Designing of a highly sensitive and specifi c primer set is crucial for performing LAMP amplifi cation. keywords: amplifi; amplifi cation; assays; bip; cation; chain; clinical; complementary; detection; development; diagnosis; displacement; dna; dye; end; fip; gene; green; gure; high; higher; infection; infl; isothermal; isothermal amplifi; lamp; loop; method; molecular; nucleic; outer; pcr; polymerase; primer; probes; products; quantifi; quantitative; rapid; rapid detection; rapidity; reaction; real; real time; recent; region; reverse; rna; samples; sensitive; sensitivity; sequence; single; specifi; stem; step; strand; structure; sybr; synthesis; taqman; target; template; time; time pcr; transcription; uenza; uorescent; viral; virus; viruses cache: cord-324094-23kzr8rq.txt plain text: cord-324094-23kzr8rq.txt item: #540 of 647 id: cord-324137-nau83mjv author: Saranathan, Nandhini title: G-Quadruplexes: More Than Just a Kink in Microbial Genomes date: 2018-09-14 words: 6751 flesch: 38 summary: An earlier study reports that, following concatemeric replication of HHV-1, the cleavage of unit length genomes and their encapsidation is achieved by the binding of virus proteins to a DNA secondary structure formed by a DNA packaging sequence (pac-1) Taken together, these results suggest that G4s in virus genomes may interact with host proteins not only to facilitate virus latency but also to revoke viruses from latency. keywords: activity; addition; agents; antigenic; antimicrobial; antiviral; bacteria; barr; binding; cells; cellular; conserved; control; core; denitrificans; dna; domain; ebna-1; ebna1; ebola; ebv; editing; epstein; evolution; expression; factors; falciparum; figure; formation; functional; g4s; gene; genome; genomic; hbv; hcv; herpes; herpesvirus; hiv-1; host; human; immune; important; infection; inhibition; integration; key; latency; ligands; long; ltr; microbes; microbial; molecular; motifs; mrna; nef; novel; nucleolin; parasites; pathogens; plasmodium; play; potential; presence; promoter; proteins; quadruplex; radiodurans; recombination; region; regulation; regulatory; repeat; replication; resistance; rich; rna; role; sars; secondary; sequences; specific; stabilization; structures; studies; surface; synthesis; targets; therapeutic; transcription; translation; unique; variation; viral; virulence; virus; viruses cache: cord-324137-nau83mjv.txt plain text: cord-324137-nau83mjv.txt item: #541 of 647 id: cord-324321-y96x8x3h author: Cai, Yingyun title: Down-regulation of transcription of the proapoptotic gene BNip3 in cultured astrocytes by murine coronavirus infection date: 2003-11-10 words: 8540 flesch: 42 summary: These data thus unequivocally establish that MHV infection downregulated BNip3 gene expression in DBT cells. The mechanism by which MHV infection of DBT cells downregulates BNip3 gene expression is currently unknown. keywords: a59; activities; activity; analysis; antiapoptotic; antigen; apoptosis; astrocytes; bcl-2; binding; bnip3; bnip3 expression; bnip3 gene; bnip3 promoter; bnip3 protein; cells; cellular; chloroquine; cis; cns; competitor; constructs; coronavirus; cultured; data; dbt; dbt cells; deletion; dna; e1b; electrophoresis; elements; entry; envelope; essential; et al; experiments; expression; family; fig; fold; fusion; gel; gene; gene expression; hepatitis; host; inactivated; independent; infected; infection; inhibition; jhm; luciferase; lysates; m.o.i; membrane; mhv; mhv infection; microarray; mitochondrial; mock; mouse; mrna; murine; mutant; oblv60; p.i; pcr; pgl3; plasmid; primer; proapoptotic; products; promoter; protein; reduction; regulation; replication; reporter; results; rna; rnas; sequence; specific; strains; study; system; target; transcription; transfection; viral; virus; virus infection; viruses; vsv cache: cord-324321-y96x8x3h.txt plain text: cord-324321-y96x8x3h.txt item: #542 of 647 id: cord-324811-yjwavea5 author: Kidgell, Claire title: Elucidating genetic diversity with oligonucleotide arrays date: 2005 words: 5580 flesch: 30 summary: With regard to genetic diversity analyses, an important practical limitation is the number of specific probe features that can be synthesized on a single array platform, which restricts the extent of variability that can be discovered. Both the spotted DNA microarray and oligonucleotide array platforms can be successfully applied to genetically characterize a strain or species. keywords: analysis; application; approach; arrays; a¡ymetrix; base; basis; change; chromosome; clinical; complete; complex; deletions; density; detection; diversity; dna; drug; et al; expression; extent; falciparum; genes; genetic; genetic diversity; genome; genomic; genotyping; high; human; hybridization; identification; isolates; large; malaria; mapping; markers; mer; microarray; molecular; number; oligonucleotide; oligonucleotide arrays; organisms; pair; parasite; particular; phenotype; plasmodium; platform; polymorphisms; population; potential; probes; quantitative; reference; related; resistance; resolution; sequence; sfp; single; snp; snps; species; speci¢c; strain; studies; techniques; total; traits; tuberculosis; variation; viral; wide; winzeler; yeast cache: cord-324811-yjwavea5.txt plain text: cord-324811-yjwavea5.txt item: #543 of 647 id: cord-324829-0nz0qioh author: Carabineiro, Sónia Alexandra Correia title: Applications of Gold Nanoparticles in Nanomedicine: Recent Advances in Vaccines † date: 2017-05-22 words: 7662 flesch: 32 summary: Recent advances toward clinical applications Polymeric nanoparticles Potent vectors for vaccine delivery targeting cancer and infectious diseases Tracking Targeted Bimodal Nanovaccines: Immune Responses and Routing in Cells, Tissue, and Whole Organism Protection of non-human primates against glanders with a gold nanoparticle glycoconjugate vaccine Synthesis of tumor-associated MUC1-glycopeptides and their multivalent presentation by functionalized gold colloids Metal Based Frameworks for Drug Delivery Systems Gold Nanoparticles: Recent Advances in the Biomedical Applications Additives for vaccine storage to improve thermal stability of adenoviruses from hours to months Assessment of gold nanoparticles as a size-dependent vaccine carrier for enhancing the antibody response against synthetic foot-and-mouth disease virus peptide Structure function attributes of gold nanoparticle vaccine association: Effect of particle size and association temperature Intracellular accumulation and immunological properties of fluorescent gold nanoclusters in human dendritic cells Different-Sized Gold Nanoparticle Activator/Antigen Increases Dendritic Cells Accumulation in Liver-Draining Lymph Nodes and CD8+T Cell Responses Yeast-Expressed Bacteriophage-Like Particles for the Packaging of Nanomaterials Polyelectrolyte Multilayers Assembled Entirely from Immune Signals on Gold Nanoparticle Templates Promote Antigen-Specific T Cell Response Impact of dose, route, and composition on the immunogenicity of immune polyelectrolyte multilayers delivered on gold templates Construction and Immunological Evaluation of CpG-Au@HBc Virus-Like Nanoparticles as a Potential Vaccine Ultrasmall Graphene Oxide Supported Gold Nanoparticles as Adjuvants Improve Humoral and Cellular Immunity in Mice Engineered CpG-Antigen Conjugates Protected Gold Nanoclusters as Smart Self-Vaccines for Enhanced Immune Response and Cell Imaging Endotoxin Nanovesicles: Hydrophilic Gold Nanodots Control Supramolecular Lipopolysaccharide Assembly for Modulating Immunological Responses Epidermal powder immunization induces both cytotoxic T-lymphocyte and antibody responses to protein antigens of influenza and hepatitis B viruses Powder and particle-mediated approaches for delivery of DNA and protein vaccines into the epidermis Recent advances in Hepatitis B vaccination Nanoparticulate mediated transcutaneous immunization: Myth or reality A Solid-in-Oil Dispersion of Gold Nanorods Can Enhance Transdermal Protein Delivery and Skin Vaccination A microarray MEMS device for biolistic delivery of vaccine and drug powders Cancer: Gold nanoparticles were coated with the F1-antigen of Yersinia pestis (bacterium responsible for the plague), using N-hydroxysuccinimide and N-(3-dimethylaminopropyl)-N′-ethylcarbodiimide A recent study showed that animals immunized with a transmissible gastroenteritis virus, conjugated with colloidal gold nanoparticles, produced antibodies with a higher titer than those produced in response to the native virus keywords: able; activity; adjuvant; advances; antibodies; antibody; antigen; applications; approach; assembly; au@ova; cancer; carbohydrate; carriers; causes; cd8; cells; cellular; coated; colloidal; conjugates; cpg; delivery; dendritic; design; development; different; disease; dna; effective; effects; encephalitis; enhanced; figure; free; glycan; glyconanoparticles; glycoprotein; gold; gold nanoparticles; gp120; great; hepatitis; high; hiv; immune; immunity; immunization; immunological; immunotherapy; important; infection; like; m2e; method; mice; molecules; nanomaterials; nanoparticles; nanovaccines; new; novel; peptide; potential; promising; protection; protein; recent; recombinant; response; results; role; self; skin; specific; stability; stable; surface; synthesis; synthesized; synthetic; systems; target; therapeutic; time; toxicity; treatment; tumor; types; use; usgo; vaccination; vaccine; viral; virus; viruses; vivo cache: cord-324829-0nz0qioh.txt plain text: cord-324829-0nz0qioh.txt item: #544 of 647 id: cord-324944-ixh3ykrc author: Mitsakakis, Konstantinos title: Diagnostic tools for tackling febrile illness and enhancing patient management date: 2018-12-05 words: 20813 flesch: 41 summary: This review gives an overview of diagnostic technologies featuring a platform based approach: (i) assay (nucleic acid amplification technologies are examined); (ii) cartridge (microfluidic technologies are presented); (iii) instrument (various detection technologies are discussed); and at the end proposes a way that such technologies can be interfaced with electronic clinical decision-making algorithms towards a broad and complete diagnostic ecosystem. Nucleic acid amplification technologies (NAATs) are based on sequence-specific recognition and amplification of unique target regions in the genome of pathogens to be detected. keywords: acid; acute; addition; advantage; africa; air; alere; algorithms; amplicon; amplification; amplified; analysis; answer; antimicrobial; application; approach; appropriate; area; assay; automated; available; bacterial; beads; binding; blood; buffer; care; cartridge; case; causes; centrifugal; chain; challenges; chamber; children; chip; clinical; clinicians; combination; complex; components; conditions; control; core; cost; countries; criteria; cross; culture; data; decision; dengue; detection; developed; development; device; diagnostic; different; diseases; disk; dna; dsdna; e.g.; ebola; electronic; end; endemic; epidemic; equipment; evaluation; example; extraction; febrile; fever; field; fig; filmarray; flow; fluorescence; foil; free; genexpert; glass; global; guidelines; handling; hands; health; heating; high; hiv; hybridization; illness; impact; important; infections; influenza; information; inlet; innovative; instrument; integrated; interface; isothermal; labdisk; laboratory; lack; large; lateral; level; lfts; limited; liquid; low; magnetic; main; malaria; management; manufacturing; market; material; medicines; methods; microarray; microfluidic; microscopy; min; mixing; mobile; module; molecular; multiple; naats; nanowire; near; necessary; need; negative; new; non; novel; nucleic; nucleic acid; number; optical; order; outbreak; overall; panel; particular; patent; pathogens; patients; pcr; performance; platform; poc; point; polymerase; portable; positive; possible; post; potential; pouch; pre; preparation; present; pressure; prevalence; primers; probability; probes; process; processing; product; progress; quality; rapid; reaction; reader; readout; reagents; real; related; requirements; resistance; resource; respiratory; results; reverse; review; risk; rna; sample; sections; sensitive; sensitivity; sequence; settings; severe; signal; silicon; single; sites; solutions; specific; specificity; stage; step; storage; strip; studies; study; support; surveillance; swab; system; tanzania; target; technologies; technology; temperature; template; test; testing; time; tools; treatment; tropical; tuberculosis; type; typhoid; unit; use; users; verigene; viral; virus; volume; way; world cache: cord-324944-ixh3ykrc.txt plain text: cord-324944-ixh3ykrc.txt item: #545 of 647 id: cord-325280-4whzcmqv author: Takizawa, Naoki title: Current landscape and future prospects of antiviral drugs derived from microbial products date: 2017-10-11 words: 6633 flesch: 28 summary: In addition, the current state of development of antiviral drugs that target influenza virus and hepatitis B virus, and the future prospects for antivirals from natural products are described and discussed. Approximately 90 drugs have been approved to treat human infectious diseases caused by the following nine viruses: HIV, human cytomegalovirus, hepatitis B virus (HBV), hepatitis C virus (HCV), herpes simplex virus, influenza virus, respiratory syncytial virus, varicella zoster virus and human papillomavirus. keywords: acid; active; activities; activity; agents; amantadine; analogs; antigens; antiviral; antiviral drugs; b virus; binding; broad; cccdna; cells; cellular; circular; class; clinical; complex; compounds; csa; derivative; development; diseases; dna; drugs; ebola; effective; effects; entry; exhibit; figure; form; future; genome; h1n1; hbv; hcv; health; hepatitis; hiv; host; human; imc; immunodeficiency; infected; infections; influenza; influenza virus; inhibition; inhibitors; key; mechanism; membrane; metabolites; microbial; model; mrna; natural; neuraminidase; new; novel; nucleos(t)ide; nucleoside; pb2; polymerase; polypeptide; potential; products; promising; propagation; protein; replication; respiratory; review; ribavirin; rna; rnase; screening; sialic; sialidase; siastatin; sodium; specific; spectrum; structure; surface; synthesis; t-705; target; taurocholate; therapeutic; treatment; trials; vaccines; virus; viruses; zanamivir cache: cord-325280-4whzcmqv.txt plain text: cord-325280-4whzcmqv.txt item: #546 of 647 id: cord-325750-x7jpsnxg author: Mokili, John L title: Metagenomics and future perspectives in virus discovery date: 2012-01-20 words: 8747 flesch: 36 summary: No association of xenotropic murine leukemia virus-related viruses with prostate cancer Reliability and reproducibility issues in DNA microarray measurements Efficient isolation of genes differentially expressed on cellulose by suppression subtractive hybridization in Agaricus bisporus Virus discovery by sequenceindependent genome amplification Suppression subtraction hybridization (SSH) and macroarray techniques reveal differential gene expression profiles in brain of sea bream infected with nodavirus Suppression subtractive hybridization: a versatile method for identifying differentially expressed genes Identification of herpesvirus-like DNA sequences in AIDS-associated Kaposi's sarcoma A novel DNA virus (TTV) associated with elevated transaminase levels in posttransfusion hepatitis of unknown etiology Identification of two flavivirus-like genomes in the GB hepatitis agent STAT1-dependent innate immunity to a Norwalk-like virus Sequence-independent, single-primer amplification (SISPA) of complex DNA populations Metagenomics and the molecular identification of novel viruses Viruses in the faecal microbiota of monozygotic twins and their mothers Hepatitis E virus (HEV): the novel agent responsible for enterically transmitted non-A, non-B hepatitis The isolation and characterization of a Norwalk virus-specific cDNA Identification of a novel astrovirus (astrovirus VA1) associated with an outbreak of acute gastroenteritis Detection of a novel astrovirus in brain tissue of mink suffering from shaking mink syndrome by use of viral metagenomics A virus discovery method incorporating DNase treatment and its application to the identification of two bovine parvovirus species Laboratory procedures to generate viral metagenomes An excellent compilation of standard operating procedures to perform metagenomic analysis on different types of samples The marine viromes of four oceanic regions Method for discovering novel DNA viruses in blood using viral particle selection and shotgun sequencing Analysis of the virus population present in equine faeces indicates the presence of hundreds of uncharacterized virus genomes Multiple diverse circoviruses infect farm animals and are commonly found in human and chimpanzee feces Bat guano virome: predominance of dietary viruses from insects and plants plus novel mammalian viruses Viral diversity and dynamics in an infant gut RNA viral community in human feces: prevalence of plant pathogenic viruses Viral communities associated with healthy and bleaching corals Metagenomic analysis of stressed coral holobionts Assembly of viral metagenomes from yellowstone hot springs Using pyrosequencing to shed light on deep mine microbial ecology Microbes and health sackler colloquium: metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity Extraction of high molecular weight genomic DNA from soils and sediments Rapid amplification of plasmid and phage DNA using Phi 29 DNA polymerase and multiply-primed rolling circle amplification Assessment of whole genome amplification-induced bias through highthroughput, massively parallel whole genome sequencing Whole transcriptome amplification for gene expression profiling and development of molecular archives Single virus genomics: a new tool for virus discovery Flow cytometric detection of viruses DNA sequencing with chainterminating inhibitors Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: a generic method for diagnosis, discovery and sequencing of viruses Arbovirus detection in insect vectors by rapid, highthroughput pyrosequencing Isolation and characterization of Solenopsis invicta virus 3, a new positive-strand RNA virus infecting the red imported fire ant, Solenopsis invicta A new arenavirus in a cluster of fatal transplant-associated diseases Genomic and phylogenetic characterization of Merino Walk virus, a novel arenavirus isolated in South Africa Parallel tagged sequencing on the 454 platform Targeted high-throughput sequencing of tagged nucleic acid samples The history of pyrosequencing A new method of sequencing DNA The not so universal tree of life or the place of viruses in the living world Reasons to include viruses in the tree of life Viral genomes are part of the phylogenetic tree of life There is no such thing as a tree of life (and of course viruses are out!) In this article, we review virus discovery techniques with a focus on metagenomic approaches that employ high-throughput sequencing technologies to characterize novel viruses. keywords: 16s; abundance; acid; acute; agent; amplification; analysis; approach; bacterial; blood; cases; causality; causative; cell; characterization; chloroform; clinical; cloning; communities; consensus; control; culture; data; decade; detection; development; diarrhea; different; discovery; disease; diversity; dna; early; emergence; environmental; etiology; example; field; figure; focus; functional; future; gbv; gene; generation; genetic; genome; healthy; hepatitis; high; human; identification; immunodeficiency; important; independent; individuals; infectious; isolation; knowledge; koch; life; like; likely; majority; marine; metagenomic; metagenomic analysis; metagenomic approach; metagenomic koch; methods; microarray; microbial; modified; molecular; multiple; new; non; normal; novel; novel viruses; nucleic; number; original; outbreak; pathogenic; patients; pcr; phage; phylogenetic; population; potential; preparation; primers; public; reads; responsible; review; rna; rrna; samples; sanger; sequence; sequencing; simian; single; species; steps; studies; study; subject; techniques; technology; throughput; tissue; tool; traits; treatment; tree; type; unknown; viral; viral dna; viral metagenomic; virology; virome; virus discovery; viruses; vlps; wide; zoonosis cache: cord-325750-x7jpsnxg.txt plain text: cord-325750-x7jpsnxg.txt item: #547 of 647 id: cord-325915-dw989txm author: Wolf, Michael W title: Downstream processing of cell culture-derived virus particles date: 2014-01-09 words: 11875 flesch: 28 summary: The emerging generation of chromatography tools for virus purification Outlines the advantages of monoliths as chromatography tools for virus purification Purification of cell culturederived modified vaccinia ankara virus by pseudo-affinity membrane adsorbers and hydrophobic interaction chromatography Monoliths emerge as key purification methodology Direct capture of influenza A virus from cell culture supernatant with Sartobind anion-exchange membrane adsorbers Engineering adeno-associated virus for one-step purification via immobilized metal affinity chromatography Purification of cell culture-derived influenza virus A/Puerto Rico/8/34 by membrane-based immobilized metal affinity chromatography Sulfated membrane adsorbers for economic pseudo-affinity capture of influenza virus particles Exploiting heparin-binding properties of MoMLV-based retroviral vectors for affinity chromatography Purification of porcine reproductive and respiratory syndrome virus from cell culture using ultrafiltration and heparin affinity chromatography Removal of poliovirus type 1 from a protein mixture using an immunoaffinity chromatography column Affinity capture of a biotinylated retrovirus on macroporous monolithic adsorbents: towards a rapid single-step purification process Concanavalin A affinity chromatography for efficient baculovirus purification Lectin-affinity chromatography for downstream processing of MDCK cell culture derived human influenza A viruses One-step selection of Vaccinia virusbinding DNA aptamers by MonoLEX Chromatographic purification of virus particles Tagging retrovirus vectors with a metal binding peptide and one-step purification by immobilized metal affinity chromatography Protein adsorption dissociation constants in various types of biochromatography Large-scale processing of recombinant retroviruses for gene therapy Capture of cell culture-derived influenza virus by lectins: strain independent, but host cell dependent Development and scale up of preparative HIC for the purification of a recombinant therapeutic protein High-throughput screening of chromatographic separations: II. However, as discussed by the authors, the acidic isoelectric point of influenza virus particles (Table 2 ) may have resulted in co-precipitation of virus particles with cationic polymers [28] , and therefore product losses. keywords: aav; acids; active; addition; adenovirus; adsorbers; adsorption; aec; affinity; anion; application; applied; available; beads; biological; buffer; capacities; capture; cell; cellulose; centrifugation; characterization; chromatography; clinical; column; combination; concentration; concepts; conditions; contaminants; continuous; cultivation; culture; current; density; design; development; different; dna; downstream; dsp; dynamic; efficient; elution; encephalitis; examples; exchange; exclusion; fiber; filtration; final; flat; flow; flux; free; gene; gene therapy; gradient; heparin; hepatitis; hic; high; hollow; host; human; hydrophobic; iec; immobilized; immunogenicity; important; improved; individual; infectious; influenza; influenza virus; interactions; ionic; isoelectric; kda; large; leukemia; levels; ligands; losses; majority; manufacturing; material; matrices; matrix; media; medium; membrane; membrane adsorbers; methods; mode; molecular; monoliths; murine; new; nucleic; number; operations; optimization; overall; overview; particles; particular; performance; permeate; phase; pore; potential; precipitation; process; processes; processing; production; products; properties; proteins; purification; purification process; purity; range; rates; recombinant; recoveries; removal; resins; results; retroviral; retroviridae; review; scale; screening; sec; separation; sheet; size; small; specific; stationary; step; strength; structure; successful; sucrose; surface; systems; table; tangential; target; techniques; technology; therapy; therapy vectors; throughput; trains; type; ultrafiltration; unit; usa; vaccines; vaccinia; vectors; viral; viral vectors; virus; virus particles; virus purification; viruses; volume; yields cache: cord-325915-dw989txm.txt plain text: cord-325915-dw989txm.txt item: #548 of 647 id: cord-326228-9x1233q6 author: Holley, Caroline L title: The rOX‐stars of inflammation: links between the inflammasome and mitochondrial meltdown date: 2020-02-10 words: 6376 flesch: 23 summary: Here, we review the features of mitochondria that drive inflammatory signalling, with a particular focus on mitochondrial activation of the NLRP3 inflammasome. [86] While AIM2 inflammasome activation inhibits cGAS signalling via GSDMDdependent K + efflux, 87 cGAS/STING-dependent NF-jB activation may provide a signal 1 for NLRP3 inflammasome activation. keywords: activate; activation; activity; aim2; antiviral; apoptosis; assembly; atp; bacterial; bmdms; caspase-1; cell; cellular; cgas; chronic; complex; components; cpg; cytosolic; damage; dependent; disease; downstream; drive; drp1; dynamics; dysfunction; efflux; figure; fission; functions; fusion; glycolysis; hbv; host; human; il-1b; immune; immunity; important; infection; inflammasome; inflammasome activation; inflammation; inflammatory; influence; influenza; innate; inner; key; like; loss; macrophages; matrix; mavs; mechanisms; membrane; metabolic; mitochondrial; mitophagy; mitoros; model; molecules; mouse; mtdna; murine; network; nlrp3; nlrp3 activation; nlrp3 inflammasome; opa1; outer; pathology; pathway; possible; potential; production; protein; prrs; receptor; recognition; release; responses; role; signalling; signals; sting; stress; tlr9; toll; trigger; type; unclear; virus cache: cord-326228-9x1233q6.txt plain text: cord-326228-9x1233q6.txt item: #549 of 647 id: cord-326785-le2t1l8g author: None title: Pathological Society of Great Britain and Ireland. 163rd meeting, 3–5 July 1991 date: 2005-06-15 words: 22778 flesch: 36 summary: SSCs in the Connective tissue were Melled with the antibody along With a number of other cells (lymphocytes) within the germinal centres. These results show that sadium iodoacetate reduces cell number and interferes wqth the manufacture of matrix components. keywords: abnormalities; accurate; acid; acp; actin; activity; acute; addition; adenocarcinomas; adenylate; adhesion; adult; age; agnor; ahprbp; alveolar; amyloid; analysis; aner; animals; antibodies; antibody; antigen; apparent; appearance; areas; arterial; arteries; artery; asbestos; assessment; associated; association; asthmatics; atherosclerosis; atypical; autopsies; autopsy; available; bane; benign; bile; binding; biopsies; biopsy; blood; blue; bone; bowel; brain; breast; bronchial; camp; cancer; capable; carcinoma; cartilage; cases; cause; cbsa; ceiis; cell adhesion; cell carcinomas; cell type; cells; cellular; cerebral; certain; cgrp; chain; chamber; changes; chondrocytes; chromatin; chromosome; chronic; clinical; cns; colitis; collagen; colon; colonic; colorectal; common; complication; component; conditions; connective; consistent; content; contrast; controls; conventional; cortex; cota; course; crescentic; crohn; crypt; cultured; cyclase; cyst; cytoplasmic; cytospin; data; day; days; death; dense; dependent; deposits; development; diabetes; diabetic; diagnosis; diameter; differences; differentiation; digestion; disease; dispersal; distal; distribution; dna; dose; e n; early; effects; elastic; electron; electron microscopy; embedding; endoscopic; endothelium; endothellal; enolase; environment; enzyme; eosinophils; epidermal; epithelial; epithelial cells; erbb-2; established; estrogen; evidence; evident; examination; exposure; expression; factor; failure; far; fat; fatty; features; fgf; fibres; fibroblast; fibrosis; fibrous; findings; fine; fixation; flow; fluid; follicles; follow; formalin; formation; forms; fragmentation; free; frequent; frozen; function; gastric; gene; general; germ; germinal; giant; glandular; glycan; grade; granulomas; greater; group; growth; gst; gun; hepatocytes; hgf; high; histological; histology; history; homing; hospital; hpv; hrhgf; hsv; human; hydroxylase; hypothesis; identification; ileal; image; immune; immunohistochemistry; immunological; important; incidence; increase; infected; infection; infiltrate; inflammation; inflammatory; initial; injury; inorganic; integnn; integrin; intestine; ireland; irradiation; kidney; knee; l e; labelling; laboratory; lamina; large; large cell; later; lesions; leu; level; light; like; lines; lining; liver; local; loh; london; long; lor; loss; low; lower; ltsem; lung; lymphocytes; lymphoid; lymphomas; macrophages; major; male; malignant; malt; mammalian; manow; margins; marked; markers; marrow; mass; mast; material; matrix; matter; mean; mechanism; median; melanocytic; melanomas; membrane; mesothelioma; metabolism; metastases; metastatic; method; mgn; mice; microscopy; mild; mimic; mitotic; mixed; model; molecular; molecules; monoclonal; months; morphological; morphology; mouse; mucosa; muscle; muscular; mutations; myc; myelin; n s; n t; naevi; nasal; needle; negative; neoplastic; nephropathy; nerve; neuroendocrine; new; nlsh; node; non; normal; nuclear; number; numerous; o n; occasional; ofthe; old; operation; order; overgrowth; p53; p62; pack; panel; papillary; paraffin; parallel; parameters; past; pathological; pathologists; pathology; patients; pattern; pclo; pcr; period; peripheral; pnmary; poor; populations; positive; possible; post; pouchitis; presence; present; presentation; previous; primary; probe; procedures; processing; product; profile; prognosis; progressive; proliferation; prominent; propria; prostatic; protein; pulmonary; quantitative; rabbits; range; rapid; rat; rate; rats; rcc; reaction; reactive; receptor; rectal; recurrence; region; regression; relationship; renal; renewing; resin; resistant; resorption; response; results; resuns; review; role; routine; royal; s e; s t; samples; schwann; secondary; sections; sem; semi; sequences; serum; set; severe; sickness; significant; similar; simplex; single; site; size; skin; small; small cell; smokers; smooth; sodium; southampton; species; specific; specimens; squamous; stage; staining; standard; statin; status; storage; strength; stromal; strong; structure; students; studies; study; subjects; subsequent; support; surface; surgical; synovial; synthesis; system; t o; tartrate; technique; tendency; term; therapy; thin; thought; time; tissue; total; treatment; tubular; tumors; tumour; turnours; type; ulcerative; upper; useful; variable; variation; variety; vascular; vessels; view; viral; virus; wax; weak; weakness; weeks; whlch; wide; widespread; wlth; wound; wwe; years cache: cord-326785-le2t1l8g.txt plain text: cord-326785-le2t1l8g.txt item: #550 of 647 id: cord-327170-rv0efgg2 author: Decaro, Nicola title: Tissue distribution of the antigenic variants of canine parvovirus type 2 in dogs date: 2007-03-31 words: 2679 flesch: 32 summary: A case report Identification of types of canine parvovirus circulating in Spain First two confirmed cases of malignant catarrhal fever in Italy Quantitation of canine coronavirus RNA in the faeces of dogs by TaqMan RT-PCR Maternally-derived antibodies in pups and protection from canine parvovirus infection Virological and molecular characterization of a Mammalian orthoreovirus type 3 strain isolated from a dog in Italy Clinical and virological findings in pups naturally infected by canine parvovirus type 2 Glu-426 mutant New approaches for the molecular characterization of canine parvovirus type 2 strains A real-time PCR assay for rapid detection and quantitation of canine parvovirus type 2 DNA in the feces of dogs A minor groove binder probe real-time PCR assay for discrimination between type 2-based vaccines and field strains of canine parvovirus Characterisation of the canine parvovirus type 2 variants using minor groove binder probe technology Diagnostic tools based on minor groove binder technology for rapid identification of vaccine and field strains of canine parvovirus type 2b First detection of canine parvovirus type 2c in pups with haemorrhagic enteritis in Spain Canine parvovirus infection: which diagnostic test for virus? Antibody levels and protection to canine parvovirus type 2 Detection of canine distemper virus in dogs by real-time RT-PCR Identification of bovine and porcine rotavirus G types by PCR Detection of seven species of pathogenic leptospires by PCR using two sets of primers Comparison of isolates of canine parvovirus by monoclonal antibody and restriction-enzyme analysis Detection and differentiation of CAV-1 and CAV-2 by polymerase chain reaction Predominance of canine parvovirus (CPV) in unvaccinated cat populations and emergence of new antigenic types of CPVs in cats Design and evaluation of a primer pair that detects both Norwalk-and Sapporo-like caliciviruses by RT-PCR Detection of mammalian reovirus RNA by using reverse transcription-PCR: sequence diversity within the l3-encoding L1 gene Nested PCR for the diagnosis of calicivirus infections in the cat A canine parvovirus mutant is spreading in Italy Surveillance activity for canine parvovirus in Italy Antigenic and genomic variabilities among recently prevalent parvoviruses of canine and feline origin in Japan A novel antigenic variant of canine parvovirus from a Vietnamese dog Mapping specific functions in the capsid structure of canine parvovirus and feline panleukopenia virus using infectious plasmid clones Natural variation of key: cord-327170-rv0efgg2 authors: Decaro, Nicola; Martella, Vito; Elia, Gabriella; Desario, Costantina; Campolo, Marco; Lorusso, Eleonora; Colaianni, Maria Loredana; Lorusso, Alessio; Buonavoglia, Canio title: Tissue distribution of the antigenic variants of canine parvovirus type 2 in dogs date: 2007-03-31 journal: Vet Microbiol DOI: 10.1016/j.vetmic.2006.11.005 sha: doc_id: 327170 cord_uid: rv0efgg2 Twelve dogs dead as consequence of natural infection caused by canine parvovirus (CPV) type 2a (n = 4), type 2b (n = 4) or type 2c (n = 4) were investigated for determining the viral DNA loads in different tissue samples. keywords: antigenic; assay; canine; canine parvovirus; cats; copies/10; cpv; days; decaro; decaro et; detection; different; distribution; dna; dogs; et al; feline; infection; italy; loads; molecular; mutant; new; parrish; parvovirus; pcr; polymerase; reaction; real; samples; strains; template; time; tissue; titres; truyen; type; variants; viral cache: cord-327170-rv0efgg2.txt plain text: cord-327170-rv0efgg2.txt item: #551 of 647 id: cord-327883-s9nbr5y8 author: None title: Section Virology date: 1990-03-31 words: 10597 flesch: 45 summary: Inst. of Virology, Univ., D-6300 Giessen A highly purified nucleoprotein (NP) preparation from influenza virus infected cells yielded in addition to the commonly known 56 kd protein a 42 kd component which could not be detected in virus particles. The biological activity of the clone was confirmed by a variety of criteria: induction of characteristic CPE in susceptible cells infected with cell-free supernatant from cultures transfected with pHSRV; indirect immunofluorescence; radioimmunoprecipitation of viral proteins and electron microscopy. keywords: acid; active; activity; acute; additional; adsorption; age; amino; analysis; antibodies; antibody; antigen; antigenic; assay; associated; autoantibodies; binding; blot; bovine; cases; cells; cellular; cleavage; clones; complete; contrast; control; culture; data; detection; determined; different; distinct; dna; early; ebv; elisa; enzyme; epitopes; experiments; expression; following; fragments; frame; functional; fusion; gene; genome; genomic; gil; glycoprotein; group; hbc; hbeag; hbs; hbv; hcmv; hcv; heparin; hepatitis; herpes; high; histone; hiv; host; hpv8; hsrv; hsv; hsv-2; human; hybridization; igg; igm; infected; infection; inst; jcv; kbp; laboratory; line; mab; major; membrane; mice; molecular; monoclonal; negative; nonstructural; nrs; nucleocapsid; nucleotide; open; particles; patients; polypeptides; positive; presence; prevalence; probe; products; protease; protein; pry; purified; radioimmunoprecipitation; reaction; reading; recombinant; region; related; replication; residues; response; results; rna; s71; samples; second; sequences; sera; serological; serum; size; specific; specificity; strains; study; surface; test; testing; time; tissue; transcription; treatment; type; univ; urine; vaccines; viral; virion; virology; virus; viruses; vitro; western; years cache: cord-327883-s9nbr5y8.txt plain text: cord-327883-s9nbr5y8.txt item: #552 of 647 id: cord-328206-iylw1bvw author: Yu, Daojun title: Simultaneous Detection and Differentiation of Human Papillomavirus Genotypes 6, 11, 16 and 18 by AllGlo Quadruplex Quantitative PCR date: 2012-11-09 words: 4073 flesch: 42 summary: In addition, AllGlo probe quadruplex fluorescence quantitative PCR also has the advantages of relatively high throughput, time savings, simple operation, and lower cost, which are key factors that are needed in order to be qualified for clinical applications. AllGlo quadruplex quantitative PCR in a single tube has the advantages of relatively high throughput, good reproducibility, high sensitivity, high specificity, and a wide linear range of detection. keywords: allglo; allglo quadruplex; amplification; assay; cancer; cervical; china; clinical; concentrations; copies; curve; detection; dna; fluorescence; genital; genotypes; genotyping; high; hpv; human; infection; load; low; mean; method; min; molecular; multiplex; papillomavirus; pcr; plasmids; primer; probe; qpcr; quadruplex; quadruplex fluorescence; quadruplex quantitative; quantitative; quantitative pcr; real; risk; samples; sensitivity; single; specificity; specimens; standard; table; taqman; test; time; tube; types; uniplex; vaccine; viral; warts; women cache: cord-328206-iylw1bvw.txt plain text: cord-328206-iylw1bvw.txt item: #553 of 647 id: cord-328460-thx9zh11 author: Zanoli, Laura Maria title: Isothermal Amplification Methods for the Detection of Nucleic Acids in Microfluidic Devices date: 2012-12-27 words: 8976 flesch: 31 summary: Although PCR is the most widespread technology for DNA amplification, the need for an electrically powered thermal cycler with a precise temperature control and for an optimized experimental setup makes the use of PCR at point-of-care settings more complex and increases the cost of PCR-based devices. Symmetrical mode of DNA replication TempliPhi, phi29 DNA polymerase based rolling circle amplification of templates for DNA sequencing Optimization of the polymerase chain reaction with regard to fidelity: Modified T7, Taq, and vent DNA polymerases Fidelity of DNA polymerases in DNA amplification Unbiased whole genome amplification directly from clinical samples Genomic DNA amplification from a single bacterium Nanoliter reactors improve multiple displacement amplification of genomes from single cells Single-Molecule DNA Amplification and analysis using microfluidics DNA detection using recombination proteins A phaseguided passive batch microfluidic mixing chamber for isothermal amplification Phaseguides: A paradigm shift in microfluidic priming and emptying Hot start PCR Digital isothermal quantification of nucleic acids via simultaneous chemical initiation of recombinase polymerase amplification reactions on SlipChip Nucleic acid sequence-based amplification Characteristics and applications of nucleic acid sequence-based amplification (NASBA) Quantitative detection of hepatitis B virus DNA by real-time nucleic acid sequence-based amplification with molecular beacon detection A one-tube quantitative HIV-1 RNA NASBA nucleic acid amplification assay using electrochemiluminiscent (ECL) labelled probes Comparison of nucleic acid-based detection of avian influenza H5N1 with virus isolation Human pathogenic Cryptosporidium species bioanalytical detection method with single oocyst detection capability PMMA biosensor for nucleic acids with integrated mixer and electrochemical detection Strategy for molecular beacon binding readout: Separating molecular recognition element and signal reporter Molecular engineering of DNA: Molecular beacons Real-time molecular beacon NASBA reveals hblc expression from Bacillus spp. keywords: acid; acid amplification; activity; adsorption; advantages; amplification; amplification reaction; amplified; analysis; applications; assay; binding; chain; chip; circle; circle amplification; circular; clinical; coli; complementary; components; consumption; control; cost; cycling; denaturation; dependent; detection; device; different; digital; displacement; dna; dna amplification; dna polymerase; dnas; double; droplet; dsdna; efficient; energy; enzyme; figure; flow; genomic; hda; helicase; high; higher; human; important; integrated; integration; isothermal; isothermal amplification; lamp; large; limited; linear; loop; low; material; mda; method; microfluidic; miniaturized; mixing; molecular; molecule; mrna; multiple; nasba; need; non; nucleic; nucleic acid; order; padlock; pcr; platform; polymerase; pre; primers; probe; process; products; proteins; rapid; rca; reaction; reagents; real; recombinase; reduced; reverse; rna; rolling; rpa; sample; sensitivity; separate; sequence; signal; single; small; specific; speed; step; strand; structure; surface; synthesis; system; target; temperature; template; time; transcription; use; uvrd; volume cache: cord-328460-thx9zh11.txt plain text: cord-328460-thx9zh11.txt item: #554 of 647 id: cord-328518-umvk59dc author: Lee, Dana N. title: Two novel adenoviruses found in Cave Myotis bats (Myotis velifer) in Oklahoma date: 2019-12-03 words: 2384 flesch: 51 summary: Phylogenetic analysis of these fragments confirmed our isolates were from the genus Mastadenovirus and had genetic diversity ranging from 20 to 50% when compared to other bat adenoviruses. Viruses in bats can switch hosts to other bat species [4] and they are known to carry pathogenic viruses that can infect humans such as rabies, lyssaviruses, nipah and hendra viruses, ebola, and keywords: adenoviruses; adv1; advs; american; analysis; bats; cave; date; detection; different; diversity; dna; evolution; genetic; genus; guano; host; humans; july; mammals; march; mastadenovirus; min; model; myotis; new; novel; october; pcr; pol; positive; reservoirs; samples; sequences; species; study; transmission; velifer; viral; viruses; zoonotic cache: cord-328518-umvk59dc.txt plain text: cord-328518-umvk59dc.txt item: #555 of 647 id: cord-328633-c31xsyeo author: Moser, Michael J. title: Thermostable DNA Polymerase from a Viral Metagenome Is a Potent RT-PCR Enzyme date: 2012-06-04 words: 7878 flesch: 48 summary: The AMV and MMLV had higher RT activity at 37uC while the 3173 Pol RT was much more active at 65uC using the fluorogenic incorporation assay ( Figure 3A ). Soluble proteins were collected from the supernatant after centrifugation at 11,000 rcf for 10 minutes and assayed for DNA Pol activity based on their ability to extend a 59 fluorescently labeled oligonucleotide primer. keywords: 37uc; 70uc; activity; agarose; alternative; amplification; analysis; assay; background; bacteriophage; buffer; cdna; cells; conditions; control; cycles; data; detection; determined; dilution; dna; domain; efficiency; enzyme; exonuclease; expression; extension; fidelity; figure; fluorescence; gel; gene; greater; hcv; high; higher; human; incubation; influenza; kit; length; leukemia; life; lower; lucigen; manufacturer; master; metagenomic; methods; minutes; mix; mixes; mmlv; mmlv rt; molecular; ms2; murine; new; number; pcr; performance; pol; pols; polymerase; primer; processivity; product; protein; pyroscript; qpcr; quantification; range; reaction; reagent; replication; retroviral; reverse; rna; rnase; rts; sensitivity; sequence; similar; single; specificity; step; strand; synthesis; systems; taq; target; technologies; temperature; template; thermal; thermostability; thermostable; time; transcriptase; transcription; tth; type; units; use; viral; virus; viruses cache: cord-328633-c31xsyeo.txt plain text: cord-328633-c31xsyeo.txt item: #556 of 647 id: cord-328899-kog99kk5 author: Ferrari, Stefano title: Barriers to and new approaches for gene therapy and gene delivery in cystic fibrosis date: 2002-12-05 words: 10510 flesch: 40 summary: Adv Drug Deliv Rev DOI: 10.1016/s0169-409x(02)00145-x sha: doc_id: 328899 cord_uid: kog99kk5 Clinical trials of gene therapy for cystic fibrosis suggest that current levels of gene transfer efficiency are probably too low to result in clinical benefit, largely as a result of the barriers faced by gene transfer vectors within the airways. CFTR gene transfer to patients with CF. keywords: aav; ability; able; access; activity; addition; adenovirus; administered; administration; agents; airway; airway epithelial; antibodies; apical; approach; barriers; binding; cationic; cells; cftr; cftr gene; characterised; chloride; clinical; complexes; correction; cpg; cystic; cytoplasm; day; degradation; delivery; dependent; differentiated; dna; dope; dose; efficacy; efficiency; endocytosis; endosome; epithelial; epithelial cells; expression; fibrosis; function; furthermore; gene; gene transfer; gtas; high; higher; host; human; immune; import; increase; inflammation; instillation; junctions; lack; large; levels; limit; lipid; lipoplexes; liposome; long; low; lung; membrane; mice; model; modification; molecules; motifs; mouse; mrna; mucus; nasal; new; nls; non; normal; novel; nuclear; nucleus; particles; patients; pdna; pei; peptide; plasmid; pore; potential; prolonged; promoter; proteins; pulmonary; raav; receptors; recombinant; respiratory; response; results; sequences; serotype; similar; single; small; specific; splicing; sputum; stem; strategies; strategy; studies; subjects; surface; target; targeted; targeting; term; therapy; tight; time; transduced; transfection; transfer; transgene; transgene expression; transport; treatment; trials; type; use; utero; vectors; viral; viral vectors; virus; viruses; vivo cache: cord-328899-kog99kk5.txt plain text: cord-328899-kog99kk5.txt item: #557 of 647 id: cord-328940-8vtcochx author: Lee, Jeong Yoon title: Bacterial RecA Protein Promotes Adenoviral Recombination during In Vitro Infection date: 2018-06-20 words: 8005 flesch: 26 summary: Recombination in adenovirus type 12 Adenovirus recombination: physical mapping of crossover events The kinetics of adenovirus recombination in homotypic and heterotypic genetic crosses Replication and recombination in adenovirus-infected cells are temporally and functionally related Molecular phylogeny of a novel human adenovirus type 8 strain causing a prolonged, multi-state keratoconjunctivitis epidemic in Germany First isolation of a new type of human adenovirus (genotype 79), species human mastadenovirus B (B2) from sewage water in Japan Using the whole-genome sequence to characterize and name human adenoviruses Characterizing, typing, and naming human adenovirus type 55 in the era of whole genome data Predicting the next eye pathogen: analysis of a novel adenovirus Homologous recombination in E3 genes of human adenovirus species D Overreliance on the hexon gene, leading to misclassification of human adenoviruses Analysis of human adenovirus type 19 associated with epidemic keratoconjunctivitis and its reclassification as adenovirus type 64 Recombination analysis of intermediate human adenovirus type 53 in Japan by complete genome sequence Computational analysis identifies human adenovirus type 55 as a re-emergent acute respiratory disease pathogen Genome sequence of human adenovirus type 55, a re-emergent acute respiratory disease pathogen in China Outbreak of adenovirus type 55 infection in Israel Severe pneumonia associated with adenovirus type 55 infection Febrile respiratory illness associated with human adenovirus type 55 in South Korea military Molecular epidemiology and clinical manifestations of adenovirus respiratory infections in Taiwanese children Adenovirus infection in children with acute lower respiratory tract infections in Beijing, China Adenoviruses Persistence of adenovirus nucleic acids in nasopharyngeal secretions: a diagnostic conundrum Persistent enteral infections with adenovirus types 1 and 2 in infants: no evidence of reinfection Prevalence and quantitation of adenovirus DNA from human tonsil and adenoid tissues Latent species C adenoviruses in human tonsil tissues Distribution and molecular characterization of human adenovirus and Epstein-Barr virus infections in tonsillar lymphocytes isolated from patients diagnosed with tonsillar diseases Adenovirus isolation rates in acute flaccid paralysis patients Persistence and reactivation of human adenoviruses in the gastrointestinal tract Evidence for persistence of adenovirus in the tear film a decade following conjunctivitis Gene recombination in Escherichia coli Stable DNA replication: interplay between DNA replication, homologous recombination, and transcription Collapse and repair of replication forks in Esche-Bacteria Assist HAdV Evolution richia coli The essential role of recombination in phage T4 growth Mechanism of homologous recombination from the RecA-ssDNA/dsDNA structures Isolation and characterization of recombination-deficient mutants of Escherichia coli K12 Chi sequence protects against RecBCD degradation of DNA in vivo Identification of an active Chi recombinational hot spot within the HIV-1 envelope gene: consequences for development of AIDS vaccines Chi, a promoter of generalized recombination in lambda phage, is present in immunoglobulin genes Polymorphism and recombination events at the ABO locus: a major challenge for genomic ABO blood grouping strategies A novel HLA-DQB1 allele: evidence for gene conversion event promoted by chi-like sequence at DQB1 locus One short well conserved region of Alu-sequences is involved in human gene rearrangements and has homology with prokaryotic chi Insertion of a short Alu sequence into the hMSH2 gene following a double cross over next to sequences with chi homology Sequence variant in the intron 10 of the RET oncogene in a patient with microfollicular thyroid carcinoma with medullar differentiation: implications for newly generated chi-like sequence Defining the normal core microbiome of conjunctival microbial communities Characterization of the normal microbiota of the ocular surface Human adenovirus: viral pathogen with increasing importance Outbreak of Gram-positive bacterial keratitis associated with epidemic keratoconjunctivitis in neonates and infants Experimental evidence that RNA recombination occurs in the Japanese encephalitis virus Evidence for similarity-assisted recombination and predicted stem-loop structure determinant in potato virus X RNA recombination Complementaritydirected RNA dimer-linkage promotes retroviral recombination in vivo Mapping sequences active in homologous RNA recombination in brome mosaic virus: prediction of recombination hot spots Silencing homologous RNA recombination hot spots with GC-rich sequences in brome mosaic virus Pausing by retroviral DNA polymerases promotes strand transfer from internal regions of RNA donor templates to homopolymeric acceptor templates Pausing of reverse transcriptase on retroviral RNA templates is influenced by secondary structures both 5= and 3= of the catalytic site The polymerase in its labyrinth: mechanisms and implications of RNA recombination Evidence of recombination in the norovirus capsid gene RNA recombination in animal and plant viruses Die for the community: an overview of programmed cell death in bacteria Recognition of bacteria by inflammasomes Mammalian peptidoglycan recognition proteins kill bacteria by activating two-component systems and modulate microbiome and inflammation Toxin-antitoxin systems in bacteria and archaea Bacterial programmed cell death and multicellular behavior in bacteria Conditional senescence in bacteria: death of the immortals Insight into the mechanisms of adenovirus capsid disassembly from studies of defensin neutralization Direct evidence from singlecell analysis that human alpha-defensins block adenovirus uncoating to neutralize infection Defensins potentiate a neutralizing antibody response to enteric viral infection Alpha-defensin-dependent enhancement of enteric viral infection Experimental null mutations in E. coli RecA diminished bacterial recombination as much as 100,000-fold, while mutations in the other Rec proteins had substantially lower effects (91), consistent with known redundancy in the RecA loading function of RecBCD, but not in the recombination function of RecA. keywords: acid; adenovirus; analysis; anti; antibody; atcc; bacterial; bacteriophage; base; binding; buffer; c2bbe1; capsid; cells; chi; chi ad; coli; common; conserved; constructs; content; control; critical; culture; d19; d29; data; depletion; dh5; dna; dsdna; endotoxin; enteric; epidemic; escherichia; evidence; evolution; example; fig; fisher; flora; function; gastrointestinal; gene; genome; gfp; hadv; homologous; homologous recombination; host; hot; human; hvl2; hypervariable; igg; infected; infection; internalization; k-12; keratoconjunctivitis; kit; like; loop; lysate; magnetic; microbiota; min; molecular; mucosal; new; nucleotide; ocular; pathogen; patients; pbs; pcdna3.1; pcr; penton; phage; presence; present; promote; protein; proteotypes; reca; recbcd; recombinant; recombination; regions; relative; repair; replication; respiratory; rich; rna; scientific; secondary; segments; sequence; similar; single; species; specific; strain; structure; surface; table; thermo; times; transition; tubes; type; viral; viruses cache: cord-328940-8vtcochx.txt plain text: cord-328940-8vtcochx.txt item: #558 of 647 id: cord-328947-3l9ydspz author: Webb, L. G. title: Chikungunya virus antagonizes cGAS-STING mediated type-I interferon responses by degrading cGAS date: 2020-10-15 words: 9891 flesch: 45 summary: Because CHIKV can inhibit cellular transcription, the reduction in cGAS expression over time in CHIKV infected cells could also be due to reduced cGAS transcripts, ultimately leading to reduced newly translated cGAS. mRNA levels of cGAS were quantified and there were no differences in CHIKV infected cells when compared to mock or NDV at 4 hpi (Fig 4B) indicating that a decrease in cGAS transcripts is not responsible for the rapid loss of cGAS expression following CHIKV infection. keywords: ability; activation; activity; analysis; antagonism; antiviral; atg7; autophagy; buffer; capsid; cells; cellular; cgas; cgas expression; chikungunya; chikv; chikv infection; coli; conditions; constructs; control; critical; cyclic; cytoplasm; cytosolic; data; degradation; dengue; denv; described; different; direct; disease; dna; early; experiments; expression; fig; flag; fold; gene; hek-293; hek-293ts; hff-1s; hpi; hrs; human; ifn; ifnß; ifnβ; immune; immunoblotting; immunoprecipitation; increase; independent; induction; infected; infection; inhibition; inhibits; innate; interaction; interferon; levels; loop; lysates; manufacturer; membrane; mock; moi; murine; mva; ndv; non; nsp1; nsp4; nsps; page; palmitoylation; pathway; post; previous; primary; protein; reduced; reduction; release; replication; reporter; representative; responses; result; rig; rna; role; sds; sensing; sigma; signaling; significant; sting; structural; transcription; transcripts; transfection; translational; treatment; type; uvc; viral; virus; viruses; work cache: cord-328947-3l9ydspz.txt plain text: cord-328947-3l9ydspz.txt item: #559 of 647 id: cord-329155-ddpfox68 author: Mindikoglu, Ayse L. title: Intermittent fasting from dawn to sunset for four consecutive weeks induces anticancer serum proteome response and improves metabolic syndrome date: 2020-10-27 words: 8306 flesch: 31 summary: Subjects had their main meals at the transition time zones of the day, including pre-dawn breakfast (at the first transition time of the day) and dinner at sunset (at the second transition time of the day) and were allowed to eat (e.g., snacks) or drink if they needed between sunset and dawn in addition to the pre-dawn breakfast and dinner at sunset. Data on weight, waist circumference and blood pressure and blood specimens were collected within three weeks before the initiation of 4-week intermittent fasting to assess the effect of ad libitum eating, at the end of 4th week during 4-week intermittent fasting to assess the effect of intermittent fasting and 1 week after 4-week intermittent fasting to assess the carryover effect of intermittent fasting on serum proteome, components of metabolic syndrome, lipid and hepatic panels, and adiposity, oxidative stress, and inflammation biomarkers. Intermittent fasting from dawn to sunset is a form of fasting practiced during human activity hours. keywords: 4th week; access; activity; adiposity; analysis; anticancer; average; biomarkers; blood; breast; calreticulin; cancer; carcinoma; cell; changes; circadian; clock; components; daily; dawn; day; density; dna; drinking; dusk; eating; effect; encodes; end; equal; expression; fig; findings; fold; food; gene; glucose; gps; growth; hepatic; hepatocellular; high; histone; homa; hours; human; increase; inflammation; insulin; intermittent fasting; kit; levels; lipid; lipoprotein; log2; lung; manuscript; mass; metabolic; metabolic syndrome; metastasis; mice; non; oxidative; panel; phase; polk; pressure; prkcsh; protein; proteome; proteomic; reduction; repair; resistance; response; risk; role; serum; signaling; significant; stress; studies; study; subjects; sunset; syndrome; table; time; transition; tumor; week intermittent; weeks; weight; window cache: cord-329155-ddpfox68.txt plain text: cord-329155-ddpfox68.txt item: #560 of 647 id: cord-330581-g5r2b043 author: Marini, Elena title: HIV‐1 matrix protein p17 binds to monocytes and selectively stimulates MCP‐1 secretion: role of transcriptional factor AP‐1 date: 2007-10-26 words: 8287 flesch: 46 summary: Cell Microbiol DOI: 10.1111/j.1462-5822.2007.01073.x sha: doc_id: 330581 cord_uid: g5r2b043 HIV‐1 matrix protein p17 activates a variety of cell responses which play a critical role in viral replication and infection. To assess whether the increase in MCP-1 protein levels induced by p17 treatment was paralleled by an increase in A. Purified monocytes were stained for p17R and HLA-DR expression, as described in Experimental procedures. keywords: activation; active; activity; aids; analysis; anti; ap-1; binding; cd14; cells; complete; complexes; concentration; control; culture; cycloheximide; data; dependent; different; dna; emsa; enhancer; et al; experiments; expression; extracts; factor; fig; fold; fos; francesco; gene; gfp; hiv-1; human; ifn; immune; increase; induced; induction; infection; inflammatory; jun; kit; levels; line; lps; luciferase; matrix; mcp-1; medium; min; monocytes; mrna; nuclear; oligonucleotides; p17; p17r; patients; pglm; plasmid; presence; primary; prm; promoter; protein; protein-1; proximal; purified; region; replication; results; role; site; specific; surface; thp-1; time; transcription; treatment; trypsin; untreated; viral; virus cache: cord-330581-g5r2b043.txt plain text: cord-330581-g5r2b043.txt item: #561 of 647 id: cord-330800-s91zfzfi author: Reta, Daniel Hussien title: Molecular and Immunological Diagnostic Techniques of Medical Viruses date: 2020-09-04 words: 10553 flesch: 40 summary: A H1N1 Virus 2009 by reverse-transcription loop-mediated isothermal amplification with hydroxynaphthol blue dye An updated loop-mediated isothermal amplification method for rapid diagnosis of H5N1 avian influenza viruses Loop-mediated isothermal amplification assay for rapid detection of hepatitis C virus Detection of acute HIV-1 infection by RT-LAMP Detection of Zika virus using reverse-transcription LAMP coupled with reverse dot blot analysis in saliva Infectious diseases detection by microarray: an overview of clinical relevant infections Utility of DNA microarrays for detection of viruses in acute respiratory tract infections in children Detection of herpesvirus and adenovirus co-infections with diagnostic DNA-microarrays DNA microarrays for virus detection in cases of central nervous system infection DNA microarray for detection of gastrointestinal viruses DNA microarray platform for detection and surveillance of viruses transmitted by small mammals and arthropods DNA probe array for the simultaneous identification of herpesviruses, enteroviruses, and flaviviruses Characterization of real-time microarrays for simultaneous detection of HIV-1, HIV-2, and hepatitis viruses A DNA microarray-based assay to detect dual infection with two dengue virus serotypes An efficient microarray-based genotyping platform for the identification of drug-resistance mutations in majority and minority subpopulations of HIV-1 Quasispecies Development of a simple microarray for genotyping HIV-1 drug resistance mutations in the reverse transcriptase gene in rural Tanzania Microarray-based genotyping and detection of drug-resistant HBV mutations from 620 Chinese patients with chronic HBV infection Development of a single nucleotide polymorphism DNA microarray for the detection and genotyping of the SARS coronavirus Diagnostic microarray for influenza B viruses Viral discovery and sequence recovery using DNA microarrays Metagenomics and the molecular identification of novel viruses DNA microarrays: types, applications and their future Next-generation sequencing for infectious disease diagnosis and management Current approaches for diagnosis of influenza virus infections in humans Application of next generation sequencing in clinical microbiology and infection prevention Assessing the performance of the Oxford nanopore technologies MinION Nanopore sequencing and assembly of a human genome with ultra-long reads Rapid and accurate sequencing of enterovirus genomes using MinION nanopore sequencer Whole genome sequencing of influenza A and B viruses with the MinION sequencer in the clinical setting: a pilot study Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples A method to identify respiratory virus infections in clinical samples using nextgeneration sequencing Evolutionary dynamics of local pandemic H1N1/2009 influenza virus lineages revealed by whole-genome analysis First evaluation of the Next-Generation Sequencing platform for the detection of HIV-1 drug resistance mutations in Belgium Newly discovered Ebola virus associated with hemorrhagic fever outbreak in Uganda Next-generation sequencing and bioinformatic approaches to detect and analyze influenza virus in ferrets Metagenomic nextgeneration sequencing aids the diagnosis of viral infections in febrile returning travellers Nucleoprotein-based indirect enzyme-linked immunosorbent assay (indirect ELISA) for detecting antibodies specific to Ebola virus and Marbug virus Evaluation of antibody testing for SARS-CoV-2 using ELISA and lateral flow immunoassays Evaluation of ELISA tests for the qualitative determination of IgG, IgM and IgA to SARS-CoV-2 Development of an enzyme-linked immunosorbent assay for rapid detection of dengue virus (DENV) NS1 and differentiation of DENV serotypes during early infection Transmission of Herpes simplex virus type 2 among factory workers in Ethiopia Detection of severe acute respiratory syndrome (SARS) coronavirus nucleocapsid protein in SARS patients by enzyme-linked immunosorbent assay Detection of hepatitis A, B, and C virus-specific antibodies using oral fluid for epidemiological studies Newly established monoclonal antibodies for immunological detection of H5N1 influenza virus High specificity of a novel Zika virus ELISA in European patients after exposure to different flaviviruses Laboratory diagnostics for HIV infection Development of a Western blot assay for detection of antibodies against coronavirus causing severe acute respiratory syndrome Western blot detection of human anti-Chikungunya virus antibody with recombinant envelope 2 protein Western blot-based logistic regression model for the identification of recent HIV-1 infection: a promising HIV-1 surveillance approach for resource-limited regions Early detection of anti-HCc antibody in acute hepatitis C virus (HCV) by western blot (immunoblot) using a recombinant HCV core protein fragment Detection of human immunodeficiency virus type 1 (HIV-1) antibody by western blotting and HIV-1 DNA by PCR in patients with AIDS Western blot profile in HIV infection Accuracy of rapid influenza diagnostic test and immunofluorescence assay compared to real time RT-PCR in children with influenza A(H1N1)pdm09 infection Immunofluorescence assay for serologic diagnosis of SARS Detection of herpes simplex virus in direct specimens by immunofluorescence assay using a monoclonal antibody Comparative evaluation of a simple indirect immunofluorescence test and mouse neutralization test for assaying rabies antibodies Molecular diagnostic techniques provide rapid viral detection in patient sample. keywords: acid; acute; amplification; amplification assay; antibodies; antibody; antigen; antiviral; assay; available; beacon; blot; capture; chain; children; clinical; commercial; conventional; copies; coronavirus; countries; cov-2; covid-19; cross; culture; dengue; detection; development; diagnosis; different; disease; dna; dye; e assay; ebola; elisa; enzyme; ethiopia; evaluation; example; figure; fluorescence; gene; h1n1; h5n1; hcv; hepatitis; high; hiv; human; ifa; igg; igm; immunofluorescence; immunological; indirect; infection; influenza; isothermal; kit; kits; laboratories; laboratory; lamp; lod; loop; medical; methods; microarray; molecular; multiplex; nasba; ngs; nucleic; number; overall; pandemic; pathogens; patients; pcr; plasma; polymerase; positive; primer; probes; product; proteins; qpcr; qualitative; rapid; rapid detection; reaction; real; respiratory; reverse; rna; rsv; samples; sars; sensitive; sensitivity; sequence; sequencing; serotypes; serum; specificity; specimens; study; target; techniques; test; testing; time; time pcr; tma; transcription; turnaround; usa; viral; virology; virus; viruses; western; zika; zikv cache: cord-330800-s91zfzfi.txt plain text: cord-330800-s91zfzfi.txt item: #562 of 647 id: cord-331557-8axi74nn author: Raoult, Didier title: What does the future hold for clinical microbiology? date: 2004 words: 6513 flesch: 28 summary: key: cord-331557-8axi74nn authors: Raoult, Didier; Fournier, Pierre Edouard; Drancourt, Michel title: What does the future hold for clinical microbiology? date: 2004 journal: Nat Rev Microbiol DOI: 10.1038/nrmicro820 sha: doc_id: 331557 cord_uid: 8axi74nn In the past decade, clinical microbiology laboratories have undergone important changes with the introduction of molecular biology techniques and laboratory automation. Worldwide -mainly because of the cost of containment measures for infectious diseases -there has been a general tendency over the past 10 years to centralize clinical microbiology laboratories such that they serve several hospitals, therefore maximizing the efficiency of testing at the lowest cost 4 . keywords: 16s; agents; amplification; analysis; antibiotic; antibodies; antigens; antimicrobial; application; approach; assays; availability; available; bacteria; bioterrorism; blood; cells; changes; clinical; clinical microbiology; complex; control; culture; databases; detection; development; diagnosis; different; digital; diseases; dna; electron; example; fcm; flow; future; gene; genome; hiv; human; identification; images; important; infected; infectious; isolates; laboratories; laboratory; large; mass; methods; microarrays; microbiology; microbiology laboratories; microorganisms; microscopy; molecular; new; non; number; particular; pathogens; patients; pcr; pictures; polymerase; possible; present; probes; products; protein; rapid; resistance; rickettsia; rna; rrna; samples; search; sequence; serum; spacer; specific; specimens; spectrometry; strategy; studies; susceptibility; systems; techniques; technology; testing; tests; time; tools; typing; universal; useful; viral; viruses cache: cord-331557-8axi74nn.txt plain text: cord-331557-8axi74nn.txt item: #563 of 647 id: cord-331641-u27ohm5p author: Liu, Xiaonan title: A direct isothermal amplification system adapted for rapid SNP genotyping of multifarious sample types date: 2018-09-15 words: 3853 flesch: 45 summary: 1C illustrates that the Direct-LAMP could accurately detect all possible homozygotes and heterozygotes of MTHFR C677T with whole blood sample. Whole blood sample was collected using EDTA-coated tubes. keywords: aldh2; amplification; bip; blood; buccal; c677; china; clinical; detection; direct; dna; et al; fig; fip; genotyping; glu504lys; isothermal; lamp; method; min; mthfr; mutation; naoh; pcr; primers; procedure; purification; rapid; reaction; respectively; results; saliva; sample; snp; snps; specific; spot; study; swab; system; target; testing; time; treatment; type; wild cache: cord-331641-u27ohm5p.txt plain text: cord-331641-u27ohm5p.txt item: #564 of 647 id: cord-331698-rwow1ydx author: Latorre-Pérez, Adriel title: A lab in the field: applications of real-time, in situ metagenomic sequencing date: 2020-08-20 words: 6734 flesch: 31 summary: ONT metagenomic sequencing results were similar to those obtained with Illumina 16S rRNA sequencing, but a reduced time was achieved using MinION. The nextgeneration sequencing revolution and its impact on genomics Actionable diagnosis of neuroleptospirosis by next-generation sequencing Analysis of culture-dependent versus culture-independent techniques for identification of bacteria in clinically obtained bronchoalveolar lavage fluid Nanopore sequencing as a rapidly deployable Ebola outbreak tool Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella Rapid identification of pathogens from positive blood culture bottles with the MinION nanopore sequencer Rapid nanopore sequencing of plasmids and resistance gene detection in clinical isolates Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis Metagenomic arbovirus detection using MinION nanopore keywords: 16s; amplicon; analysis; applications; approaches; associated; authors; bacterial; case; characterization; clinical; communities; community; complex; conditions; context; cost; culture; current; data; detection; development; devices; diagnosis; different; dna; ebola; environments; et al; fast; field; food; fragments; gene; generation; genomes; hand; high; human; identification; illumina; individual; industrial; industry; infections; iss; key; lab; length; level; long; low; marker; metagenomic; metagenomic sequencing; microbial; microbiome; microorganisms; minion; molecular; nanopore; new; ont; order; outbreak; oxford; pathogens; patients; pcr; platforms; portable; potential; present; process; production; protocols; range; rapid; read; real; resistance; results; rrna; samples; sequences; sequencing; sgs; similar; single; situ; species; specific; strand; studies; study; targeted; taxonomic; techniques; technologies; technology; tgs; throughput; time; tools; use; viral; viruses; work cache: cord-331698-rwow1ydx.txt plain text: cord-331698-rwow1ydx.txt item: #565 of 647 id: cord-331718-rjggiklf author: Kubota, Takeo title: Epigenetic Effect of Environmental Factors on Autism Spectrum Disorders date: 2016-05-14 words: 4779 flesch: 19 summary: Chromatin is a genetic unit that consists of DNA and histone proteins, which are modified by enzymes for DNA methylation, histone acetylation and methylation and by chromatin-binding polycomb proteins. For example, increased DNA methylation at the promoter regions subsequent reduced expression were observed within the genes of oxytocin receptor (OCTR), Engrailed-2 (EN2) and Reelin (RELN) in the postmortem brain tissues from ASD patients [69] [70] [71] . keywords: altered; asds; autism; bdnf; binding; blood; bpa; brain; cause; cells; changes; chemical; chromatin; cognitive; complex; congenital; cpg; development; disease; disorders; dna; dna methylation; dnmt3b; duplication; early; effects; environmental; epigenetic; essential; evidence; exposure; expression; factors; figure; findings; function; generations; genes; histone; human; icf; immunological; induced; inheritance; interaction; life; male; maternal; mecp2; mental; methylation; model; monkeys; mouse; mutations; neurological; neuronal; normal; number; offspring; patients; phenotypes; prenatal; promoter; protein; recent; region; regulation; rett; risk; rtt; specific; spectrum; stem; stress; studies; study; subsequent; synaptic; syndrome; transgenerational; transmission cache: cord-331718-rjggiklf.txt plain text: cord-331718-rjggiklf.txt item: #566 of 647 id: cord-331916-n744pymd author: Liu, Jue title: Inhibition of porcine circovirus type 2 replication in mice by RNA interference date: 2006-04-10 words: 6710 flesch: 42 summary: Inhibition of PCV2 viral protein synthesis in cell culture by shRNA is sequence-specific and dose-dependent To test whether RNAi could inhibit PCV2 in cell culture, we generated six shRNA-expressing plasmids targeting the ORF1 and ORF2 regions of the PCV2 genome (Fig. 1A) for their ability to suppress expression of PCV2 viral proteins. A dose -response analysis ( Fig. 2A ) was conducted by transfecting PK15 cells with increasing amounts of pSIR3, pSIR6, or negative control pVP2-expressing plasmid followed by measuring the numbers of PCV2 antigen cells by IFA 72 h post-transfection. keywords: addition; analysis; anti; antibody; antigen; antiviral; balb; buffer; cells; circovirus; control; data; days; dna; effect; et al; expression; fig; figs; gene; genome; infected; infection; inguinal; inhibition; inoculated; interference; lesions; level; lymph; mammalian; mice; microscopic; min; model; mouse; mrna; multisystemic; nodes; nonspecific; nucleotide; numbers; orf1; orf2; pbs; pcr; pcv2; pigs; pk15; plasmids; pmws; porcine; positive; post; production; protein; psir3; pvp2; replication; results; rnai; rnas; sections; sequence; short; shrna; silencing; sirnas; small; specific; study; syndrome; synthesis; target; targeting; transfection; type; viral; virus; vivo cache: cord-331916-n744pymd.txt plain text: cord-331916-n744pymd.txt item: #567 of 647 id: cord-332379-340wczmq author: Pennington, Matthew R. title: Disparate Entry of Adenoviruses Dictates Differential Innate Immune Responses on the Ocular Surface date: 2019-09-13 words: 11603 flesch: 33 summary: Corneal epithelial cell infection by tropic HAdVs also occurs via a dynamin 2-independent pathway (manuscript in preparation). Corneal epithelial cell infection by tropic HAdVs also occurs via a dynamin 2-independent pathway (manuscript in preparation). keywords: acid; activation; acute; adenovirus; adenovirus infection; adenovirus type; analysis; antigen; aqueous; arrows; binding; capsid; caveolae; caveolin; cell types; cells; cellular; chemokine; clathrin; clinical; complex; conjunctival; corneal; corneal epithelial; critical; cytokine; d37; data; dendritic; dendritic cells; dependent; detection; different; disease; distinct; dna; dynamin; ekc; electron; endocytosis; endosomal; endosomes; enter; entry; epidemic; epithelial; epithelial cells; evidence; expression; eye; fiber; fibroblasts; figure; film; form; formation; function; gene; genome; goblet; hadv; hela; host; human; human adenovirus; human corneal; il-8; immortalized; immune; immune responses; induced; infected; infection; infiltration; inflammation; inflammatory; innate; integrins; internalization; keratitis; keratoconjunctivitis; keratocytes; kinase; late; layer; lead; like; macrophages; macropinocytosis; mcp-1; mechanisms; membrane; mice; micrographs; microtubule; model; molecular; mouse; mucins; myd88; non; normal; novel; nuclear; nucleus; ocular; ocular surface; onset; pathway; potential; present; primary; production; protein; prrs; rapid; receptor; recruitment; replication; responses; role; seis; signaling; species; specific; src; stroma; structure; studies; subsequent; surface; surface cells; tear; tlr2; tlr9; trafficking; treatment; tropic; tropism; type; uncoating; viral; viruses; vivo; white; work cache: cord-332379-340wczmq.txt plain text: cord-332379-340wczmq.txt item: #568 of 647 id: cord-332654-nav15g8k author: Paniri, Alireza title: Molecular effects and retinopathy induced by hydroxychloroquine during SARS-CoV-2 therapy: Role of CYP450 isoforms and epigenetic modulations date: 2020-08-04 words: 5722 flesch: 30 summary: Moreover, HCQ impedes S protein cleavage which is a key point for cell fusion of SARS-CoV-2 by increasing lysosomal pH levels, and inhibiting its proteases (Gautret et al., 2020; Millet & Whittaker, 2015; Vincent et al., 2005; Yao et al., 2020) . Also, HCQ could inhibit the innate immunity by binding to TLR ligands including DNA and single strand RNA (ssRNA) which interact with TLR9 and TLR7, respectively (Schrezenmeier & Dörner, 2020; Thwaites et al., 2014) . keywords: acetylation; action; activation; activity; administration; anti; antigen; arthritis; binding; cancer; cases; cells; clinical; comparison; coronavirus; cov-2; covid-19; cyp1b1; cyp2d6; cyp450; cytochrome; day; different; diseases; disorders; dna; drug; effects; entry; enzymes; epigenetic; et al; evidence; expression; fig; gautret; genes; hcq; histone; human; hydroxychloroquine; il-6; inflammatory; inhibition; inhibits; isoforms; kidney; levels; lipofuscin; liver; lysosomal; lysosome; mechanisms; metabolism; methylation; metoprolol; novel; oatp1a2; outer; p450; patients; phagocytosis; pharmacokinetics; photoreceptor; pigment; regulation; replication; results; retinal; retinopathy; review; rheumatoid; role; rpe; sars; segment; severe; similar; spectrum; studies; study; syndrome; therapy; tissues; toxicity; treatment; viral; wide cache: cord-332654-nav15g8k.txt plain text: cord-332654-nav15g8k.txt item: #569 of 647 id: cord-332844-2se4d1yp author: Yun, Sang-Im title: Bacterial Artificial Chromosomes: A Functional Genomics Tool for the Study of Positive-strand RNA Viruses date: 2015-12-29 words: 4809 flesch: 34 summary: Recover the cloned BAC DNA from the host cells by a column-based purification method (Figure 1C) Pick six to eight bacterial colonies from the LB-Cml agar plates and inoculate them into 3 ml of 2xYT broth containing 10 µg/ml Cml Perform two analytical restriction enzyme digestions of the isolated BACs for ~6 hr in a total volume of 10 µl, one to identify the presence of the vector with a correct insert using the same enzymes used for cloning (see Protocol 3.1), and the other to test the integrity of the cloned BACs with an appropriate enzyme Propagate the correctly cloned BACs by inoculating 500 µl of the positive bacterial cultures (from Protocol 3.5.1) in 500 ml of 2xYT-Cml medium and cultivating the inoculum for 6 hr at 35 °C while shaking at 225-250 rpm Reverse genetics of RNA viruses: applications and perspectives QB DNA-containing hybrid plasmids giving rise to QB phage formation in the bacterial host Cloned poliovirus complementary DNA is infectious in mammalian cells RNA virus reverse genetics and vaccine design Infectious transcripts and cDNA clones of RNA viruses Multicomponent RNA plant virus infection derived from cloned viral cDNA cDNA cloning and in vitro transcription of the complete brome mosaic virus genome Functional cDNA clones of the Flaviviridae: strategies and applications Construction of a severe acute respiratory syndrome coronavirus infectious cDNA clone and a replicon to study coronavirus RNA synthesis Systematic assembly of a full-length infectious cDNA of mouse hepatitis virus strain A59 Reverse genetics with a full-length infectious cDNA of severe acute respiratory syndrome coronavirus Coronavirus reverse genetics by targeted RNA recombination Reverse genetics of coronaviruses using vaccinia virus vectors Systematic assembly of a full-length infectious clone of human coronavirus NL63 Reverse genetics with a full-length infectious cDNA of the Middle East respiratory syndrome coronavirus Engineering the largest RNA virus genome as an infectious bacterial artificial chromosome Engineering a replication-competent, propagation-defective Middle East respiratory syndrome coronavirus as a vaccine candidate The making of infectious viral RNA: No size limit in sight Construction of large DNA segments in Escherichia coli Cloning and stable maintenance of 300-kilobase-pair fragments of human DNA in Escherichia coli using an F-factor-based vector Construction of a 750-kb bacterial clone contig and restriction map in the region of human chromosome 21 containing the progressive myoclonus epilepsy gene PACs and MACs: artificial chromosomes as research tools Choosing a cloning vector Generation of recombinant pestiviruses using a full-genome amplification strategy An improved reverse genetics system for generation of bovine viral diarrhea virus as a BAC cDNA Construction of an infectious cDNA clone for a Brazilian prototype strain of dengue virus type 1: characterization of a temperature-sensitive mutation in NS1 Development and application of a reverse genetics system for Japanese encephalitis virus A molecularly cloned, live-attenuated Japanese encephalitis vaccine SA 14 -14-2 virus: a conserved single amino acid in the ij hairpin of the viral E glycoprotein determines neurovirulence in mice Development of a novel DNA-launched dengue virus type 2 infectious clone assembled in a bacterial artificial chromosome Identification of 5' and 3' cis-acting elements of the porcine reproductive and respiratory syndrome virus: acquisition of novel 5' AU-rich sequences restored replication of a 5'-proximal 7-nucleotide deletion mutant Recovery of a neurovirulent human coronavirus OC43 from an infectious cDNA clone Molecular characterization of feline infectious peritonitis virus strain DF-2 and studies of the role of ORF3abc in viral cell tropism Virus taxonomy: eighth report of the International Committee on Taxonomy of Viruses. For RNA virologists, the advent of recombinant DNA technology in the late 1970s made it possible to convert viral RNA genomes into cDNA clones, which could then be propagated as plasmids in bacteria for the genetic manipulation of RNA viruses. keywords: -14; agarose; approach; artificial; assembly; bac; bacs; bacterial; cdna; cells; cloned; cloning; coli; construction; copy; coronavirus; dengue; development; encephalitis; figure; flavivirus; functional; gel; genetics; genome; genomic; host; infectious; infectious cdna; insert; japanese; jev; length; min; molecular; nucleotide; number; pbac; pcr; plasmid; polymerase; positive; protocol; reaction; recombinant; replication; reverse; rna; rna viruses; rnas; sequence; step; strand; strand rna; synthesis; synthetic; system; transcription; vector; viral; viral rna; virus; viruses; vitro; volume cache: cord-332844-2se4d1yp.txt plain text: cord-332844-2se4d1yp.txt item: #570 of 647 id: cord-333220-tcvs4beg author: Lee, Szu-Yuan title: Compact optical diagnostic device for isothermal nucleic acids amplification date: 2008-08-12 words: 4854 flesch: 44 summary: This system can provide appropriate reaction conditions for HBV LAMP DNA amplification. After the performance of micro-reactor system is confirmed, HBV LAMP reactions can be transplanted into this system. keywords: addition; amplification; apparatus; applications; base; buffer; changes; conditions; copies; design; detection; device; disposable; dna; fig; gene; hbv; hbv dna; hbv lamp; hepatitis; inhibitors; integrated; intensity; isothermal; isothermal amplification; lamp; lamp reaction; level; light; loop; magnesium; method; micro; min; monitoring; optical; pcr; pmma; polymerase; primers; product; pyrophosphate; rapid; reaction; reactor; real; results; sequences; serum; specimens; study; system; temperature; template; time; total; turbidity; unit; usa; viral; virus cache: cord-333220-tcvs4beg.txt plain text: cord-333220-tcvs4beg.txt item: #571 of 647 id: cord-333524-a6p6ma8r author: Khan, Pavana title: Isothermal SARS-CoV-2 Diagnostics: Tools for Enabling Distributed Pandemic Testing as a Means of Supporting Safe Reopenings date: 2020-09-23 words: 8847 flesch: 42 summary: Assay: A Case for Rapid, Ultrasensitive and Visual Detection of Novel Coronavirus SARS-CoV-2 and HIV Virus An Ultrasensitive, Rapid, and Portable Coronavirus SARS-CoV SARS-CoV-2 Detection with CRISPR Diagnostics CDetection: CRISPR-Cas12b-Based DNA Detection with Sub-Attomolar Sensitivity and Single-Base Specificity Development and Evaluation of Recombinase-Aided Amplification Assays Incorporating Competitive Internal Controls for Detection of Human Adenovirus Serotypes 3 and 7 Direct Observation of DNA Target Searching and Cleavage by CRISPR-Cas12a SHERLOCK: Nucleic Acid Detection with CRISPR Nucleases Pointof-Care Testing for COVID-19 Using SHERLOCK. CRISPR-based detection uses both primer-specific amplification and guide RNA directed detection, thus increasing sequence specificity in two different ways. keywords: acid; activity; amplification; applications; aptamer; assay; associated; binding; cas12a; circle; cleavage; clinical; colorimetric; complementary; copies; coronavirus; cost; cov-2; covid-19; crispr; current; design; detection; diagnostics; different; disadvantages; disease; displacement; dna; dsdna; enzyme; extension; false; figure; fluorescent; gene; genome; helicase; high; human; ilaco; infection; isothermal; isothermal amplification; lamp; limit; loop; low; methods; min; molecular; multiple; nasba; near; new; nicking; novel; nucleic; pcr; poc; polymerase; positive; potential; primers; probe; process; product; promoter; proteins; rapid; rca; reaction; readout; real; recombinase; region; respiratory; reverse; review; rna; rolling; rpa; saliva; samples; sars; sensitivity; sequence; serological; signal; single; smart; specificity; spread; step; strand; study; synthetic; system; target; techniques; technology; temperature; template; test; testing; time; transcriptase; transcription; tube; use; variety; viral cache: cord-333524-a6p6ma8r.txt plain text: cord-333524-a6p6ma8r.txt item: #572 of 647 id: cord-333914-c150ki1n author: Koba, Ryota title: Identification and characterization of a novel bat polyomavirus in Japan date: 2020-08-20 words: 1687 flesch: 46 summary: The aims of this study were to (i) determine the presence of PyVs in Japanese bats, (ii) characterize the genomic structure of bat PyVs, and (iii) analyze the evolutionary relationships between the bat PyV detected in this study and other known bat PyVs. The nucleotide sequence identity of the genome with those of other bat PyVs was less than 80%. keywords: antigen; bat; bats; cellular; contigs; dna; early; fig; fuliginosus; genome; genomic; identity; japanese; known; large; late; life; mfpyv; miniopterus; novel; nucleotide; pcr; polyomaviridae; polyomavirus; pyvs; region; replication; sequences; study; supplementary; table; tag; ttt; viral; virus; viruses; vp1; vp2; vp3 cache: cord-333914-c150ki1n.txt plain text: cord-333914-c150ki1n.txt item: #573 of 647 id: cord-334082-fyxn0g3v author: O’Carroll, I.P. title: Viral Nucleic Acids date: 2015-08-20 words: 5500 flesch: 50 summary: In contrast, cells do not normally make copies of RNA molecules; thus, RNA viruses must encode the proteins needed for RNA replication, including the RNA-dependent RNA polymerase. Another striking difference between DNA and RNA viruses is in the range of their genome sizes: while the largest RNA virus genomes, those of the coronaviruses, are approximately 32 kb, DNA viral genomes can be nearly 100 times larger, as Pandoravirus DNA is approximately 2.5 Â 10 6 bp. keywords: acid; aug; cell; cellular; circular; codon; complementary; copies; cytoplasm; dependent; different; dna; dnas; dsdna; encode; end; ends; expression; fact; figure; gag; genomes; genomic; host; important; infection; information; initiation; length; machinery; mechanisms; molecules; mrna; multiple; new; nucleic; nucleus; number; particle; polymerase; primer; production; progeny; proteins; replication; retroviruses; reverse; rna; rna viruses; rnas; sequences; single; size; strand; strand rna; structure; synthesis; termination; translation; viral; viral rna; viruses cache: cord-334082-fyxn0g3v.txt plain text: cord-334082-fyxn0g3v.txt item: #574 of 647 id: cord-335490-p63qlcnx author: Schenk, Thomas title: Disseminated Bocavirus Infection after Stem Cell Transplant date: 2007-09-17 words: 1932 flesch: 41 summary: However, rhinitis, cough, and lowgrade fever (<38.5°C) persisted until day 50 (online Appendix Figure) , and HBoV DNA was detected in NPAs on days 37 and 44 at 2.4 × 10 11 and 1.3 × 10 14 copies/mL, respectively (online Appendix Figure) . Subsequent plasma (days 61, 68, 75, 88, 219), NPA (day 219), and stool (day 219) samples were negative for HBoV DNA. keywords: appendix; blood; bocavirus; body; case; children; copies; day; days; disease; dna; drug; figure; hbov; health; hps; hsct; human; infection; isoniazid; levels; load; lower; marrow; negative; normal; npa; npas; online; patient; pcr; prca; report; respiratory; results; samples; tract; treatment; viral cache: cord-335490-p63qlcnx.txt plain text: cord-335490-p63qlcnx.txt item: #575 of 647 id: cord-335607-gv96hlw6 author: Yang, Dayong title: Novel DNA materials and their applications date: 2010-08-20 words: 9058 flesch: 39 summary: In this review, we summarize the development of DNA assemblies, describe the innovative progress of multifunctional and bulk DNA materials, and highlight some real‐world nanomedical applications of these DNA materials. As a result, branched DNA motifs have been created to extend the diversity of DNA assembly. keywords: abc; ability; addition; applications; approach; arrays; assemblies; assembly; aunps; base; biology; blocks; branched; building; cell; colorimetric; complementary; complexes; components; construction; coworkers; crossover; crystals; dendritic; design; detection; diagnostics; different; dimensional; dna; dna materials; double; dyes; efficient; ends; enzyme; example; expression; fabrication; figure; flexible; fluorescent; folding; formation; free; gel; gene; geometry; gold; group; helix; high; hydrogel; interactions; junction; large; lattices; length; ligation; linear; materials; membrane; method; modified; modular; molecular; molecules; monomers; motifs; multifunctional; multiplexed; nanoarchitectures; nanobarcodes; nanomaterials; nanoparticle; nanoscale; nanostructures; nanotechnology; nanotubes; nanowires; novel; nucleic; oligonucleotide; origami; pairing; pathogen; point; potential; probes; process; production; programmable; properties; protein; real; rigid; scaffolds; self; sensing; sequences; shapes; single; specific; ssdna; stable; sticky; strands; strategy; structures; surface; symmetry; synthesis; systems; target; template; tiles; time; unique; yield cache: cord-335607-gv96hlw6.txt plain text: cord-335607-gv96hlw6.txt item: #576 of 647 id: cord-335839-wgdqu1s1 author: Singh, Meharban title: Pediatrics in 21(st) Century and Beyond date: 2016-08-10 words: 4425 flesch: 43 summary: There will be reduced burden of genetic diseases because of selective abortions of “defective” fetuses and replacement of “bad” genes with “good” ones by genetic engineering. There will be reduced burden of genetic diseases because of selective abortions of Bdefective^fetuses and replacement of Bbad^genes with Bgood^ones by genetic engineering. keywords: adult; advances; antibodies; artificial; arts; assisted; availability; available; babies; blood; body; burden; cancers; care; cells; century; chakras; children; constitution; developments; diagnosis; digital; diseases; disorders; dna; doctor; drugs; effective; electronic; engineering; ethical; field; foods; future; genes; genetic; genome; genomic; greater; healing; health; help; hope; human; identification; improved; infective; interventions; issues; large; lasers; legal; life; lifestyle; likely; medicine; nature; new; newer; non; number; outstanding; parameters; patient; pediatrics; possible; practice; public; pulse; quality; reality; risk; smart; spiritual; stem; strategies; surgical; survival; technology; therapy; treatment; vaccines; waves cache: cord-335839-wgdqu1s1.txt plain text: cord-335839-wgdqu1s1.txt item: #577 of 647 id: cord-335864-392xmrq0 author: Sun, Yu-Meng title: Principles and innovative technologies for decrypting noncoding RNAs: from discovery and functional prediction to clinical application date: 2020-08-10 words: 13950 flesch: 41 summary: Expression and association with the vault complex Vault ribonucleoprotein particles from rat and bullfrog contain a related small RNA that is transcribed by RNA polymerase III Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs Characterization of the RNA content of chromatin Df31 protein and snoRNAs maintain accessible higher-order structures of chromatin Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs Mapping the genome landscape using tiling array technology Development of strategies for SNP detection in RNA-seq data: application to lymphoblastoid cell lines and evaluation using 1000 genomes data A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome Identification of fusion genes in breast cancer by paired-end RNAsequencing TopHat: discovering splice junctions with RNA-Seq Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses omiRas: a web server for differential expression analysis of miRNAs derived from small RNA-Seq data piPipes: a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome-and CAGEseq, ChIP-seq and genomic DNA sequencing FlaiMapper: computational annotation of small ncRNA-derived fragments using RNA-seq highthroughput data tsRNAs: new players in mammalian retrotransposon control A survey of best practices for RNA-seq data analysis MicroRNA profiling: separating signal from noise Evidence for human microRNA-offset RNAs in small RNA sequencing data Extensive terminal and asymmetric processing of small RNAs from rRNAs, snoRNAs, snRNAs, and tRNAs Comprehensive multi-center assessment of small RNA-seq methods for quantitative miRNA profiling Comprehensive assessment of multiple biases in small RNA sequencing reveals significant differences in the performance of widely used methods Single-cell RNA sequencing for the study of development, physiology and disease Transcription factor profiling in individual hematopoietic progenitors by digital RT-PCR Adapting the smart-seq2 protocol for robust single worm RNA-seq Technical variations in low-input RNA-seq methodologies Metabolic tagging and purification of nascent RNA: implications for transcriptomics Nascent RNA analyses: tracking transcription and its regulation Regulating RNA polymerase pausing and transcription elongation in embryonic stem cells RNA dynamics revealed by metabolic RNA labeling and biochemical nucleoside conversions Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome Decrypting noncoding RNA interactions, structures, and functional networks Non-coding RNA: a new frontier in regulatory biology Genome regulation by long noncoding RNAs The long noncoding RNAs NEAT1 and MALAT1 bind active chromatin sites Systematic mapping of RNA-chromatin interactions in vivo The genomic binding sites of a noncoding RNA Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions [58] RNA capture sequencing A derivative technology combining RNA-seq with tilling arrays. keywords: active; addition; alternative; amplification; analysis; apex; approach; arrays; associated; bias; binding; biological; biomarkers; biotin; cancer; capture; cdna; cell; certain; chromatin; circrnas; circular; classical; coding; compartments; complementary; complexes; comprehensive; contamination; cross; database; detection; development; diagnosis; different; discovery; disease; diverse; ends; example; experimental; expression; fig; fragments; functional; gene; genome; genomic; global; high; human; hybridization; identification; immunoprecipitation; important; information; innovative; interactions; interactome; lack; large; length; levels; library; ligation; like; lncrna; localization; location; long; low; mammalian; mapping; maps; method; microrna; mirna; molecules; mouse; multiple; nascent; ncrnas; networks; new; noise; noncoding; nonpolyadenylated; novel; novel ncrnas; nuclear; number; patterns; potential; preparation; primers; principles; probes; processes; profiling; protein; proximity; psoralen; purification; random; recent; regions; regulation; regulatory; reverse; ribosome; rna; rna interactions; rnas; roles; rrna; samples; scale; scrna; sensitivity; seq; sequences; sequencing; signatures; single; sites; situ; size; small; small ncrnas; small rna; snornas; species; specific; splicing; stem; strand; structures; studies; study; subcellular; super; synthesis; target; techniques; technologies; technology; throughput; tiling; tissue; total; transcribed; transcription; transcriptome; transcripts; translational; types; unknown; uses; vivo; wide; world cache: cord-335864-392xmrq0.txt plain text: cord-335864-392xmrq0.txt item: #578 of 647 id: cord-336219-xndxn1r3 author: Chuang, Chi-Mu title: Treatment with Imiquimod enhances antitumor immunity induced by therapeutic HPV DNA vaccination date: 2010-04-28 words: 4751 flesch: 50 summary: Tumor cells were either stained with PE-conjugated anti-CD4 (L3T4) and FITC-conjugated anti-CD25 (PC61) mAbs for quantification of regulatory T cells, or stained with stained with PE-conjugated anti-CD11b (M1/70) and Tumor cells were then made into single cell suspension, washed once in FACScan buffer, and stained with surface markers for various innate and adaptive effectors including PE-conjugated anti-CD4 (L3T4), PEconjugated anti-CD8 (53-6.7), FITC-conjugated anti-GR-1 (RB6-8C5), PE-conjugated anti-CD19 (1D3), PE-conjugated anti-NK1.1 (PK136), and PE-Cy5-conjugated anti-F4/80 (BM8). keywords: analysis; antigen; antitumor; c57bl/6; cd8; cells; combination; crt; data; days; dna; e7 dna; effects; figure; gene; group; gun; hpv; imiquimod; immune; important; macrophages; mice; microenvironment; mouse; myeloid; nk1.1; number; responses; specific; study; suppressor; tc-1; therapeutic; topical; total; treatment; tumor; untreated; vaccination; vaccine cache: cord-336219-xndxn1r3.txt plain text: cord-336219-xndxn1r3.txt item: #579 of 647 id: cord-336636-xgfw21hk author: Spezia, Pietro Giorgio title: Redondovirus DNA in human respiratory samples date: 2020-08-15 words: 1893 flesch: 39 summary: Further defining the human virome using NGS: identification of Redondoviridae Identification and genetic characterization of a novel circular single-stranded DNA virus in a human upper respiratory tract sample Consensus statement: virus taxonomy in the age of metagenomics Genomoviridae: a new family of widespread single-stranded DNA viruses Smacoviridae: a new family of animal-associated single-stranded DNA viruses Molecular properties, biology, and clinical implications of TT virus, a recently identified widespread infectious agent of humans Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by diverse replicons from eubacteria, eucaryotes and archaebacteria A new superfamily of putative NTP-binding domains encoded by genomes of a small DNA and RNA viruses Torquetenovirus: the human virome from bench to bedside A novel rolling circle amplification assay to detect members of the family Anelloviridae in pigs and humans The fecal virome of South and Central American children with diarrhea includes small circular DNA viral genomes of unknown origin Human bocavirus and paediatric infections Respiratory viruses other than influenza virus: impact and therapeutic advances The aminoacidic (A) and nt (B) trees based on a 582-bp segment from the capsid gene of the viral genome was obtained by applying Neighbor-Join and BioNJ algorithms to a matrix of pairwise distances estimated using Jones-Thornton-Taylor (JTT) and Maximum Composite Likelihood (MCL) models, respectively. The finding might indicate that, similar to other respiratory viruses [18, 19] , ReDoV may not remain restricted to the respiratory tract. keywords: biological; blood; capsid; circular; cress; dna; family; gene; genomes; healthy; human; individuals; interest; length; lung; new; patients; pcr; positive; protein; redov; rep; respiratory; samples; sequences; single; small; specimens; stool; study; subjects; tract; viral; virome; virus; viruses cache: cord-336636-xgfw21hk.txt plain text: cord-336636-xgfw21hk.txt item: #580 of 647 id: cord-336659-qddjqiw9 author: Ramos, Jheneffer Sonara Aguiar title: Multi-biomarker responses to pesticides in an agricultural population from Central Brazil date: 2020-08-21 words: 3845 flesch: 35 summary: Environmental Noworyta Effect of chlorpyrifos on the profile of subpopulations immunocompetent cells B, T and NK in in vivo model Vegan: Community Ecology Package Investigation of pesticide exposure by genotoxicological, biochemical, genetic polymorphic and in silico analysis Biomonitoring of rural workers exposed to a complex mixture of pesticides in the municipalities of Tianguá and Ubajara (Ceará state, Brazil): Genotoxic and cytogenetic studies Pesticide Use and Antinuclear Antibodies in Male Farmers From the Agricultural Health Study Rheumatoid arthritis in agricultural health study spouses: associations with pesticides and other farm exposures Insecticide use and risk of rheumatoid arthritis and systemic lupus erythematosus in the Women's Health Initiative Observational Study Knowledge, attitudes, practices and biomonitoring of farmworkers and residents exposed to pesticides in Brazil Pesticides and public health in Brazil Assessment of genotoxicity in female agricultural workers exposed to pesticides Notifiable Diseases Information System and human poisoning by pesticides in Brazil R: A language and environment for statistical computing. This is a pioneer study in Central Brazil involving genetic and immunological biomarkers to identify how pesticides could impair such systems increasing the susceptibility to the development of chronic issues problems. was composed of 100 individuals directly exposed to pesticides (occupationally exposed to various pesticides during storage, mixing, loading, and pesticide spraying activities), and 80 subjects indirectly exposed, living nearby crops, therefore, environmentally exposed to pesticides. keywords: agricultural; allele; assay; assessment; biomarkers; blood; brazil; cd25; cd3; cd4; cells; chronic; control; crops; damage; difference; direct; diseases; dna; dna damage; effects; et al; exposure; farmworkers; gender; gene; genotoxic; genotype; group; health; higher; immune; increase; individuals; intoxication; lymphocytes; percentage; pesticides; ppe; repair; risk; rs361525; significant; snps; studies; study; susceptibility; system; tcd4; tnf; use; women; xrcc1 cache: cord-336659-qddjqiw9.txt plain text: cord-336659-qddjqiw9.txt item: #581 of 647 id: cord-336749-qbko22vf author: Kalisch, Thomas title: New readers and interpretations of poly(ADP-ribosyl)ation date: 2012-09-30 words: 6670 flesch: 39 summary: In silico prediction of PAR binding proteins using this pattern has established a catalog of proteins with potential PAR-binding capacity; many of which have been confirmed [12] . This also raises the question of how can so many proteins endowed with PAR-binding domains and capable of binding free PAR, at least in vitro, discriminate between their PARylated protein targets (or even free PAR) in vivo? keywords: activation; activity; adpr; aplf; axin; bacterial; binding; biochemical; biological; box; catalytic; cell; checkpoint; chfr; chromatin; complex; conserved; crystal; damage; death; degradation; dependent; different; discovery; display; dna; domain; efficient; factor; figure; finger; function; gene; glycohydrolase; glycosidic; homologous; identification; interaction; internal; ligase; light; like; macrodomains; mammalian; mechanism; mitotic; modification; modules; molecule; mono; motifs; new; oaadpr; par; parg; parp-1; parps; parylated; parylation; pbm; pbz; poly(adp; process; processes; proteasome; protein; question; recent; recognition; recruitment; regulation; repair; response; ribose; ribosyl)ation; rnf146; role; signaling; single; site; solution; stress; structure; subsequent; substrate; tankyrase; target; transcription; ubiquitin; ubiquitylation; wnt; wwe; zinc cache: cord-336749-qbko22vf.txt plain text: cord-336749-qbko22vf.txt item: #582 of 647 id: cord-337867-hqmf6r7t author: Shim, Byoung-Shik title: Intranasal immunization with plasmid DNA encoding spike protein of SARS-coronavirus/polyethylenimine nanoparticles elicits antigen-specific humoral and cellular immune responses date: 2010-12-31 words: 3777 flesch: 50 summary: TNF-α is a cytokine that probably regulates immune cells and inhibits viral replication [26] . It has been suggested that T cells producing IFN-γ, IL-2, IL-17, and TNF-α are especially effective in protective immunity [14] . keywords: acute; antibody; antigen; cd4; cd8; cells; cellular; complexes; coronavirus; cov; cytokine; data; dcs; dna; effective; expression; figure; gene; humoral; i.n; ifn; iga; il-17; il-2; immune; immunity; immunization; immunized; infection; intranasal; lung; mice; molecules; mucosal; nanoparticles; pci; pei; polyethylenimine; protective; protein; respiratory; responses; sars; severe; specific; spike; study; syndrome; tnf; transfection; vaccination; vaccine; wash cache: cord-337867-hqmf6r7t.txt plain text: cord-337867-hqmf6r7t.txt item: #583 of 647 id: cord-338164-pyam9yn3 author: Livingston, Andrew D title: Biochip sensors for the rapid and sensitive detection of viral disease date: 2005-05-26 words: 3507 flesch: 37 summary: Immunological tests are hampered by the need for specific antisera that are both laborious and time-consuming to produce, whereas PCR, while being a definite advance in sensitive virus detection, is prone to failure and false recordings and is limited in its ability to identify multiple Recent advances in DNA and protein microarray methodology and the emerging technology of cellbased sensors have massively increased the speed and sensitivity with which we can detect viral infections. Genome Biol DOI: 10.1186/gb-2005-6-6-112 sha: doc_id: 338164 cord_uid: pyam9yn3 Recent advances in DNA and protein microarray methodology and the emerging technology of cell-based sensors have massively increased the speed and sensitivity with which we can detect viral infections. keywords: ability; advances; analysis; antibodies; approach; arrays; authors; capable; cell; cellular; changes; chips; data; detection; dna; drug; early; example; expression; gene; genome; host; human; hybridization; identification; infection; microarray; microscopy; molecular; multi; need; number; omic; parallel; pathogen; possible; probes; profiles; protein; rapid; response; sensitive; sensitivity; sensors; signatures; specific; speed; systems; techniques; technologies; technology; unique; viral; virus; viruses cache: cord-338164-pyam9yn3.txt plain text: cord-338164-pyam9yn3.txt item: #584 of 647 id: cord-338582-o976nab9 author: Dahlhausen, Bob title: Future Veterinary Diagnostics date: 2010-09-19 words: 9203 flesch: 30 summary: Antibodies in an immunoassay format have been widely used and are well established as highly sensitive tools for disease detection. 26, 27 Researchers led by Joseph DeRisi of the University of California at San Francisco have combined genome databases of sequenced viruses with DNA microarray technology. keywords: ability; accurate; acid; agents; amplification; analysis; analytical; antibodies; antibody; antigen; applications; assays; associated; available; biological; biomarkers; biosensors; cancer; care; cdna; cells; changes; chip; clinical; coli; comparative; conserved; control; conventional; culture; density; detection; determination; development; diagnostic; different; discovery; disease; dna; dna microarrays; early; efficient; expression; field; fragments; future; gene; genetic; genome; genomic; high; human; hybridization; identification; important; individual; infectious; influenza; information; known; laboratories; laboratory; lamp; large; low; markers; medical; medicine; metabolomics; methods; microarrays; molecular; molecules; monitoring; multiple; new; nucleic; nucleotide; number; oligonucleotides; organisms; pathogen; patient; patterns; pcr; point; polymerase; portable; potential; presence; present; primers; probes; processes; product; profiling; protein; range; rapid; reaction; real; recognition; related; research; respiratory; results; rna; sample; sensitive; sensitivity; sequence; simultaneous; single; small; solid; species; specific; specificity; spp; study; surface; systems; target; technique; technologies; technology; testing; tests; thousands; throughput; time; tissues; tool; treatment; tumor; veterinary; viral; virochip; viruses cache: cord-338582-o976nab9.txt plain text: cord-338582-o976nab9.txt item: #585 of 647 id: cord-338633-pxxon1ni author: Zuo, Yu title: Neutrophil extracellular traps and thrombosis in COVID-19 date: 2020-11-05 words: 2792 flesch: 34 summary: SARS-CoV-2: a storm is raging Immune phenotyping based on neutrophilto-lymphocyte ratio and IgG predicts disease severity and outcome for patients with COVID-19 COVID-19 early warning score: a multi-parameter screening tool to identify highly suspected patients Advance in the management of sepsis-induced coagulopathy and disseminated intravascular coagulation New strategies for treatment of infectious sepsis Adenosine receptor agonism protects against NETosis and thrombosis in antiphospholipid syndrome In vivo role of neutrophil extracellular traps in antiphospholipid antibody-mediated venous thrombosis Ectonucleotidase tri(di)phosphohydrolase-1 (ENTPD-1) disrupts inflammasome/interleukin 1beta-driven venous thrombosis Neutrophils in the initiation and resolution of acute pulmonary inflammation: understanding biological function and therapeutic potential Immunothrombosis in acute respiratory distress syndrome: cross talks between inflammation and coagulation Neutrophil extracellular traps kill bacteria Inflammation: Neutrophil extracellular traps license macrophages for cytokine production in atherosclerosis Neutrophil extracellular traps in atherosclerosis and atherothrombosis Neutrophil extracellular traps promote deep vein thrombosis in mice In vivo characterization of neutrophil extracellular traps in various organs of a murine sepsis model Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study Pandemic H1N1 influenza infection and vascular thrombosis COVID-19-associated coagulopathy: An exploration of mechanisms Neutrophil extracellular traps in COVID-19 Yost CC (2020) Neutrophil extracellular traps contribute to immunothrombosis in COVID-19 acute respiratory distress syndrome Vascular occlusion by neutrophil extracellular traps in COVID-19 Targeting potential drivers of COVID-19: neutrophil extracellular traps Ritis K (2020) keywords: activation; acute; antibody; blood; calprotectin; clinical; coagulation; cohort; control; covid-19; data; diagnosis; dimer; disease; dna; elevated; event; extracellular; fig; free; group; high; higher; histone; hospital; infection; inflammation; kit; levels; material; myeloperoxidase; nets; neutrophil; patients; peak; plate; potential; respiratory; risk; role; sepsis; serum; severe; study; supplementary; syndrome; table; thrombosis; time; traps; venous cache: cord-338633-pxxon1ni.txt plain text: cord-338633-pxxon1ni.txt item: #586 of 647 id: cord-338812-q24jycgk author: Zakaryan, H. title: Nuclear remodelling during viral infections date: 2011-04-28 words: 4470 flesch: 24 summary: For example, it is still unclear why RNA virus proteins localize to the nucleolus or whether the PML NBs play a role for establishing herpesviral latency. For this reason, viruses rely on the utilization of host cell proteins and cellular structures to facilitate their own replicative processes. keywords: adenovirus; antiviral; b23; binding; bodies; cell; cellular; changes; coding; components; content; cytomegalovirus; cytoplasm; defence; degradation; dna; domain; early; et al; everett; example; functions; hdaxx; herpes; host; human; ifn; important; induced; infected; infection; influenza; interaction; leukaemia; localization; machinery; maul; nbs; nd10; nuclear; nucleolar; nucleolin; nucleolus; nucleus; orf3; pml; pore; pre; processing; promyelocytic; proteins; recent; replication; response; ribosome; rna; role; rrna; simplex; sp100; structures; studies; subnuclear; transcription; type; viral; virus; viruses cache: cord-338812-q24jycgk.txt plain text: cord-338812-q24jycgk.txt item: #587 of 647 id: cord-338942-q4neat3x author: Zhang, Haoqing title: LAMP-on-a-chip: Revising microfluidic platforms for loop-mediated DNA amplification date: 2019-01-31 words: 5759 flesch: 38 summary: A modified visual loop-mediated isothermal amplification method for diagnosis and differentiation of main pathogens from Mycobacterium tuberculosis complex Colorimetric LAMP microfluidic chip for detecting three allergens: peanut, sesame and soybean Development of mitochondrial loop-mediated isothermal amplification for detection of the small liver fluke Opisthorchis viverrini (Opisthorchiidae; Trematoda Rapid detection of food-borne Listeria monocytogenes by real-time quantitative loop-mediated isothermal amplification Real time loop-mediated isothermal amplification using a portable fluorescence scanner for rapid and simple detection of Vibrio parahaemolyticus A CCD-based fluorescence imaging system for real-time loopmediated isothermal amplification-based rapid and sensitive detection of waterborne pathogens on microchips Microfluidic electrochemical assay for rapid detection and quantification of Escherichia coli Detection of roundup ready soybean by loop-mediated isothermal amplification combined with a lateral-flow dipstick Evaluation of reverse transcription loopmediated isothermal amplification in conjunction with ELISA-hybridization assay for molecular detection of Mycobacterium tuberculosis Loop-mediated isothermal amplification combined with colorimetric nanogold for detection of the microsporidian Enterocytozoon hepatopenaei in penaeid shrimp Ion sensing (EIS) real-time quantitative monitorization of isothermal DNA amplification A polycarbonate based surface plasmon resonance sensing cartridge for high sensitivity HBV loop-mediated isothermal amplification GMO detection using a bioluminescent real time reporter (BART) of loop mediated isothermal amplification (LAMP) suitable for field use On-chip LAMP-BART reaction for viral DNA real-time bioluminescence detection A novel HBV genotypes detecting system combined with microfluidic chip, loop-mediated isothermal amplification and GMR sensors Loop-mediated isothermal amplification (LAMP): recent progress in research and development A device for point-ofcare genetic testing using a smartphone Rapid isolation and detection of aquaculture pathogens in an integrated microfluidic system using loop-mediated isothermal amplification A microfluidic lab-on-a-disc integrated loop mediated isothermal amplification for foodborne pathogen detection Development of a high-throughput centrifugal loop-mediated isothermal amplification microdevice for multiplex foodborne pathogenic bacteria detection Identifying multiple bacterial pathogens by loop-mediated isothermal amplification on a rotate & react slipchip Development and evaluation of a loop-mediated isothermal amplification assay for the rapid detection of Staphylococcus aureus in food Development and application of a rapid and simple loopmediated isothermal amplification method for food-borne Salmonella detection Handheld device for real-time, quantitative, LAMP-based detection of Salmonella enterica using assimilating probes Loop-mediated isothermal amplification for Salmonella detection in food and feed: current applications and future directions A facile cascade signal amplification strategy using DNAzyme loop-mediated isothermal amplification for the ultrasensitive colorimetric detection of Salmonella Development and application of a loop-mediated isothermal amplification method on rapid detection Escherichia coli O157 strains from food samples Centrifugal loop-mediated isothermal amplification microdevice for rapid, multiplex and colorimetric foodborne pathogen detection Integrated glass microdevice for nucleic acid purification, loop-mediated isothermal amplification, and online detection Monte Carlo modelingbased digital loop-mediated isothermal amplification on a spiral chip for absolute quantification of nucleic acids This work was supported by the Foreign Experts Program of P.R. China (W099109). Isothermal amplification techniques require simple hardware and they are rather insensitive to polymerase inhibitors, making the amplification process robust. keywords: acid; amplification; answer; applications; assay; care; centrifugal; chain; chamber; chip; clinical; colorimetric; control; cost; cycling; detection; development; device; diagnostics; different; digital; diseases; dna; droplet; external; extraction; fig; flow; fluorescence; food; fta; gene; hardware; heating; high; infectious; integrated; integration; isothermal; isothermal amplification; lab; lamp; lateral; loaded; lod; loop; magnetic; methods; microfluidic; min; molecular; monitoring; multiplex; nucleic; operating; optical; paper; pathogens; pcr; pdms; poc; point; polymerase; preparation; process; processing; range; rapid; reaction; real; results; rna; sample; sensitive; single; specific; specificity; steps; strip; suitable; system; target; technique; technology; temperature; time; virus; volume; z65 cache: cord-338942-q4neat3x.txt plain text: cord-338942-q4neat3x.txt item: #588 of 647 id: cord-339152-wfakzb6w author: Trovato, Maria title: Viral Emerging Diseases: Challenges in Developing Vaccination Strategies date: 2020-09-03 words: 12011 flesch: 23 summary: United States patent US 20120141520 Advanced oxidation technology for the development of a next-generation inactivated West Nile virus vaccine Replication-defective West Nile virus with NS1 deletion as a new vaccine platform for flavivirus Zika virus associated with microcephaly A single-dose live-attenuated vaccine prevents Zika virus pregnancy transmission and testis damage A live-attenuated Zika virus vaccine candidate induces sterilizing immunity in mouse models A vaccine based on a modified vaccinia virus Ankara vector expressing Zika virus structural proteins controls Zika virus replication in mice Construction and evaluation of novel rhesus monkey adenovirus vaccine vectors Protective efficacy of multiple vaccine platforms against Zika virus challenge in rhesus monkeys Preventative vaccines for Zika virus outbreak: preliminary evaluation Recent advances in Zika virus vaccines Safety, tolerability, and immunogenicity of two Zika virus DNA vaccine candidates in healthy adults: randomised, open-label, phase 1 clinical trials Comparison of the virulent Asibi strain of yellow fever virus with the 17D vaccine strain derived from it Live attenuated yellow fever 17D vaccine: a legacy vaccine still controlling outbreaks in modern day Development of Sanofi Pasteur tetravalent dengue vaccine From research to phase III: preclinical, industrial and clinical development of the Sanofi Pasteur tetravalent dengue vaccine Pathogenesis of dengue: challenges to molecular biology Antibody-dependent enhancement of severe dengue disease in humans Dengue: status of current and under-development vaccines Immunogenicity, safety, and tolerability of the measles-vectored chikungunya virus vaccine MV-CHIK: a double-blind, randomised, placebo-controlled and active-controlled phase 2 trial Recent progress in vaccine development against Chikungunya virus Effective vaccine for lassa fever Vaccine platforms for the prevention of Lassa fever Vaccines inducing immunity to Lassa virus glycoprotein and nucleoprotein protect macaques after a single shot Isolation of marburg-like virus from a case of haemorrhagic fever in Zaire Vaccines against Ebola virus A review of Phase I trials of Ebola virus vaccines: what can we learn from the race to develop novel vaccines Viruslike particle vaccination protects nonhuman primates from lethal aerosol exposure with marburgvirus (VLP Vaccination Protects Macaques against Aerosol Challenges) Studies for the development of a safer vaccine are still ongoing, and candidate vaccines include a tetravalent Dengue purified inactivated virus vaccine, currently in phase I/II clinical trial (NCT02421367), and two live attenuated tetravalent chimeric TDV (DENVax), and keywords: able; activation; acute; ade; animal; antibodies; antibody; antigen; attenuated; available; candidate; case; cell; cellular; challenge; chikungunya; chimeric; clinical; control; conventional; coronavirus; cov-2; covid-19; cross; delivery; dengue; denv; dependent; design; development; different; diseases; dna; domain; dose; east; ebola; ebov; effective; effects; efficacy; emergence; encoding; endemic; enhanced; enhancement; entry; envelope; epidemic; epidemiology; epitopes; expression; fever; figure; gene; genetic; genome; global; h1n1; health; heterologous; high; host; human; immune; immunity; immunogenicity; inactivated; increase; individuals; infected; infection; infectious diseases; influenza; innate; isolated; issues; lassa; like; live; long; major; manufacturing; marburg; mers; mice; middle; models; molecular; months; mortality; mrna; multiple; nabs; neutralizing; new; nile; nile virus; non; novel; number; outbreak; pandemic; pathogens; patients; pdna; people; phase; platform; potential; preclinical; primates; prm; production; protective; protein; public; reactivity; receptor; recombinant; replication; research; respiratory; responses; rhesus; risk; safety; sars; severe; single; specific; spike; spread; strain; strategies; structural; studies; study; subunit; swine; syndrome; target; threats; time; transmission; trials; vaccination; vaccine; vector; viral; virus; virus vaccine; viruses; vivo; vlp; west; wnv; zika; zika virus; zikv cache: cord-339152-wfakzb6w.txt plain text: cord-339152-wfakzb6w.txt item: #589 of 647 id: cord-339369-9z30nksl author: Chiappetta, Catarina Marcon title: Molecular Detection of Circovirus and Adenovirus in Feces of Fur Seals (Arctocephalus spp.) date: 2016-11-01 words: 3821 flesch: 49 summary: Morbilliviruses, singlestranded RNA viruses belonging to the Paramyxoviridae family, have caused several major epizootics with high mortality in many pinniped species since 1987 (Kennedy-Stoskopf 2001) . These fragments branched separately and exhibited a low degree of similarity in their deduced amino acid sequence when compared to the others, being only distantly related to rep encoding uncultured marine virus sequences. keywords: acid; adenovirus; american; amino; animals; associated; brazil; buffer; circoviridae; circovirus; conditions; coronavirus; cycles; cycling; dna; dntp; et al; family; fecal; feces; final; fragments; fur; gene; genus; human; invitrogen; marine; mgcl; min; morbillivirus; new; novel; pcr; phylogenetic; pinnipeds; polymerase; positive; primer; reaction; rep; rna; samples; seals; sequences; south; species; study; taq; vesivirus; viral; viruses cache: cord-339369-9z30nksl.txt plain text: cord-339369-9z30nksl.txt item: #590 of 647 id: cord-339419-b6tr2zyx author: Lee, Thomas Ming-Hung title: DNA-based bioanalytical microsystems for handheld device applications date: 2006-01-18 words: 5432 flesch: 48 summary: After many years of tremendous research efforts in the area of lab-on-a-chip for DNA analysis, almost all individual analytical processes of sample preparation, target amplification, and target detection have reached a mature stage. For instance, Northrup et al. developed DNA amplification chips keywords: acid; agent; amplification; analysis; approach; assay; bead; bioanalytical; blood; capture; cell; chamber; chip; conventional; current; detection; different; dna; dsdna; electrical; electrochemical; electrode; electron; event; example; ferrocene; fig; format; glass; gold; guanine; high; hybridization; immobilization; integrated; isolation; label; limit; low; lysis; methods; microchamber; microchip; microfabricated; miniaturization; mixture; molecular; nanoparticle; nat; nucleic; number; passivation; pcr; polycarbonate; polymerase; probe; processing; product; properties; purification; reaction; redox; sample; schemes; sensors; separation; sequence; signal; silicon; silver; single; site; specific; state; step; surface; systems; target; technologies; temperature; testing; thermal; transfer; types; use; work; workers cache: cord-339419-b6tr2zyx.txt plain text: cord-339419-b6tr2zyx.txt item: #591 of 647 id: cord-339522-jm2xpn1w author: Sharma, Nidhi title: Recombinase‐Based Isothermal Amplification of Nucleic Acids with Self‐Avoiding Molecular Recognition Systems (SAMRS) date: 2014-09-10 words: 3876 flesch: 48 summary: To further understand this improved performance of SAMRS primers for RPA amplification reactions, we tested other targets to assess its reproducibility. These primers were built with either entirely standard nucleotides (STD primers, for comparison) or with SAMRS nucleotides placed near their 3'-ends (SAMRS primers, Table 1 ). keywords: amplification; analysis; assay; base; components; contrast; copies; cycle; dna; duplex; enzymes; figure; isothermal; lane; left; method; molecular; natural; noise; nucleic; nucleotides; pairs; pcr; polymerase; primers; products; reactions; real; recombinase; recombination; reverse; right; rna; rpa; samrs; sequences; signal; standard; std; system; target; template; time; viral; xna cache: cord-339522-jm2xpn1w.txt plain text: cord-339522-jm2xpn1w.txt item: #592 of 647 id: cord-339915-8j04y50s author: Deng, Wei title: DV-Curve Representation of Protein Sequences and Its Application date: 2014-05-08 words: 2960 flesch: 45 summary: A novel 2-D graphical representation of DNA sequences of low degeneracy On the uniqueness of quantitative DNA difference descriptions in 2D graphical representation models Analysis of similarity/dissimilarity of DNA sequences based on novel 2-D graphical representation A class of new 2-D graphical represent ation of DNA sequences and their application Graphical representations of DNA as 2-D map H-L curve: a novel 2D graphical representation for DNA sequences DV-Curve: a novel intuitive tool for visualizing and analyzing DNA sequences Analysis of similarity/dissimilarity of DNA sequences based on chaos game representation A 3D graphical representation of DNA sequences and its application A group of 3D graphical representation of DNA sequences based on dual nucleotides New graphical representation of a DNA sequence based on the ordered dinucleotides and its application to sequence analysis Analysis of similarity/dissimilarity of DNA sequences based on a condensed curve representation Novel 4D numerical representation of DNA sequences On the similarity of DNA primary sequences based on 5-D representation Analysis of similarity/dissimilarity of DNA sequences based on nonoverlapping triplets of nucleotide bases Unique graphical representation of protein sequences based on nucleotide triplet codons A 2-D graphical representation of protein sequences based on nucleotide triplet codons Protein-based phylogenetic analysis by using hydropathy profile of amino acids 2-D Graphical representation of proteins based on physico-chemical properties of amino acids 2-D graphical representation of protein sequences and its application to coronavirus phylogeny New 3-D graphical representation of protein sequences and its application A 2D graphical representation of protein sequence and its numerical characterization Similarity/dissimilarity studies of protein sequences based on a new 2d graphical representation New technique: protein sequence analysis based on hydropathy profile of amino acids 3D graphical representation of protein sequences and their statistical characterization Similarity/dissimilarity analysis of protein sequences using the spatial median as a descriptor Modeling study on the validity of a possibly simplified representation of proteins On 3-D graphical representation of DNA primary sequences and their numerical characterization Novel 2-D graphical representation of DNA sequences and their numerical characterization Compact 2-D graphical representation of DNA Application of 2-D graphical representation of DNA sequence On the complexity of multiple sequence alignment A probabilistic measure for alignment-free sequence comparison An information-based sequence distance and its application to whole mitochondrial genome phylogeny A new sequence distance measure for phylogenetic tree construction A weighted least-squares approach for inferring phylogenies from incomplete distance matrices A novel coronavirus associated with severe acute respiratory syndrome The genome sequence of the sars-associated coronavirus The Principles and Practice of Numerical Classification Characterization of a novel coronavirus associated with severe acute respiratory syndrome Severe acute respiratorysyndrome coronavirus-like virus in Chinese horseshoe bats The authors thank to all the anonymous reviewers for their valuable suggestions and support. Comput Math Methods Med DOI: 10.1155/2014/203871 sha: doc_id: 339915 cord_uid: 8j04y50s Based on the detailed hydrophobic-hydrophilic(HP) model of amino acids, we propose dual-vector curve (DV-curve) representation of protein sequences, which uses two vectors to represent one alphabet of protein sequences. keywords: acids; alignment; amino; analysis; application; characterization; coronavirus; curve; detailed; different; dissimilarity; dna; graphical; graphical representation; group; letter; long; matrix; methods; model; new; novel; numerical; phylogenetic; primary; protein; protein sequences; representation; seal; sequences; similarity; spike; tree cache: cord-339915-8j04y50s.txt plain text: cord-339915-8j04y50s.txt item: #593 of 647 id: cord-340503-zwdewiu1 author: Mokhtarzadeh, Ahad title: Nanomaterial-based biosensors for detection of pathogenic virus date: 2017-10-13 words: 7717 flesch: 35 summary: Table 1 offers a comparison of advantages and limitations of some of the most commonly used methods for virus detection. Nowadays, nanotechnology is focused on the elimination of disadvantages of existing methods for virus detection to minimize costs and time consuming. keywords: activity; advantages; alumina; antibodies; applications; area; assay; aunps; base; biological; biosensing; biosensor; capture; carbon; copper; cost; detection; diagnosis; different; diseases; dna; dots; easy; effect; effective; electrochemical; electrode; energy; et al; field; fig; fluorescence; free; gene; gold; good; graphene; great; h5n1; hbv; hepatitis; high; hiv; human; hybridization; imaging; immobilization; immobilized; immunosensor; influenza; label; light; limit; linear; lod; magnetic; method; modified; molecules; nanocomposite; nanomaterials; nanoparticles; nanoporous; nanotechnology; nanotubes; new; novel; oligonucleotide; optical; order; oxide; pathogenic; platform; probe; properties; protein; qds; quantum; range; rapid; research; resonance; samples; selective; selectivity; sensitive; sensitivity; sensors; serum; signal; silica; single; size; small; specific; specificity; structure; surface; system; target; time; treatment; unique; viral; virus; virus detection; viruses; way; wide; zno cache: cord-340503-zwdewiu1.txt plain text: cord-340503-zwdewiu1.txt item: #594 of 647 id: cord-340781-z348xbn0 author: Namvar, Ali title: In silico/In vivo analysis of high-risk papillomavirus L1 and L2 conserved sequences for development of cross-subtype prophylactic vaccine date: 2019-10-23 words: 6672 flesch: 48 summary: The red blood cell-depleted pooled splenocytes (2 × 10 6 cells/ml) were cultured in 48-well plates for 72 h in the presence of 5 μg/mL of L1 + L2 peptides, RPMI 5% as negative control and 5 μg/mL of concanavalin A (ConA) as positive control in complete RPMI culture medium. The level of Granzyme B in group receiving L1 DNA construct was similar to that in group receiving L2 DNA construct (p > 0.05). keywords: adjuvant; affinity; algorithms; allergenicity; analysis; antibody; approach; assay; binding; bioinformatics; candidates; cell; conservancy; conserved; constructs; control; coverage; cross; ctl; data; delivery; design; development; different; dna; dna constructs; docking; epitope; expression; fig; free; genes; gfp; granzyme; groups; growth; hek-293; high; higher; highest; hla; hpv; hpv16; human; identification; immune; l2 dna; methods; mhc; mice; papillomavirus; pcdna; pegfp; peptide; population; potential; prediction; prophylactic; protection; protein; rate; recombinant; regions; responses; risk; scores; secretion; sequences; server; silico; studies; study; system; table; tools; tumor; type; type16; use; vaccine; vector; vivo; world; www.nature.com/scientificreports/ cache: cord-340781-z348xbn0.txt plain text: cord-340781-z348xbn0.txt item: #595 of 647 id: cord-341029-49360l2a author: Nasir, Arshan title: A phylogenomic data-driven exploration of viral origins and evolution date: 2015-09-25 words: 14420 flesch: 43 summary: [as previously argued (40) (41) (42) ], albeit cautiously for RNA viruses with small proteome complements (read below). Surprisingly, FSFs shared with RNA viruses were also enriched in archaeal proteomes. keywords: abe; abev; abundance; additional; analysis; ancestor; ancient; archaea; archaeoviruses; bacteria; bacterioviruses; capsid; cells; cellular; characters; class; classification; coat; common; conserved; core; data; deep; diagram; different; discovery; distance; distribution; diversity; dna; domains; dsdna; early; eukarya; eukaryotes; eukaryoviruses; evidence; evolution; evolutionary; evopco; example; fact; families; fig; folds; fsfs; functions; genes; genomes; genomic; giant; groups; hgt; history; host; hypothesis; infection; information; large; life; like; likely; lineages; loss; major; makeup; membrane; minus; modern; modern cells; molecular; nature; number; order; organisms; origin; patterns; phylogenetic; possible; present; prokaryotic; proteins; proteomes; proto; reduction; reductive; related; relationships; relative; replication; replicon; result; retrotranscribing; rna; rna viruses; sampled; scenarios; scop; segmented; sequence; set; shared; significant; similar; single; space; species; specific; ssrna; structure; study; subgroups; supergroup; superkingdoms; support; table; taxa; threads; time; tod; total; transfer; tree; turn; type; unique; universal; values; venn; version; viral; viral fsfs; viral proteomes; virion; virocells; viruses; vsfs; widespread; world cache: cord-341029-49360l2a.txt plain text: cord-341029-49360l2a.txt item: #596 of 647 id: cord-341062-k3vjqumq author: Pruitt, Hawley C. title: Roles of N‐Myc and STAT interactor in cancer: From initiation to dissemination date: 2016-03-11 words: 6653 flesch: 42 summary: NMI expression in NMI deficient cell lines elevated basal levels of autophagy in breast cancer cell lines, as indicated by autophagic vacuole formation. In humans, NMI protein expression has been detected in all fetal tissues except the brain, and its expression is highest in the adult spleen, liver and kidneys. keywords: activation; activity; addition; apoptin; apoptosis; arf; arrest; atm; autophagy; binding; brca1; breast; breast cancer; cancer; catenin; cell; cellular; complex; critical; cycle; damage; death; degradation; dependent; development; disease; dna; domain; downstream; early; emt; epithelial; essential; expression; factors; family; function; gene; growth; human; ifp35; immune; increased; influence; inhibits; initiation; interaction; kinase; levels; lines; loss; master; mechanism; mesenchymal; metastasis; mrna; mtor; multiple; myc; nmi; non; novel; nuclear; nucleus; p53; pathway; potential; progression; promoter; protein; regulation; regulators; repair; response; role; signaling; snps; sox10; specific; stage; stat1; stem; studies; study; target; tip60; transcription; transition; tumor; viral; wnt cache: cord-341062-k3vjqumq.txt plain text: cord-341062-k3vjqumq.txt item: #597 of 647 id: cord-341287-i1hyk962 author: Smith, Trevor R. F. title: Immunogenicity of a DNA vaccine candidate for COVID-19 date: 2020-05-20 words: 7833 flesch: 47 summary: Although vaccine-induced immunopathology has been raised as a potential concern for SARS and MERS vaccine candidates, and possibly for SARS-CoV-2 vaccines, these concerns are likely vaccine-platform dependent and, to-date, no evidence of immune pathogenesis has been reported for MERS DNA vaccines in mice or non-human primate models 10 or SARS DNA vaccines in mice 8 . Based upon our previous experience developing a vaccine against MERS coronavirus, and previous published studies of SARS vaccines, SARS-CoV-2 S protein was chosen as the antigen target. keywords: ace2; actin; analysis; animals; anti; antibodies; antibody; antigens; assay; associated; available; balb; binding; buffer; candidate; cat; cells; cellular; challenge; clinical; constructs; control; coronavirus; cov-2; covid-19; data; days; delivery; design; development; diluted; dilution; disease; dna; domain; east; elisa; expression; fig; final; global; guinea; health; host; human; humoral; igg; immune; immunization; immunized; immunogenicity; immunopathology; inactivated; infection; inhibition; ino-4800; intradermal; lungs; mers; mice; middle; min; models; mouse; multiple; neutralization; neutralizing; pbs; pcr; pgx9501; pigs; plasmid; plates; potential; protective; protein; pseudovirus; pvax; rbd; receptor; recombinant; respiratory; responses; reverse; rlu; rna; samples; sars; sequence; sera; serum; severe; sigma; spike; spike protein; studies; study; summary; syndrome; synthetic; table; target; testing; titers; transfection; tween; vaccine cache: cord-341287-i1hyk962.txt plain text: cord-341287-i1hyk962.txt item: #598 of 647 id: cord-341521-dntkdwkj author: Luo, Yi-Ran title: Porcine Epidemic Diarrhoea Virus Induces Cell-cycle Arrest through the DNA Damage-signalling Pathway date: 2020-03-24 words: 4092 flesch: 45 summary: We demonstrate that the inhibitors of Chk.2 and H2A.X can reduce the G1/G0phase arrest of Vero cells infected by PEDV, indicating that the effect of PEDV infection on Vero cell cycles is diminished with a blockade of the DNA damagesignalling pathway. Respiratory syncytial virus matrix protein induces lung epithelial cell cycle arrest through a p53 dependent pathway Expression of protein N of porcine transmissible gastroenteritis in swine intestinal epithelial cells and effect and influence on cell cycle Murine coronavirus nonstructural protein p28 arrests cell cycle in G0/G1 phase Comparative genomic analysis of classical and variant virulent parental/attenuated strains of porcine epidemic diarrhea virus Transmissible gastroenteritis virus infection induces cell cycle arrest at S and G2/M phases via p53-dependent pathway Preparation and characterization of monoclonal antibodies against the N protein of porcine epidemic diarrhoea virus SHpd/2012 strain Cell cycle perturbations induced by infection with the coronavirus infectious bronchitis virus and their effect on virus replication Phylogenetic analysis of porcine epidemic diarrhea virus field strains prevailing recently in China Synchronization of cell populations in G1/S and G2/M phases of the cell cycle Development and application of a TaqMan Real-Time RT-PCR assay for the detection of a porcine epidemic diarrhea virus strain in China Hepatitis C virus NS3/4A protein interacts with ATM, impairs DNA repair and enhances sensitivity to ionizing radiation Genome sequencing and analysis of a novel recombinant porcine epidemic diarrhea virus strain from Henan, China Phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) field strains in central China based on the ORF3 gene and the main neutralization epitopes Molecular characterization and phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) field strains in south China keywords: activation; analysis; arrest; atm; cell cycle; cells; china; chk.2; control; cycle; cycle arrest; cyclin; cytometry; damage; diarrhea; dmso; dna; dna damage; effect; epidemic; expression; fig; flow; group; infected; infection; inhibitors; min; mock; pathway; pbs; pedv; pedv infection; phase; phosphorylation; porcine; proliferation; proportion; protein; sample; strain; usa; vero; vero cells; virus cache: cord-341521-dntkdwkj.txt plain text: cord-341521-dntkdwkj.txt item: #599 of 647 id: cord-341634-mpk8mmp8 author: Sadana, Ajit title: Detection of Analytes on Arrays/Microarrays/DNA Chips date: 2010-09-02 words: 11119 flesch: 57 summary: This chapter analyzes the detection of different analytes on microarrays/arrays/DNA chips and analyzes the kinetics of binding and dissociation (hybridization) in such biosensors through fractal analysis. Fractal analyses are also used to discuss the binding and dissociation during PNA–DNA hybridization, PNA–DNA hybridization, and binding (hybridization) of different concentrations of ss DNA in solution preincubated with prehybridized 22-nt FQ duplex to a “broken beacon” immobilized on a sensor surface. keywords: adequate; availability; available; binding; biosensor; case; chip; coefficients; complementary; concentration; cyp2c9; d f1; d f2; d fd; data; degree; dependence; detection; different; dimensions; dissociation; dissociation kinetics; dissociation rate; dna; dual; electrochemical; equal; et al; factor; figure; fit; fractal analysis; fractal dimension; heterogeneity; hybridization; immobilized; increase; k d; kinetics; lead; odn; order; pna; points; probe; range; rate coefficient; reliable; sensor; single; solution; strand; surface; table; target; target dna; value cache: cord-341634-mpk8mmp8.txt plain text: cord-341634-mpk8mmp8.txt item: #600 of 647 id: cord-342015-bz2vab6e author: Ouadfeul, Sid-Ali title: Multifractal Analysis of SARS-CoV-2 Coronavirus genomes using the wavelet transform date: 2020-08-16 words: 1387 flesch: 42 summary: Fractal character of nucleic acids distribution in DNA sequences has been widely studied by the scientific community; many papers have been published in literature. Arneodo et al (1996) published a paper deals with the study of the Long-Range Correlation (LRC) character of DNA sequences using the 1D continuous wavelet transform method. keywords: analysis; character; coding; correlations; dna; exponent; fractal; hurst; long; lrc; method; paper; range; rna; sars; sequences; transform; walk; wavelet cache: cord-342015-bz2vab6e.txt plain text: cord-342015-bz2vab6e.txt item: #601 of 647 id: cord-342629-mzi0krja author: Wu, Q. title: An Activated GOPS‐poly‐L‐Lysine‐ Coated Glass Surface for the Immobilization of 60mer Oligonucleotides date: 2005-11-16 words: 2090 flesch: 42 summary: In this paper, the process of slide surface chemistry based on conventional protocols for poly-L-lysine coating was improved [6, 13] in order to immobilize 60mer oligonucleotides by deposition technology. The probes were printed onto an activated GOPS-PLL surface and PLL surface, respectively, by a Cartesian Pixsys 5500 robot (Cartesians, USA). keywords: 60mer; activated; analysis; covalently; cycles; detection; dna; efficiency; fig; fluorescence; glass; gops; hybridization; immobilization; intensity; lysine; method; microarrays; modified; oligonucleotide; pll; poly; prepared; probe; results; sars; slides; spots; stripping; surface; usa cache: cord-342629-mzi0krja.txt plain text: cord-342629-mzi0krja.txt item: #602 of 647 id: cord-342737-hhs3owvr author: Jula, Alma title: Primary and Secondary Human Bocavirus 1 Infections in a Family, Finland date: 2013-08-17 words: 1737 flesch: 49 summary: Human bocavirus-the first 5 years Association of human bocavirus 1 infection with respiratory disease in childhood follow-up study Human bocavirus infections in hospitalized children and adults Frequent and prolonged shedding of bocavirus in young children attending daycare Human bocavirus in children: mono-detection, high viral load and viraemia are associated with respiratory tract infection Real-time quantitative PCR detection of four human bocaviruses Seroepidemiology of human bocaviruses 1-4 Dating of human bocavirus infection with protein-denaturing IgG-avidity assays-secondary immune activations are ubiquitous in immunocompetent adults Human bocavirus in children with acute lymphoblastic leukemia Rhinovirus transmission within families with children: incidence of symptomatic and asymptomatic infections Clinical assessment and improved diagnosis of bocavirus-induced wheezing in children Human bocavirus as the cause of a life-threatening infection Life-threatening respiratory tract disease with human bocavirus-1 infection in a 4-year-old child HRV negative, tested by monoplex PCR only AdV, adenovirus; none, negative by multiplex PCR. Results obtained with unblocked enzyme immunoassay and confirmed with specific competition enzyme immunoassays Severe human bocavirus infection The wages of original antigenic sin keywords: avidity; bocavirus; brother; children; dna; family; hbov1; high; hrv; human; igg; igm; index; infection; members; months; mother; negative; npa; patient; pcr; pneumonia; positive; respiratory; samples; serum; severe; twin; viruses cache: cord-342737-hhs3owvr.txt plain text: cord-342737-hhs3owvr.txt item: #603 of 647 id: cord-342782-xty16m8w author: Marrugal-Lorenzo, José A. title: Repositioning salicylanilide anthelmintic drugs to treat adenovirus infections date: 2019-01-09 words: 5118 flesch: 38 summary: Anthelmintic drugs were tested in a dose-response assay using an MOI of 0.06 vp/cell and drug concentrations ranging from 10 to 0.1 μM in a plaque assay. Anthelmintic drugs were added at the indicated time points (−60, 0, 10, 60, 120 and 360 min) before or during this incubation. keywords: a549; action; activity; adenovirus; anthelmintic; anthelmintic drugs; anti; antiviral; assay; cells; clinical; combination; concentrations; control; data; development; dmso; dna; dose; drugs; e1a; effect; endosome; evaluation; fig; gene; genomes; hadv; hadv dna; hcmv; higher; human; incubation; infection; inhibition; inhibitory; mechanism; new; nic; niclosamide; nuclear; nucleus; number; oxy; particles; pcr; potential; presence; protein; quantification; quantitative; raf; real; replication; results; salicylanilide; samples; serum; significant; single; step; table; time; transcription; type; values; wild cache: cord-342782-xty16m8w.txt plain text: cord-342782-xty16m8w.txt item: #604 of 647 id: cord-342819-p8wp6yvo author: De Groot, Anne S title: Making vaccines “on demand”: A potential solution for emerging pathogens and biodefense? date: 2013-09-01 words: 5668 flesch: 32 summary: An Informatics Perspective of the Immunone Immunoinformatics: The next step in vaccine design From immunome to vaccine: epitope mapping and vaccine design tools How the SARS vaccine effort can learn from HIV-speeding towards the future, learning from the past Immunoinformatic comparison of T-cell epitopes contained in novel swine-origin influenza A (H1N1) virus with epitopes in 2008-2009 conventional influenza vaccine DNA-prime, peptideboost multi-T-cell epitope poxvirus vaccine, induces protective immunity against vaccinia infection by T cell response alone Rapid determination of HLA B*07 ligands from the West Nile virus NY99 genome Analysis of ChimeriVax Japanese Encephalitis Virus envelope for T-cell epitopes and comparison to circulating strain sequences HelicoVax: epitope-based therapeutic Helicobacter pylori vaccination in a mouse model Low immunogenicity predicted for emerging avian-origin H7N9: Implication for influenza vaccine design A consensus epitope prediction approach identifies the breadth of murine T(CD8+)-cell responses to vaccinia virus Putting immunoinformatics to the test Immunization with HIV-1 Gag protein conjugated to a TLR7/8 agonist results in the generation of HIV-1 Gag-specific Th1 and CD8+ T cell responses Nine major HLA class I supertypes account for the vast preponderance of HLA-A and -B polymorphism Enhanced priming of multispecific, murine CD8+ T cell responses by DNA vaccines expressing stress protein-binding polytope peptides Technologies for enhanced efficacy of DNA vaccines A subdominant CD8(+) cytotoxic T lymphocyte (CTL) epitope from the Plasmodium yoelii circumsporozoite protein induces CTLs that eliminate infected hepatocytes from culture CTL epitopes identified with a defective recombinant adenovirus expressing measles virus nucleoprotein and evaluation of their protective capacity in mice Immunization with a LEAPS heteroconjugate containing a CTL epitope and a peptide from beta-2-microglobulin elicits a protective and DTH response to herpes simplex virus type 1 Recombinant Sindbis viruses expressing a cytotoxic T-lymphocyte epitope of a malaria parasite or of influenza virus elicit protection against the corresponding pathogen in mice Vaccine-induced cytotoxic T lymphocytes protect against retroviral challenge West Nile virus recombinant DNA vaccine protects mouse and horse from virus challenge and expresses in vitro a noninfectious recombinant antigen that can be used in enzyme-linked immunosorbent assays Immunoinformatic comparison of T-cell epitopes contained in novel swine-origin influenza A (H1N1) virus with epitopes in 2008-2009 conventional influenza vaccine Pre-existing immunity against swine-origin H1N1 influenza viruses in the general human population Coupling sensitive in vitro and in silico techniques to assess crossreactive CD4(+) T cells against the swine-origin H1N1 influenza virus Low immunogenicity predicted for emerging avian-origin H7N9: Implication for influenza vaccine design T-cell-inducing vaccines -what's the future Structure of the Lassa virus nucleoprotein reveals a dsRNA-specific 3' to 5' exonuclease activity essential for immune suppression Vaccines against Lyme disease: What happened and what lessons can we learn? T cell vaccines for microbial infections A dominant CD4(+) T-cell response to Helicobacter pylori reduces risk for gastric disease in humans Identification of Class I HLA T Cell Control Epitopes for West Nile Virus Development of Burkholderia mallei and pseudomallei vaccines Signatures of T cells as correlates of immunity to Francisella tularensis DNA-prime, peptideboost multi-T-cell epitope poxvirus vaccine, induces protective immunity against vaccinia infection by T cell response alone Epitope-based therapeutic H. pylori vaccination in a mouse model of gastric cancer The two-faced T cell epitope: T cell epitope vaccine responses may be enhanced through genetic immunization. keywords: approach; approval; authorization; avian; balb; biodefense; cancer; cell; challenge; class; clinical; correlates; current; cytotoxic; delivery; design; development; different; disease; dna; effective; efficacy; emergency; epitopes; example; fastvax; fda; formulation; genome; h1n1; h7n9; health; hla; human; immune; immunity; immunogenicity; immunoinformatics; important; infectious; influenza; initial; manufacturing; methods; mice; national; need; new; novel; number; origin; pandemic; pathogens; phase; plasmid; possible; potential; preparedness; process; production; protective; protein; provide; rapid; recombinant; regulatory; release; response; safety; scale; sequence; significant; silico; site; step; studies; system; t cell; testing; time; tools; trials; use; vaccination; vaccine; virus cache: cord-342819-p8wp6yvo.txt plain text: cord-342819-p8wp6yvo.txt item: #605 of 647 id: cord-343029-85ga6r7d author: Haghpanah, Abdolreza title: Potential mechanisms of SARS‐CoV‐2 action on male gonadal function and fertility: Current status and future prospects date: 2020-10-27 words: 4387 flesch: 29 summary: A case study Clinical aspects of sperm DNA fragmentation detection and male infertility ACE2 expression in kidney and testis may cause kidney and testis damage after 2019-nCoV infection Orchiepididymitis in a boy with COVID-19 Sperm DNA fragmentation in infertile men with genitourinary infection by Chlamydia trachomatis and Mycoplasma Angiotensin II type 2 receptor is expressed in human sperm cells and is involved in sperm motility Return of the coronavirus: 2019-nCoV Clinical characteristics of Coronavirus Disease 2019 in China Toll-like receptors and signalling in spermatogenesis and testicular responses to inflammation-A perspective Cytokines and the immune-testicular axis Once infected, changes in ACE2 signalling pathways followed by oxidative stress and inflammation could cause spermatogenesis failure, abnormal sperm motility, DNA fragmentation and male infertility. keywords: ace2; analysis; angiotensin; antibodies; asa; barrier; blood; cells; clinical; complications; converting; coronavirus; cov-2; covid-19; damage; dfi; different; dna; effects; enzyme; et al; expression; fragmentation; function; gonadal; high; human; immune; impairment; infection; infertility; inflammation; involvement; levels; leydig; male; motility; novel; orchitis; oxidative; patients; possible; potential; recent; receptor; reproductive; role; sars; semen; sertoli; sperm; spermatogenesis; spermatogonia; spermatozoa; stress; studies; study; subsequent; system; testicular; testis cache: cord-343029-85ga6r7d.txt plain text: cord-343029-85ga6r7d.txt item: #606 of 647 id: cord-343470-w215pzdc author: Tsai, Kevin title: Epigenetic and epitranscriptomic regulation of viral replication date: 2020-06-12 words: 9796 flesch: 31 summary: Whereas cellular gene expression may be either enhanced or inhibited by specific epigenetic modifications deposited on histones (in particular, histone H3), these epigenetic modifications can also repress viral gene expression, potentially functioning as a potent antiviral innate immune response in DNA virus-infected cells. By contrast, the various covalent modifications added to RNAs, termed epitranscriptomic modifications, can positively regulate mRNA translation and/or stability, and both DNA and RNA viruses have evolved to utilize epitranscriptomic modifications as a means to maximize viral gene expression. keywords: -methyladenosine; active; addition; alternative; antibody; antiviral; atrx; binding; bodies; case; cells; cellular; chaperone; chromatin; complex; components; contrast; cytidine; cytomegalovirus; daa; daxx; different; dna; drugs; early; effect; epigenetic; epitranscriptomic; expression; factors; fig; form; function; gene; gene expression; genome; genomic; group; h3.3; h3k9me3; hbv; herpesviruses; heterochromatic; high; histone; hiv-1; host; human; icp0; identification; ifi16; immune; infected; infection; inhibitors; innate; integration; interferon; latency; latent; level; loss; lytic; mapping; marks; means; mechanisms; methods; methylation; modifications; mrnas; nbs; nsun2; nuclear; order; pml; promotes; proteins; readers; regions; regulation; remains; replication; repressive; residues; response; retroviral; rna; role; sensor; seq; sequencing; silencing; simplex; sites; specific; study; suppression; transcribed; transcription; transcripts; translation; type; unintegrated; variant; viral; viral dna; viral gene; viral replication; virus; viruses; ythdf2 cache: cord-343470-w215pzdc.txt plain text: cord-343470-w215pzdc.txt item: #607 of 647 id: cord-343775-tcljwdlo author: Tiee, Madeline S. title: Ghosts of infections past: using archival samples to understand a century of monkeypox virus prevalence among host communities across space and time date: 2018-01-31 words: 5327 flesch: 41 summary: We found evidence of MPXV infections in host species as early as 1899, half a century earlier than the first recognized case of MPXV in 1958, supporting the suggestion that historic pox-like outbreaks in humans and non-human primates may have been caused by MPXV rather than smallpox as originally thought. We found evidence of MPXV infections in host species as early as 1899, half a century earlier than the first recognized case of MPXV in 1958, supporting the suggestion that historic pox-like outbreaks in humans and non-human primates may have been caused by MPXV rather than smallpox as originally thought. keywords: africa; amplicons; amplification; anerythrus; areas; basin; carruthersi; central; collection; communities; community; congicus; congo; cover; data; detection; differences; different; disease; distribution; dna; drc; effects; electronic; evidence; funisciurus; geographical; high; higher; historical; host; human; hunting; infection; lemniscatus; levels; material; methods; models; monkeypox; mpxv; multi; museum; non; outbreaks; past; pcr; period; populations; positive; potential; preparation; prevalence; primates; pyrropus; quality; range; rates; republic; results; samples; sampling; skin; smallpox; spatial; species; specimens; squirrels; studies; study; supplementary; temporal; time; transmission; viral; virus; years cache: cord-343775-tcljwdlo.txt plain text: cord-343775-tcljwdlo.txt item: #608 of 647 id: cord-344321-fjer281d author: Ning, Yi title: Aptamers used for biosensors and targeted therapy date: 2020-10-20 words: 16982 flesch: 45 summary: Inhibition of receptor binding and VEGF-induced vascular permeability through interactions requiring the exon 7-encoded domain Characterization and application of a novel RNA aptamer against the mouse prion protein In vitro selection of RNA molecules that inhibit the activity of ricin A-chain Methods developed for SELEX Analytical applications of aptamers Gold nanoparticle-based colorimetric detection of kanamycin using a DNA aptamer In vitro selection and characterization of RNA aptamers binding thyroxine hormone In vitro selection of DNA aptamers that bind Ltyrosinamide Automated selection of anti-protein aptamers Use of magnetic beads in selection and detection of biotoxin aptamers by electrochemiluminescence and enzymatic methods RNA aptamers specifically interact with the prion protein PrP Binding of herpes simplex virus-1 US11 to specific RNA sequences FluMag-SELEX as an advantageous method for DNA aptamer selection Isolation and characterization of enantioselective DNA aptamers for ibuprofen Selection of DNA aptamers against polychlorinated biphenyls as potential biorecognition elements for environmental analysis Rapid fluorescent detection of Escherichia coli K88 based on DNA aptamer library as direct and specific reporter combined with immuno-magnetic separation In addition to maintaining the affinity between the aptamer and its target, this method can reduce the number of rounds of aptamer selection from 15 in traditional SELEX to four in CE-SELEX [67] keywords: absence; acid; activity; addition; adenosine; adsorption; affinity; amplification; amplified; anti; anticancer; applications; approach; aptamer; aptamer selection; aptasensor; as1411; assay; atp; beacon; beads; binding; biosensors; breast; cancer; cancer cells; capillary; carbon; cells; clinical; cocaine; colorimetric; complex; complexes; conformation; conjugate; covalent; cytotoxicity; delivery; design; detection; determination; development; different; dna; dna aptamer; dnase; dots; double; dox; drug; drug delivery; dual; effects; efficiency; electrochemical; electrode; electrophoresis; et al; exonuclease; factor; fam; fig; fluorescence; formation; fragment; free; fret; gold; gp120; graphene; growth; hairpin; high; hiv-1; human; iii; illustration; imaging; increase; induced; inhibit; inhibition; interactions; internalization; label; library; ligands; linker; liposomes; loaded; loading; low; magnetic; membrane; method; molecular; molecules; nanomaterials; nanoparticles; non; novel; nps; nucleic; nucleolin; oligonucleotides; oxide; pcr; physical; platform; polymerase; potential; presence; probe; process; properties; prostate; protein; psma; ptx; qds; quantum; quencher; quenching; reaction; receptor; recognition; recycling; ref; release; representation; rna; rounds; salmonella; schematic; screening; selection; selective; selex; sensing; sensitive; sensitivity; separation; sequences; signal; silencing; single; sirna; small; specific; specificity; split; ssdna; strand; strategies; strategy; structure; surface; system; target; target cells; targeted; targeting; therapeutic; therapy; thrombin; time; toxicity; transfer; treatment; tumor; use; virus; vitro; vivo cache: cord-344321-fjer281d.txt plain text: cord-344321-fjer281d.txt item: #609 of 647 id: cord-344749-omzhhr0k author: Kaya, Sariye Irem title: Electrochemical virus detections with nanobiosensors date: 2020-02-14 words: 8406 flesch: 32 summary: key: cord-344749-omzhhr0k authors: Kaya, Sariye Irem; Karadurmus, Leyla; Ozcelikay, Goksu; Bakirhan, Nurgul K.; Ozkan, Sibel A. title: Electrochemical virus detections with nanobiosensors date: 2020-02-14 journal: Nanosensors for Smart Cities DOI: 10.1016/b978-0-12-819870-4.00017-7 sha: doc_id: 344749 cord_uid: omzhhr0k Infectious diseases are caused from pathogens, which need a reliable and fast diagnosis. Recent progress in electrochemical studies shows that biosensors are very simple, accurate, precise, and cheap at virus detection, for which researchers find great interest in this field. keywords: acids; addition; adenovirus; agent; amplification; analysis; analytical; antibodies; antibody; antigen; application; assay; available; avian; b virus; biological; biosensing; biosensor; cancer; carbon; causes; cells; children; clinical; common; core; cost; culture; dengue; detection; determination; development; device; diagnosis; different; disease; dna; dots; electrochemical; electrochemical detection; electrochemical immunosensor; electrode; electron; elisa; encephalitis; enzyme; epithelial; family; fcm; fever; free; gastroenteritis; gold; graphene; hbv; hemagglutination; hepatitis; high; hiv; humans; icosahedral; identification; ifa; immunoassay; immunoblotting; immunosensor; impedance; impedimetric; important; infections; influenza; influenza virus; interaction; label; magnetic; measles; methods; microscopy; mol; mosquitoes; mumps; nanobiosensors; nanocomposite; nanoparticles; nanoporous; nucleic; order; oxide; pathogens; pcr; plaque; platform; potential; protein; quantum; rabies; rapid; research; respiratory; response; results; rna; rotavirus; samples; sensing; sensitive; sensitivity; signal; significant; single; small; specific; step; studies; substrates; surface; symptoms; system; technique; tissue; tract; transmission; types; ultrasensitive; vaccines; viral; virions; virology; virus; virus detection; viruses; wide cache: cord-344749-omzhhr0k.txt plain text: cord-344749-omzhhr0k.txt item: #610 of 647 id: cord-345144-zvu22n8f author: Compagnone, D. title: Chapter 29 Rapid detection of organophosphates, Ochratoxin A, and Fusarium sp. in durum wheat via screen printed based electrochemical sensors date: 2007-12-31 words: 7910 flesch: 44 summary: Different strategies of electrochemical sensing have been used for DNA electrochemical detection: (1) direct DNA electrochemistry, (2) indirect DNA electrochemistry, (3) DNA-specific redox indicator detection, (4) DNA-mediated charge transport, and (5) nanoparticle-based electrochemistry amplification. To our knowledge there is no evidence in the literature of analysis of fungi via electrochemical detection of DNA or RNA. keywords: able; ache; active; activity; amplification; analysis; analytical; analyzed; application; aqueous; assay; binding; biosensor; blank; buffer; carbon; choline; complementary; concentration; control; culmorum; current; data; detection; determination; development; device; dichlorvos; different; direct; disposable; dna; durum; durum wheat; effect; electrochemical; electrochemistry; electrode; enzyme; european; experimental; extraction; fig; food; free; guanine; high; hybridization; hydrogen; immunosensors; indirect; inhibition; levels; lod; low; matrix; measurement; method; methyl; min; molecules; ota; oxidase; oxidation; pcr; pesticide; pirimiphos; probe; procedure; product; protocol; reaction; recovery; redox; region; results; samples; scheme; screen; sequence; signal; single; software; solution; solvent; spes; spiked; standard; strand; surface; system; target; time; use; wheat; wheat samples; work; working cache: cord-345144-zvu22n8f.txt plain text: cord-345144-zvu22n8f.txt item: #611 of 647 id: cord-345494-8lcdx719 author: Chao, Chien-Chung title: Development of Recombinase Polymerase Amplification Assays for Detection of Orientia tsutsugamushi or Rickettsia typhi date: 2015-07-10 words: 7093 flesch: 49 summary: On the contrary, the difference in detection limit was less pronounced for R. typhi detection as shown in Table 2 . typhi DNA detection in RPA-nfo could not detect R. conorii and R. rickettsii DNA with similar detection limit. keywords: amplicons; amplification; assay; blood; cassette; clinical; contamination; copies; copy; detection; detection limit; development; diagnosis; different; dna; evaluation; exo; fever; fig; flow; gene; genomic; human; infected; isothermal; kda; lamp; lateral; limit; loop; method; mice; minutes; mouse; negative; nfo; number; orientia; patient; polymerase; positive; primers; probe; qpcr; r. typhi; rapid; reaction; real; recombinase; results; reverse; rickettsia; rpa; samples; sensitive; sensitivity; sequence; similar; specificity; spiked; strains; strips; table; target; time; tsutsugamushi; typhi; typhi dna; typhus; virus; xcp cache: cord-345494-8lcdx719.txt plain text: cord-345494-8lcdx719.txt item: #612 of 647 id: cord-345552-h6fwi0qn author: Li, Q.-G. title: Hydropathic characteristics of adenovirus hexons date: 1997-07-01 words: 3524 flesch: 48 summary: Every hexon DNA sequence was translated to protein sequence by using program EditSeq-Translation. Here, we report the hydropathy analysis of 14 adenovirus hexon sequences predicted from a newly determined Ad7 hexon DNA sequence and thirteen published hexon sequences of Ad2, Ad3, Ad4, Ad5, Ad12, Ad16, Ad40, Ad41, Ad48, Bav3, Mav1, Fav1 and Fav10. keywords: acid; ad16; ad2; ad4; ad7; adenovirus; amino; amino acid; analysis; charge; codons; complete; content; data; different; dna; fig; genes; genome; hexon; homology; human; hydropathy; hydrophilicity; hydrophobic; hypervariable; major; method; nnc; nucleotide; phe; portion; position; program; protein; regions; second; sequence; serotypes; species; structure; subgenera; subgenus; surface; table; type; usage cache: cord-345552-h6fwi0qn.txt plain text: cord-345552-h6fwi0qn.txt item: #613 of 647 id: cord-345712-gmzue6lj author: Palazzo, Luca title: ADP‐ribosylation: new facets of an ancient modification date: 2017-04-26 words: 6656 flesch: 37 summary: Eight of them are uncharacterized DraG homologues and three are macrodomain proteins representing three different classes within the macrodomain superfamily ( Table 1) . and counting Structures and mechanisms of enzymes employed in the synthesis and degradation of PARP-dependent protein ADP-ribosylation Functional aspects of protein mono-ADP-ribosylation PARP16 is a tail-anchored endoplasmic reticulum protein required for the PERKand IRE1a-mediated unfolded protein response Tankyrase-1 polymerization of poly(ADP-ribose) is required for spindle structure and function Poly(ADP-ribose) regulates stress responses and microRNA activity in the cytoplasm PARP-1 inhibition increases mitochondrial metabolism through SIRT1 activation PARP-2 regulates SIRT1 expression and whole-body energy expenditure PARP-1 mechanisms for coupling DNA damage detection to poly(ADP-ribose) synthesis Expanding functions of intracellular resident mono-ADPribosylation in cell physiology ATM controls proper mitotic spindle structure Poly(ADP-ribosyl)ation in regulation of chromatin structure and the DNA damage response Biology of poly(ADP-ribose) polymerases: the factotums of cell maintenance The family of toxin-related ecto-ADPribosyltransferases in humans and the mouse NAD-induced T cell death: ADP-ribosylation of cell surface proteins by ART2 activates the cytolytic P2X7 purinoceptor Phylogenetic classification of prokaryotic and eukaryotic Sir2-like proteins NAD⁺ in aging, metabolism, and neurodegeneration The human sirtuin family: evolutionary divergences and functions Sirtuins in mammals: insights into their biological function The substrate specificity of sirtuins Identification of a class of protein ADP-ribosylating sirtuins in microbial pathogens Glycation and glycoxidation of histones by ADP-ribose New readers and interpretations of poly(ADP-ribosyl) ation The macro domain is an ADP-ribose binding module Macrodomain-containing proteins: regulating new intracellular functions of mono(ADP-ribosyl)ation Macrodomains: structure, function, evolution, and catalytic activities Identification of macrodomain proteins as novel O-acetyl-ADPribose deacetylases The SARS-unique domain (SUD) of SARS coronavirus contains two macrodomains that bind G-quadruplexes Differential activities of cellular and viral macro domain proteins in binding of ADP-ribose metabolites Visualization of poly(ADPribose) bound to PARG reveals inherent balance between exo-and endo-glycohydrolase activities Deficiency of terminal ADP-ribose protein glycohydrolase TARG1/C6orf130 in neurodegenerative disease ATM induces MacroD2 nuclear export upon DNA damage Structural basis of severe acute respiratory syndrome coronavirus ADP-ribose-1″-phosphate dephosphorylation by a conserved domain of nsP3 Poly(ADP-ribose)-binding zinc finger motifs in DNA repair/checkpoint proteins Recognition of the iso-ADP-ribose moiety in poly(ADP-ribose) by WWE domains suggests a general mechanism for poly(ADPribosyl)ation-dependent ubiquitination The oligonucleotide/oligosaccharide-binding fold motif is a poly(ADP-ribose)-binding domain that mediates DNA damage response Poly(ADP-ribose) binds to specific domains in DNA damage checkpoint proteins The recognition and removal of cellular poly(ADP-ribose) signals Regulation of nitrogenase by reversible mono-ADPribosylation Mechanism of ADP-ribosylation removal revealed by the structure and ligand complexes of the dimanganese mono-ADP-ribosylhydrolase DraG A family of macrodomain proteins reverses cellular mono-ADPribosylation Macrodomain-containing proteins are new mono-ADP-ribosylhydrolases Preferential perinuclear localization of poly(ADP-ribose) glycohydrolase Human poly(ADP-ribose) glycohydrolase is expressed in alternative splice variants yielding isoforms that localize to different cell compartments ADPribosylhydrolase 3 (ARH3), not poly(ADP-ribose) glycohydrolase (PARG) isoforms, is responsible for degradation of mitochondrial matrix-associated poly (ADP-ribose) Orphan macrodomain protein (human C6orf130) is an O-acyl-ADP-ribose deacylase: solution structure and catalytic properties A highly specific phosphatase that acts on ADP-ribose 1″-phosphate, a metabolite of tRNA splicing in Saccharomyces cerevisiae ADP-ribosylation, a mechanism regulating nitrogenase activity Enhanced sensitivity to cholera toxin in ADP-ribosylarginine hydrolase-deficient mice The structure of human ADP-ribosylhydrolase 3 (ARH3) provides insights into the reversibility of protein ADP-ribosylation Identification and characterization of a mammalian 39-kDa poly(ADPribose) glycohydrolase Sequence and structural links between distant ADP-ribosyltransferase families ARTC1-mediated ADPribosylation of GRP78/BiP: a new player in endoplasmic-reticulum stress responses Reanalysis of phosphoproteomics data uncovers ADP-ribosylation sites Proteome-wide identification of the endogenous ADPribosylome of mammalian cells and tissue Structure and function of the ARH family of ADP-ribosyl-acceptor hydrolases The 39-kDa poly(ADP-ribose) glycohydrolase ARH3 ribose, a product of the Sir2 family of acetyl-histone deacetylases Hydrolysis of O-acetyl-ADP-ribose isomers by ADPribosylhydrolase 3 Structures and mechanisms of Nudix hydrolases The Nudix hydrolase superfamily ADP-ribose-derived nuclear ATP synthesis by NUDIX5 is required for chromatin remodeling Nucleotide pyrophosphatases/ phosphodiesterases on the move Processing of protein ADP-ribosylation by Nudix hydrolases Nudix hydrolases degrade protein-conjugated ADP-ribose Leung AK & Ahel I (2016) keywords: activity; addition; adp; adpr; antibiotic; art; arts; bacterial; best; binding; catalytic; cells; cellular; characterized; chemical; class; coelicolor; coli; control; damage; degradation; different; differentiation; dna; domains; drag; endogenous; enzymes; evidence; family; fig; functions; gene; glycohydrolase; griseus; growth; homologues; host; human; hydrolases; identification; life; like; macrodomain; mammalian; marylation; mazf; mechanisms; modification; molecular; mono; nad; new; novel; nudix; number; organisms; oxidative; parg; parp-1; parps; pathways; phosphate; physiological; poly(adp; polymerase; processes; production; proteins; regulation; repair; replication; residues; response; ribose; ribosylation; ribosyltransferase; rna; role; serine; signalling; sirtuins; sites; species; specific; streptomyces; stress; structure; superfamily; synthesis; system; targ1; targets; toxin; tpt1; transcription; transferases; trna; type; ubiquitin; ubiquitination; viral; virus cache: cord-345712-gmzue6lj.txt plain text: cord-345712-gmzue6lj.txt item: #614 of 647 id: cord-345903-ggkn1w5y author: Revathidevi, Sundaramoorthy title: APOBEC: A molecular driver in cervical cancer pathogenesis date: 2020-10-07 words: 7028 flesch: 38 summary: Analysis of the association of cervical cancer and HLA haplotype revealed a strong association of cervical cancer risk with protective HLA haplotypes which were decided by the HLA-DRB1 at amino-acid positions 13 and 71 and HLA-B at position 156. Many studies focused more on the association of inherited variations in immune response genes with cervical cancer risk as host innate and adaptive immune responses are responsible for the regression, persistence, or progression of HPV infection keywords: acid; activity; aid; analysis; apobec3a/3b; apobec3b; apobecs; associated; association; breast; cancer; carcinogenesis; catalytic; cell; cellular; cervical; cervical cancer; common; control; cytidine; cytosine; deaminase; deamination; deletion; dependent; development; dna; driver; editing; endogenous; enzymes; epithelial; evolution; expression; factor; family; fusion; genes; genetic; genome; genomic; germline; high; higher; host; hpv; hpv16; human; hypermutation; immune; infected; infection; innate; j o; levels; likely; molecular; multiple; mutagenesis; mutations; nuclear; o u; overexpression; p53; papillomavirus; pathogenesis; polymorphism; population; processes; protein; r n; recent; regulation; repair; replication; restriction; results; retroviruses; risk; rna; role; sequence; signature; site; somatic; squamous; studies; study; susceptibility; transcript; tumor; types; u r; variants; viral; viruses; women cache: cord-345903-ggkn1w5y.txt plain text: cord-345903-ggkn1w5y.txt item: #615 of 647 id: cord-346043-8vcvalhp author: Lee, Jong B. title: Multifunctional nanoarchitectures from DNA-based ABC monomers date: 2009-05-03 words: 2999 flesch: 47 summary: Here, we report the creation of anisotropic, branched and crosslinkable building blocks (ABC monomers) from which multifunctional nanoarchitectures have been assembled. Here, we report the creation of anisotropic, branched and crosslinkable building blocks (ABC monomers) from which multifunctional nanoarchitectures have been assembled. keywords: 1g1r; abc; addition; anisotropic; applications; approach; assembly; blocks; bridge; building; cells; creation; delivery; detection; different; dna; dnas; donor; dots; drug; fig; fluorescence; images; microscopy; moieties; monomers; multifunctional; nanoarchitectures; nanostructures; pathogen; pega; photo; polymeric; polymerization; polymers; presence; quantum; ratio; self; sequences; single; specific; spheres; supplementary; table; target; unique cache: cord-346043-8vcvalhp.txt plain text: cord-346043-8vcvalhp.txt item: #616 of 647 id: cord-346104-18x8u2oe author: Black, Wendy title: Identification of gammaherpesvirus infection in free-ranging black bears (Ursus americanus) date: 2019-01-02 words: 5167 flesch: 49 summary: Interestingly, black bear herpesvirus infections were also found in bears without neurological signs. shown in Fig. 6 , the amplicons from bear tissues and UrHV-1 branch out together and have smaller distance to members of Rhadinvirus, such as HHV-8 and Rhadinovirus 1 (RHV-1). keywords: americanus; amplicon; analysis; barr; bear; black; cells; consensus; coronavirus; cpe; culture; different; disease; dna; dpol; equine; et al; fig; gammaherpesvirus; gene; genus; glycoprotein; herpesvirus; hrt-18; human; identity; infected; infection; like; lymph; members; nested; neurological; nevada; node; non; nv17a; observed; oregon; panherpesvirus; particles; pcr; polymerase; positive; possible; primers; rhadinovirus; samples; sequences; signs; similar; specific; spleen; tissue; total; total dna; type; urhv-1; viral cache: cord-346104-18x8u2oe.txt plain text: cord-346104-18x8u2oe.txt item: #617 of 647 id: cord-346280-7sw30bsz author: Ramos Venancio, D. B. title: Biomathematical models for genetic diversity analyses in complete genomes of SARS-CoV-2 date: 2020-10-02 words: 4037 flesch: 37 summary: A new series of programs to perform population genetics analyses under Linux and Windows Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection A simple method of removing the effect of a bottleneck and unequal population sizes on pairwise genetic distances National Center for Biotechnology Information Molecular Evolutionary Genetics Analysis across computing platforms Distribution of gene frequency as a test of the theory of the selective neutrality of polymorphisms Molecular Evolutionary Genetics Mathematical model for studying genetic variation in terms of restriction endonucleases Microsatellite analysis of population structure in Canadian polar bears Intra-Deme Molecular Diversity in Spatially Expanding Populations An exact tes for population differentiation Estimation for the coancestry coefficient: basis for a short-term genetic distance Population growth makes waves in the distribution of pairwise genetic differences Algorithm 76. These generate paired FST parameters that are always used, extremely reliably, to estimate the short-term genetic distances between the populations studied, in this model a slight algorithmic adaptation is applied to linearize the genetic distance with the time of population divergence (Reynolds et al. 1983; Slatkin, 1995) . keywords: alleles; analyses; author; available; copyright; copyright holder; countries; data; differences; different; distance; divergence; diversity; dna; doi; estimated; evolutionary; expansion; funder; genetic; groups; haplotypes; holder; https://doi.org/10.1101/2020.10.01.20205120; labecom; license; medrxiv; medrxiv preprint; method; model; molecular; number; observed; october; peer; peer review; phylogenetic; population; preprint; review; sars; sequences; table; test; time; use; version cache: cord-346280-7sw30bsz.txt plain text: cord-346280-7sw30bsz.txt item: #618 of 647 id: cord-346308-9h2fk9qt author: Kaur, Rajwinder title: Microbiology of hospital wastewater date: 2020-05-01 words: 14679 flesch: 30 summary: and Enterobacteriaceae in sewage Hospital wastewater releases of carbapenem-resistance pathogens and genes in urban India Assessment of antibiotic-and disinfectant-resistant bacteria in hospital wastewater, south Ethiopia: a cross-sectional study Antibiotic susceptibilities of Enterococcus species isolated from hospital and domestic wastewater effluents in Alice, Eastern Cape Province of South Africa Beta-lactamase-producing Enterobacteriaceae in hospital effluents Insights into the relationship between antimicrobial residues and bacterial populations in a hospital-urban wastewater treatment plant system Influence of hospital wastewater discharged from University of Benin Teaching Hospital (UBTH) Multiresistance, beta-lactamaseencoding genes and bacterial diversity in hospital wastewater in Rio de Janeiro, Brazil Enumeration and characterization of antimicrobial-resistant Escherichia coli bacteria in effluent from municipal, hospital, and secondary treatment facility sources Antibiotic resistance and antibiotic resistance genes in Escherichia coli isolates from hospital wastewater in Vietnam Antibiotic resistant bacteria in hospital wastewaters and sewage treatment plants Dissemination of antibiotic resistance in methicillin-resistant Staphylococcus aureus and vancomycin-resistant S aureus strains isolated from hospital effluents Detection of antimicrobial-resistant Gram-negative bacteria in hospital effluents and in the sewage treatment station of Goiânia Brazil Antimicrobial resistance of 3 types of gram-negative bacteria isolated from hospital surfaces and the hands of health care workers Abundance of antibiotics, antibiotic resistance genes and bacterial community composition in wastewater effluents from different Romanian hospitals Vancomycin resistant enterococci: from the hospital effluent to the urban wastewater treatment plant The role of aquatic ecosystems as reservoirs of antibiotic resistance Environmental dissemination of antibiotic resistance genes and correlation to anthropogenic contamination with antibiotics Occurrence of antibiotics and antibiotic resistance genes in hospital and urban wastewaters and their impact on the receiving river Urban wastewater treatment plants as hotspots for antibiotic resistant bacteria and genes spread into the environment: a review Levels of antibiotic resistance genes in manure, biosolids, and fertilized soil Epidemiology of resistance to antibiotics: links between animals and humans Detection of antibiotic resistance genes in source and drinking water samples from a first nation community in Canada Prevalence of antibiotic resistance in drinking water treatment and distribution systems Antimicrobial Resistance: Global Report on Surveillance, World Health Organization Society's failure to protect a precious resource: antibiotics Hospital effluents are one of several sources of metal, antibiotic resistance genes, and bacterial markers disseminated in Sub-Saharan urban rivers Identifying antimicrobial resistance genes with DNA microarrays Evidence of increasing antibiotic resistance gene abundances in archived soils since 1940 Antibiotic resistance genes in water environment Prevalence of antibiotic resistance genes and their relationship with antibiotics in the Huangpu River and the drinking water sources Multiple drug resistance and biocide resistance in Escherichia coli environmental isolates from hospital and household settings Wastewater treatment plant resistomes are shaped by bacterial composition, genetic exchange, and upregulated expression in the effluent microbiomes Tackling antibiotic resistance: the environmental framework Screening methods for the detection of antimicrobial resistance genes present in bacterial isolates and the microbiota Culture-based methods for detection of antibiotic resistance in agroecosystems: advantages, challenges, and gaps in knowledge Insights into antibiotic resistance through metagenomic approaches Molecular evaluation of antibiotic susceptibility: keywords: able; addition; adenovirus; amr; analysis; animals; antibiotic; antibiotic resistance; antifungal; antimicrobial; antimicrobial resistance; aquatic; arb; args; aspergillus; assessment; associated; aureus; bacteria; beings; bla; brazil; capacity; capsid; cases; cause; cell; characterization; clinical; coli; common; communities; community; compounds; concentrations; conditions; conjugation; contaminated; contamination; control; database; days; detection; development; different; discharged; disease; dissemination; diversity; dna; dominant; drinking; drugs; effective; effects; effluents; eggs; elements; emergence; environment; epidemiology; escherichia; example; fact; factors; fecal; fig; food; frequency; fungal; fungi; gastroenteritis; genes; genetic; genome; genotype; gram; hadv; hav; health; hepatitis; high; higher; horizontal; hospital; hospital wastewater; host; human; hww; identification; immunocompromised; important; increase; indicator; infections; instance; isolates; knowledge; lactamase; level; like; low; lower; major; mechanisms; membrane; metagenomics; methods; microarray; microbes; microbiological; molecular; mortality; multiplex; municipal; new; norovirus; novel; number; occurrence; parasites; particles; pathogens; patients; pcr; period; pharmaceuticals; place; plants; plasmids; population; positive; potential; presence; present; prevalence; prions; profile; protein; public; rapid; real; release; removal; reported; research; resistance; resistance genes; resistant bacteria; responsible; results; review; risk; rna; rotavirus; samples; screening; sewage; similar; skin; soil; sources; species; specific; spores; spp; spread; states; strains; studies; study; surface; survival; system; techniques; technologies; temperature; tetracycline; time; tools; tract; transduction; transfer; transformation; treatment; united; urban; viral; viroids; virus; viruses; wastewater; wastewater treatment; wwtp; years cache: cord-346308-9h2fk9qt.txt plain text: cord-346308-9h2fk9qt.txt item: #619 of 647 id: cord-346450-x1u567ss author: del Fresno, Carlos title: Myeloid cells in sensing of tissue damage date: 2020-10-07 words: 4223 flesch: 29 summary: Certain forms of tumor cell death may expose or release DAMPs that are sensed by infiltrating myeloid cells, triggering an inflammatory response against the tumor. Supporting the protective role of DNA release associated with tumor cell death during radiotherapy, the efficacy of irradiationbased treatments in immunogenic tumors relies on the STING-dependent IFN-I production by tumor infiltrating myeloid CD11c + cells keywords: actin; activation; activity; acute; antitumor; associated; autoimmunity; binding; cancer; cells; cgas; clec12a; components; conditions; cytosolic; damage; damps; dead; death; deficient; dendritic; dependent; disease; dna; dngr-1; extracellular; histones; hmgb1; immune; immunity; immunogenic; infection; inflammation; inflammatory; injury; innate; interferon; lectin; lung; mice; mincle; molecular; myeloid; pathway; pro; production; protein; receptor; recognition; regulatory; release; responses; review; role; sensing; signaling; signals; specific; sting; tissue; tissue damage; tlr4; tlr9; tumor; type cache: cord-346450-x1u567ss.txt plain text: cord-346450-x1u567ss.txt item: #620 of 647 id: cord-346853-0c1qdjb5 author: Holmes, E. C. title: The Evolutionary Genetics of Viral Emergence date: 2007 words: 6127 flesch: 35 summary: Although the engine of RNA virus evolution is undoubtedly their high mutation rate, there is mounting evidence that the genetic variability observed in RNA virus populations can be shaped, in part, by recombination. The broadest division in virus classification is between those viruses in which the genome is composed of DNA (DNA viruses) and those where the genomic nucleic acid comprises RNA (RNA viruses), with the latter also usually considered to include retroviruses that make a DNA copy of the RNA genome through reverse transcription. keywords: able; acid; adaptation; adaptive; amino; avian; case; cell; change; chapter; coronavirus; critical; cross; data; deleterious; dengue; difficult; diseases; dna; drift; emergence; emergent; et al; evidence; evolutionary; example; exposure; factors; fitness; genetic; high; hiv; holmes; host; host species; human; immune; importance; infections; influenza; key; likely; majority; mammalian; mutations; natural; new; particular; pathogens; phylogenetic; population; primates; probability; process; rate; receptors; recombination; related; rna; rna viruses; sars; selection; sequence; species; spread; studies; successful; theory; transmission; variation; viral; viral emergence; viruses; volume cache: cord-346853-0c1qdjb5.txt plain text: cord-346853-0c1qdjb5.txt item: #621 of 647 id: cord-346890-4vozhns4 author: Prajapati, Deepak G. title: Progress in the Development of Intrinsically Conducting Polymer Composites as Biosensors date: 2019-04-23 words: 14619 flesch: 32 summary: [45] Similarly, Krishnamoorthy et al. electrochemically synthesized poly(3,4-ethylene dioxythiophene) based biosensor and developed a label-free DNA sensor with a detection limit of 8 × 10 −8 g mL −1 . Often additionally obtained discernment of electrochemical interfaces by employing ICPs as matrices for enzymes permits the use of such biosensors for scrutinizing natural samples, for example, flow injection perseverance of lactate in whole blood. keywords: acid; active; activity; adsorption; advancement; aid; amperometric; analyte; analytical; antibody; antigen; application; applied; area; attributes; aunp; benefits; binding; biochemical; biocompatibility; biological; biomolecule; biosensing; biosensor; blood; carbon; cells; changes; characteristics; charge; clinical; cnt; cnts; complex; composite; concentration; conditions; conductive; conductivity; conjugated; construction; copious; cost; covalent; cross; current; detection; detection limit; determination; development; device; diagnosis; different; diverse; dna; dopamine; doping; electrical; electrochemical; electrochemical biosensor; electrode; electron; element; environmental; enzymatic; enzyme; et al; example; excellent; exceptional; fabrication; facile; field; figure; film; formation; free; functional; glucose; glucose biosensor; gold; good; graphene; group; high; human; hydrogen; icp; icps; immobilization; immobilized; immunosensor; interaction; interest; large; layer; limit; linear; low; market; mass; materials; matrix; measurement; mip; modified; monitoring; multi; mwcnt; nanocomposite; nanomaterials; nanoparticles; novel; optical; organic; oxidase; oxide; pedot; performance; peroxide; physical; piezoelectric; platform; polyaniline; polymer; polypyrrole; poor; potential; potentiometric; probe; process; properties; range; reaction; real; recognition; redox; reproducibility; research; researchers; response; result; samples; selective; selectivity; sensing; sensitive; sensitivity; sensors; serum; signal; single; species; specific; stability; structure; surface; synthesis; system; target; technology; time; transducer; transfer; type; unique; uric; usd; use; www.advancedsciencenews.com; www.mcp-journal.de cache: cord-346890-4vozhns4.txt plain text: cord-346890-4vozhns4.txt item: #622 of 647 id: cord-346965-0oq2n0af author: Liu, Zhi-Ping title: Bridging protein local structures and protein functions date: 2008-04-18 words: 14492 flesch: 38 summary: Supplement 4: corrections and additions Kernel-based machine learning protocol for predicting DNA-binding proteins Inferring functional relationships of proteins from local sequence and spatial surface patterns CASTp: computed atlas of surface topography of proteins pvSOAR: detecting similar surface patterns of pocket and void surfaces of amino acid residues on proteins Protein surface analysis for function annotation in high-throughput structural genomics pipeline Statistical analysis and prediction of protein-protein interfaces Flu virus proton channel analyzed: structures of key surface protein suggest different drug mechanisms Insights into protein-protein interfaces using a Bayesian network prediction method A tour of structural genomics Predicting protein interaction sites: binding hot-spots in protein-protein and protein-ligand interfaces Identify catalytic triads of serine hydrolases by support vector machines The gene ontology annotation (GOA) database: sharing knowledge in Uniprot with gene ontology Ligand binding: functional site location, similarity and docking Predicting functionally important residues from sequence conservation Analysis and prediction of functionally important sites in proteins Prediction of interface residues in proteinprotein complexes by a consensus neural network method: test against NMR data Prediction of linear B-cell epitopes using amino acid pair antigenicity scale Revealing divergent evolution, identifying circular permutations and detecting active-sites by protein structure comparison Improvement in protein functional site prediction by distinguishing structural and functional constraints on protein family evolution using computational design Prediction of protein cellular attributes using pseudo amino acid composition (Erratum: ibid Structural bioinformatics and its impact to biomedical science A novel approach to predict active sites of enzyme molecules Predicting protein-protein interactions from sequences in a hybridization space MemType-2L: a web server for predicting membrane proteins and their types by incorporating evolution information through Pse-PSSM Recent progresses in protein subcellular location prediction Cell-PLoc: a package of web-servers for predicting subcellular localization of proteins in various organisms Prediction of protein structural classes Binding mechanism of coronavirus main proteinase with ligands and its implication to drug design against SARS (Erratum: ibid High-throughput identification of interacting protein-protein binding sites Residue centrality, functionally important residues, and active site shape: analysis of enzyme and non-enzyme families Predicting calciumbinding sites in proteins-a graph theory and geometry approach Practical limits of function prediction Using pseudo amino acid composition to predict transmembrane regions in protein: cellular automata and Lempel-Ziv complexity Analogue inhibitors by modifying oseltamivir based on the crystal neuraminidase structure for treating drug-resistant H5N1 virus Robust recognition of zinc binding sites in proteins Protein function in the post-genomic era Prediction of functionally important residues based solely on the computed energetics of protein structure Predicting DNA-binding proteins: approached from Chou's pseudo amino acid composition and other specific sequence features Prediction of protein-protein interaction sites in heterocomplexes with neural networks SURFACE: a database of protein surface regions for functional annotation Functional annotation by identification of local surface similarities: a novel tool for structural genomics HTHquery: a method for detecting DNA-binding proteins with a helix-turn-helix structural motif Three-dimensional, sequence order-independent structural comparison of a serine protease against the crystallographic database reveals active site similarities: potential implications to evolution and to protein folding The binding interface database (BID): a compilation of amino acid hot spots in protein interfaces Using pseudo amino acid composition to predict protein subcellular location: approached with Lyapunov index, Bessel function, and Chebyshev filter Effective function annotation through catalytic residue conservation Comprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins Surprising similarities in structure comparison A method for localizing ligand binding pockets in protein structures SiteBase: a database for structurebased protein-ligand binding site comparison Fold independent structural comparisons of protein-ligand binding sites for exploring functional relationships Structural genomics: computational methods for structure analysis Exploiting 3D structural templates for detection of metal-binding sites in protein structures Uncovering network systems within protein structures Using a neural network and spatial clustering to predict the location of active sites in enzymes Distance-based identification of spatial motifs in proteins using constrained frequent subgraph mining LIGSITE csc : predicting ligand binding sites using the Connolly surface and degree of conservation LIGSITE: automatic and efficient detection of potential small molecule-binding sites in proteins Protein structure comparison by alignment of distance matrices Mapping the protein universe An algorithm for predicting protein-protein interaction sites: abnormally exposed amino acid residues and secondary structure elements Global mapping of the protein structure space and application in structure-based inference of protein function Prediction of functional sites in proteins using conserved functional group analysis PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins PDBSite: a database of the 3D structure of protein functional sites A new bioinformatic approach to detect common 3D sites in protein structures Principles of protein-protein interactions Searching for functional sites in protein structures Protein-RNA interactions: a structural analysis Using electrostatic potentials to predict DNA-binding sites on DNAbinding proteins Quantitative assessment of relationship between sequence similarity and function similarity Shape variation in protein binding pockets and their ligands KEGG: An approach for clustering protein pockets into similar groups Analysis of protein surface patterns by pocket similarity network Protein-DNA interactions: amino acid conservation and the effects of mutations on binding specificity An overview of the structures of protein-DNA complexes Amino acidbase interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level Protein-protein interaction: structurally conserved residues distinguish between binding sites and exposed protein surfaces A combined algorithm for genome-wide prediction of protein function Statistical models for discerning protein structures containing the DNA-binding helix-turn helix motif Real spherical harmonic expansion coefficients as 3D shape descriptors for protein binding pocket and ligand comparisons SCOP: a structural classification of proteins database for the investigation of sequences and structures On the nature of cavities on protein surfaces: application to the identification of drug-binding sites ProMate: a structure based prediction program to identify the location of protein-protein binding sites Predicted protein-protein interaction sites from local sequence information CATH-a hierarchic classification of protein domain structures SSAP: sequential structure alignment program for protein structure comparison From protein structure to function Inference of protein function from protein structure Prediction of functional sites by analysis of sequence and structure conservation Identifying cysteines and histidines in transition-metal-binding sites using support vector machines and neural networks Automatic prediction of protein function and detection of functional sites from structure The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data Molecular shape comparisons in searches for active sites and functional similarity Twilight zone of protein sequence alignments The FunCat, a functional annotation scheme for systematic classification of proteins from whole genomes Detection of protein three-dimensional side-chain patterns: new examples of convergent evolution A structural perspective on protein-protein interactions Computational methods of analysis of protein-protein interactions Integrating structure, bioinformatics, and enzymology to discover function-BioH, a new carboxylesterase from Escherichia coli A new method to detect related function among proteins independent of sequence and fold homology Structure and mechanism of the M2 proton channel of influenza A virus Predicting enzyme function from sequence: a systematic appraisal Network-based prediction of protein function EzyPred: a top-down approach for predicting enzyme functional classes and subclasses Nuc-PLoc: a new web-server for predicting protein subnuclear localization by fusing PseAA composition and PsePSSM PseAAC: a flexible web-server for generating various kinds of protein pseudo amino acid composition Using pseudo amino acid composition to predict protein subcellular location: approached with amino acid composition distribution Protein structure alignment by incremental combinatorial extension (CE) of the optimal path SiteEngines: recognition and comparison of binding sites and protein-protein interfaces Structural alignment of protein-DNA interfaces: insights into the determinants of binding specificity Hierarchical protein structure alignment using both secondary structure and atomic representations Identifying structural motifs in proteins Predicting metal-binding site residues in low-resolution structural models Annotation in three dimensions. keywords: 2007a; accuracy; acid; active; active sites; algorithm; alignment; amino; amino acid; analysis; annotated; annotation; approach; automatic; bayesian; binding; biological; biology; calculated; catalytic; cavities; cellular; chain; chou; clusters; common; comparison; complexes; composition; computational; conservation; conserved; database; detection; different; dimensional; distance; dna; effective; electrostatic; energy; enzyme; et al; et method; evolutionary; features; functional; functional sites; gene; geometric; geometry; global; graph; groups; hashing; helix; high; homologous; hydrophobicity; identification; important; individual; information; interaction; interaction sites; interfaces; known; large; learning; level; ligand; liu; local; local regions; local structures; local surface; location; machine; main; matching; metal; method; model; molecular; molecules; motifs; multiple; network; neural; new; novel; number; pairwise; particular; patches; patterns; pdb; physical; physicochemical; pockets; potential; prediction; process; profiles; program; properties; protein; protein function; protein interaction; protein interfaces; protein local; protein sequence; protein structures; protein surface; proteins protein; pseudo; recognition; regions; related; relationships; residues; results; review; rna; score; scoring; search; sequence; shape; similarities; similarity; single; sites; small; spatial; special; specific; specificity; structure alignment; structures; subcellular; supervised; surface; svm; systems; target; templates; terms; tool; types; use; web; zhou; zone cache: cord-346965-0oq2n0af.txt plain text: cord-346965-0oq2n0af.txt item: #623 of 647 id: cord-347221-g98q9cga author: Piyush, Ravikant title: Nucleic acid-based therapy for coronavirus disease 2019 date: 2020-09-19 words: 4221 flesch: 43 summary: The potential risk of infection and insertion induced mutagenesis are minimized by mRNA based vaccines due to its natural degradation in cells [167] . Front Immunol Immune response in severe infection: could life-saving drugs be potentially harmful? New Vaccine Technologies to Combat Outbreak Situations A comparison of plasmid DNA and mrna as vaccine technologies RNA: the new revolution in nucleic acid vaccines. keywords: acid; activation; anti; antigen; biomolecules; cells; china; coronavirus; cost; cov-2; covid-19; delivery; development; disease; dna; drug; effective; electric; entry; expression; gene; genome; globe; hace2; host; human; immune; infection; inflammatory; large; like; lipid; membrane; molecules; mrna; mrna-1273; new; novel; nucleic; nucleic acid; pandemic; particles; patients; plasmid; potential; present; protein; receptor; respiratory; responses; sars; sequence; severe; small; spike; syndrome; target; therapeutic; treatment; usd; use; vaccination; vaccine; viral; virus cache: cord-347221-g98q9cga.txt plain text: cord-347221-g98q9cga.txt item: #624 of 647 id: cord-347472-n6811ens author: Rosebrock, Adam P. title: Patient DNA cross-reactivity of the CDC SARS-CoV-2 extraction control leads to an inherent potential for false negative results date: 2020-05-15 words: 6274 flesch: 49 summary: DNA samples were diluted in nuclease free water supplemented with 0.01% Tween-20, RNA samples were diluted in nuclease-free water. All samples contained genomic DNA and generated extraction control positive signals well above the CDC assay threshold (40 cycles, horizontal dashed line). keywords: acid; amplicon; assay; cdc; clinical; collection; commercial; control; cov-2; covid-19; data; design; diagnostic; dna; eua; exon; extraction; false; fda; fig; free; genomic; handling; human; intact; integrity; intended; life; mastermix; materials; methods; molecular; negative; nucleic; patient; pooled; positive; potential; primer; probe; problem; purified; qpcr; reaction; reference; response; results; return; reverse; rna; rnase; rpp30; samples; sars; signal; single; specific; specified; specimen; step; successful; sufficient; technologies; testing; total; transcribed; transcript; transcriptase; transcription; use; viral; virus; water cache: cord-347472-n6811ens.txt plain text: cord-347472-n6811ens.txt item: #625 of 647 id: cord-347569-9fvbshz2 author: Balakrishnan, Krishnan Nair title: Multiple gene targeting siRNAs for down regulation of Immediate Early-2 (Ie2) and DNA polymerase genes mediated inhibition of novel rat Cytomegalovirus (strain All-03) date: 2020-10-27 words: 8637 flesch: 48 summary: On the other hand, negative control siRNA and untreated groups showed higher viral titer than siRNA treated groups: 4 log 10 TCID50/ml at day 10 p.i and 8 log 10 TCID50/ml at day 18 p.i. Analysis of RCMV ALL-03 infected cells undergoing apoptosis/necrosis upon combination siRNAs treatment were studied using flow cytometry. Besides that, RCMV ALL-03 replication have been reduced by combination siRNAs treatment which indirectly limiting the likelihood of mutation occurrence by inhibiting the growth of virus population carrying the mutated gene for infection. keywords: all-03; analysis; antiviral; apoptosis; apoptotic; better; cells; cellular; combination; combination sirnas; concentration; control; cpe; cytomegalovirus; cytotoxicity; day; development; different; dna; double; dpb; dpc; droplet; drug; early; effective; effects; efficiency; expression; fig; figure; final; gcv; gene; group; hand; high; host; human; ie2b; individual; infected; infection; inhibition; lesser; level; log; mean; method; mrna; mtt; multiple; mutation; negative; non; number; occurrence; particles; pcr; percentage; plate; pmol; polymerase; positive; quantification; rate; rcmv; rcmv all-03; reaction; reduction; ref; region; replication; resistance; results; rnai; sample; sequence; significant; silencing; similar; sirnas; software; specific; standard; stock; study; system; targeting; tcid50; therapy; time; transfected; treated; treatment; triple; untreated; usa; viability; viral; virus; viruses cache: cord-347569-9fvbshz2.txt plain text: cord-347569-9fvbshz2.txt item: #626 of 647 id: cord-347710-ff64y6ef author: Wan, Qianya title: Stress proteins: the biological functions in virus infection, present and challenges for target-based antiviral drug development date: 2020-07-13 words: 36727 flesch: 38 summary: First, Hsp90 works as a classic chaperone protein to stabilize virus proteins. 57, 473 Except for promoting viral protein translation by binding with the viral IRES sequence, hnRNPs can directly bind with virus proteins to facilitate virus replication. keywords: a71; able; acting; activation; active; activities; activity; acute; addition; adenovirus; affinity; alpha; alternative; analysis; antibodies; antigen; antiviral; apoptosis; apoptotic; assembly; association; atp; atpase; attachment; barr; barr virus; binding; block; c virus; cancer; cancer cells; capsid; capsid protein; carcinoma; case; causes; cdc37; cells; cellular; certain; chaperone; cleavage; client; cochaperones; complex; complex formation; complexes; conditions; conformation; conserved; control; core; core protein; coronavirus; coxsackievirus; critical; crucial; cycle; cytomegalovirus; cytoplasm; cytosol; death; degradation; dendritic; dengue; dengue virus; denv; dependent; development; different; differentiation; direct; diseases; disruption; disulfide; dna; dna replication; dnaj; domain; downstream; drug; e2f; early; ebv; effects; efficient; eif2α; element; elevated; encephalitis; encephalitis virus; endoplasmic; enterovirus; entry; envelope; envelope protein; epstein; erp57; essential; eukaryotic; evidence; example; exhibits; exon; export; expression; facilitate; factor; family; family proteins; fig; flavivirus; folding; formation; forms; free; function; gene; gene expression; genome; groel; group; growth; grp78; hbv; hbx; hcv; hcv rna; hdj1; heat; heat shock; help; hepatitis; herpes; herpesvirus; heterogeneous; high; hiv-1; hnrnp; hnrnp a1; hnrnp c; hnrnp k; host; host cells; hpv; hsc70; hsp27; hsp60s; hsp70 family; hsp72; hsp90; hsp90 inhibitors; hsps; hsv; human; hydrolysis; identification; immune; immunity; immunodeficiency; immunodeficiency virus; implications; import; important; increase; induced; induction; infected; infection; inflammation; inflammatory; influenza; influenza virus; inhibition; inhibitors; initiation; innate; interaction; interferon; internal; intracellular; ire1; ires; isoform; isomerase; japanese; jev; kda; key; kinase; knockdown; large; late; leads; level; life; like; lipid; liver; localization; long; low; machinery; major; mammalian; manner; maturation; mechanism; members; membrane; mitochondrial; modulates; modulation; molecular; molecules; mrna; multiple; n protein; natural; nef; negative; new; non; novel; ns1; ns5a; nuclear; nucleocapsid; nucleus; number; overexpression; oxidative; p53; p58ipk; papillomavirus; pathogenesis; pathway; patients; pb2; pdi; peptide; perk; phosphorylation; pim1; pkr; pocket; poliovirus; polyadenylation; polymerase; polyomavirus; polypyrimidine; positive; post; potential; prb; present; process; production; products; promoter; proper; properties; proteasome; protein; protein complex; protein disulfide; protein expression; protein folding; protein hnrnp; protein kinase; protein response; protein synthesis; protein translation; ptb; quercetin; receptor; recognition; region; regulation; regulatory; release; replication complex; residues; resistance; respiratory; response; responsible; results; reticulum; retrovirus; ribonucleoprotein; rna; rna chaperones; rna genome; rna polymerase; rna replication; rna splicing; role; ros; rotavirus; rsv; sarcoma; sars; sequence; shock protein; signaling; silencer; simian; similar; simplex; simplex virus; single; site; small; species; specific; splice; splicing; stability; stage; step; stress; stress proteins; structure; studies; study; substrate; suppresses; surface; survival; sv40; synthesis; system; tag; target; terminal; terminus; toll; tract; trafficking; transcription; transformation; translation; transport; tumor; type; unfolded; unfolded protein; upr; upregulated; viral; viral capsid; viral protein; viral rna; virion; virus; virus entry; virus gene; virus hnrnp; virus infection; virus polymerase; virus proteins; virus replication; virus rna; virus type; viruses; vitro; vivo; vp1; vpr; vrc cache: cord-347710-ff64y6ef.txt plain text: cord-347710-ff64y6ef.txt item: #627 of 647 id: cord-347992-coby2m6e author: Marton, Soledad title: In Vitro and Ex Vivo Selection Procedures for Identifying Potentially Therapeutic DNA and RNA Molecules date: 2010-06-28 words: 10046 flesch: 39 summary: It has been shown that an antagonist RNA aptamer against CTLA-4, a negative regulator of T-cell activation, inhibits its function [101] , while an agonistic aptamer against 4-1BB, a major co-stimulatory receptor, leads to the activation of T cells RNA aptamers have been selected against different viral enzymes and proteins involved in host-cell interactions, such as HIV-1 reverse transcriptase (RT), HIV-1 glycoprotein 120, HCV RNA-dependent RNA polymerase (RdRp), SARS coronavirus NTPase/helicase, and the hemagglutinin protein of human influenza virus B, all of which show efficient viral inhibition [138] keywords: acids; activation; active; activity; addition; adhesion; advances; affinity; agents; anti; antidote; applications; aptamer; binding; blood; cancer; capable; catalytic; cells; cellular; chain; characterization; chemical; cleavage; clinical; conjugates; coronary; cycle; delivery; dependent; development; different; diseases; dna; dnazymes; domain; drug; e2f; effect; efficient; endothelial; evolution; expression; factor; family; formation; function; gene; great; group; growth; growth factor; hcv; hepatitis; high; hiv-1; hne; human; identification; ige; inhibited; inhibition; inhibitory; inhibits; interest; ires; ischemia; isolation; ixa; ligands; lna; loop; membrane; model; modifications; molecular; molecules; natural; neutrophil; new; novel; nucleic; nucleic acids; nucleotides; number; oligonucleotide; patients; pdgf; phase; phenotype; platelet; polymerase; pool; population; possible; potential; procedures; properties; protein; recent; receptor; region; replication; resistance; ret; review; ribozyme; rna; rna aptamers; rna molecules; role; selected; selection; selex; sequence; signaling; sirna; sites; specific; step; strategies; strategy; studies; study; surface; synthesis; system; target; targeted; targeting; techniques; therapeutic; therapy; thrombin; transcription; tumor; use; vascular; vegf; viral; virus; viruses; vitro; vivo; vivo selection cache: cord-347992-coby2m6e.txt plain text: cord-347992-coby2m6e.txt item: #628 of 647 id: cord-348104-7662q8dg author: Yang, Xiaoyun title: Molecular basis for the MacroD1-mediated hydrolysis of ADP-ribosylation date: 2020-06-22 words: 4382 flesch: 42 summary: The enzymatic activity of MacroD1 plays an important role in DNA damage repair ADPR hydrolases are known to regulate DNA damage repair. Under both neutral and alkaline conditions, the DNA damage repair was impaired once cells were only expressing MacroD1 mutants ( Fig. 6B and C) , suggesting that MacroD1-mediated ADPR hydrolyzation plays a crucial role in DNA damage repair. keywords: activity; adpr; adpr hydrolysis; analysis; asp; atom; binding; bond; c1″; catalytic; cells; code; complex; conformational; conserved; crystal; damage; distal; dna; dna damage; domain; enzymatic; fig; group; hydrogen; hydrolysis; lesions; loop; macrod1; mechanism; molecule; mutants; network; orientation; pdb; phe; phosphate; pocket; recruitment; repair; residues; ribose; ribosylation; role; site; structural; substrate; water12 cache: cord-348104-7662q8dg.txt plain text: cord-348104-7662q8dg.txt item: #629 of 647 id: cord-348860-zaimorg0 author: Ratra, Ruchi title: Functional genomics as a tool in virus research date: 2008-06-01 words: 3382 flesch: 34 summary: Besides targeting specifi c viral genes, the host genes essential for the viral cycle may serve as antiviral targets based on the fact that viruses employ several strategies to alter host gene expression. The expression of viral genes: EBNA1, EBNA2, EBNA3A, EBNA3B, LMP1, and LMP2A were found to be correlated among themselves and inversely correlated with the expression of a large subset of host genes, such as multiple MHC class I HLA genes involved in regulating immune response via antigen presentation. keywords: analysis; approach; arrays; bioinformatics; biological; biology; cellular; complete; coronavirus; cycle; data; detection; different; dna; experimental; expression; families; functional; functional genomics; gene; genome; genomics; global; group; hcv; hepatitis; high; host; human; identifi; immune; infection; infl; microarray; molecular; new; novel; organism; pathways; positive; protein; proteomics; replication; research; respiratory; response; rna; sequence; studies; study; techniques; translation; tumor; uenza; unknown; viral; virology; virus; viruses; wide cache: cord-348860-zaimorg0.txt plain text: cord-348860-zaimorg0.txt item: #630 of 647 id: cord-349042-u9svz7pf author: Li, Jifen title: The successes and future prospects of the linear antisense RNA amplification methodology date: 2018-03-29 words: 5020 flesch: 33 summary: Primary cell culture of live neurosurgically resected aged adult human brain cells and single cell transcriptomics Serotonergic neuron regulation informed by in vivo single-cell transcriptomics CEL-seq: single-cell RNA-seq by multiplexed linear amplification Assessing characteristics of RNA amplification methods for single cell RNA sequencing Single-cell whole-genome analyses by linear amplification via transposon insertion (LIANTI) Expression monitoring by hybridization to high-density oligonucleotide arrays Dopamine receptor subtypes colocalize in rat striatonigral neurons Embryonic neuronal markers in tuberous sclerosis: single-cell molecular pathology Fidelity and enhanced sensitivity of differential transcription profiles following linear amplification of nanogram amounts of endothelial mRNA Advantages of mRNA amplification for microarray analysis Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types On the nature and differential distribution of mRNAs in hippocampal neurites: implications for neuronal functioning Molecular characterization of the dendritic growth cone: regulated mRNA transport and local protein synthesis Cytoplasmic intron sequence-retaining transcripts can be dendritically targeted via ID element retrotransposons Highfidelity mRNA amplification for gene profiling Prospective molecular profiling of melanoma metastases suggests classifiers of immune responsiveness Human transcriptome array for high-throughput clinical studies CEL-Seq2: sensitive highly-multiplexed single-cell RNA-seq Single-cell barcoding and sequencing using droplet microfluidics Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells Amplified expression profiling of platelet transcriptome reveals changes in arginine metabolic pathways in patients with sickle cell disease Given the flexibility of the technique and the ability of different aRNA reporting methods to barcode different chemicals, it is reasonable to presume that linear RNA amplification will continue to be used as a foundation for new technologies, providing deeper understanding of the multiple components and processes of cells and systems that contribute to their function. keywords: abundances; amounts; amplification; analysis; antibody; apra; arna; barcodes; binding; cancer; cargoes; cdna; cell; cellular; chemical; detection; different; disease; double; example; expression; fixed; gene; genome; genomic; high; human; idat; lianti; library; linear; low; methodology; methods; microarray; molecular; mrna; multiple; oligo(dt)-t7; oligonucleotide; pcr; phenotype; polymerase; populations; primer; procedure; profiling; promoter; protein; random; reverse; rna; rnas; round; sample; second; sequence; sequencing; single; specific; strand; synthesis; system; targets; technique; template; throughput; tissue; transcription; transcriptome; transposon; use; yield cache: cord-349042-u9svz7pf.txt plain text: cord-349042-u9svz7pf.txt item: #631 of 647 id: cord-349672-2kt7xw8i author: Dasgupta, Tumpa title: Mechanism of Type IA Topoisomerases date: 2020-10-17 words: 8546 flesch: 48 summary: Answers about involvement of the carboxyl-terminal domain in DNA topoisomerase I-mediated catalysis The Zn(II) DNA Topoisomerase I Is Part of a High-Affinity DNA Binding Domain Expression and DNA-binding properties of the 14K carboxyl terminal fragment of Escherichia coli DNA topoisomerase keywords: active; activities; activity; bacterial; base; binding; break; catalytic; cellular; change; cleavage; cleaved; coli dna; coli topoisomerase; complex; conformational; conserved; core; covalent; crystal; cycle; cytosine; dna; dna cleavage; domains; e. coli; enzyme; escherichia; figure; gate; genome; human; iii; iiiβ; interactions; life; mechanism; motifs; mrna; mutation; pdb; phosphate; position; positive; potential; present; protein; relaxation; replication; residues; reverse; rna; rna topoisomerase; role; sequence; single; site; strand; structure; substitution; supercoiling; terminal; terminal domains; top3b; topoisomerase; topoisomerase activity; topoisomerase iiiβ; topological; transcription; tuberculosis; type; type ia; tyrosine; viral cache: cord-349672-2kt7xw8i.txt plain text: cord-349672-2kt7xw8i.txt item: #632 of 647 id: cord-350004-o151wwcf author: An, D. J. title: A DNA miniarray system for simultaneous visual detection of porcine circovirus type 1 (PCV1) and 2 (PCV2) in pigs date: 2008-07-24 words: 3271 flesch: 42 summary: During optimization of the assay, binding to the PCV1-specific probe was consistently negative when biotin-labeled PCV2 DNA (Accession No: AF520783) was applied to the miniarray, which indicated that there is no cross-reactivity between probes. This technique has been used as a standard assay for PCV detection in pigs, and was used to validate the results of the miniarray system. keywords: assay; associated; circovirus; colorimetric; commercial; concentration; detection; disease; dna; field; hybridization; limit; membrane; method; microarray; miniarray; multisystemic; non; nylon; pcr; pcv1; pcv1/2; pcv2; pdns; pigs; pmol; pmws; porcine; positive; probe; reaction; results; samples; sensitivity; sequences; simultaneous; situ; solution; specific; specimens; syndrome; system; target; tcid; type; viral cache: cord-350004-o151wwcf.txt plain text: cord-350004-o151wwcf.txt item: #633 of 647 id: cord-350019-4nlbu54e author: Robinson, Elektra K. title: The how and why of lncRNA function: An innate immune perspective() date: 2019-09-02 words: 13184 flesch: 37 summary: Immunobiology of long noncoding RNAs Cell composition analysis of bulk genomics using single-cell data Innate immune landscape in early lung adenocarcinoma by paired single-cell analyses Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations Single-cell analysis reveals that stochasticity and paracrine signaling control interferon-alpha production by plasmacytoid dendritic cells Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput Unique signatures of long noncoding RNA expression in response to virus infection and altered innate immune signaling Digital cell quantification identifies global immune cell dynamics during influenza infection Chromatin state dynamics during blood formation HHS Public Access, Science (80-. ) At the time we had no idea that these genes would represent the largest family of RNA genes produced in the genome. keywords: accessible; activation; active; addition; alternative; analysis; annotated; antisense; approach; asos; associated; association; available; binding; biological; biology; cancer; candidate; cas9; cell; cellular; chromatin; cis; coding; coding rnas; conservation; conserved; control; cox2; crispr; critical; data; databases; datasets; deletion; development; different; differentiation; direct; discovery; disease; dna; elements; encode; enhancer; example; expression; factors; fendrr; field; fig; function; gene; gene expression; genome; genomic; histone; human; immune; immunity; important; infection; inflammation; inflammatory; information; innate; insight; interactions; intergenic; isoforms; large; like; lncrna; localization; loci; long; long noncoding; loss; m6a; macrophages; mechanisms; membrane; method; methylation; modifications; molecular; molecule; motifs; mouse; mrna; multiple; murine; nanopore; neighboring; new; noncoding; noncoding rna; novel; nuclear; nucleotide; oligonucleotides; open; pacbio; pathway; peptides; phenotype; possible; post; potential; primary; profiling; promoter; protein; read; recent; receptors; recognition; regions; regulated; regulation; regulatory; rescue; response; review; ribosome; rna; rnai; rnas; role; secondary; sequence; sequencing; shape; short; single; sites; size; small; snps; species; specific; splice; splicing; stability; state; stimulation; structure; studies; study; subcellular; system; targeting; techniques; technologies; technology; tissue; tools; transcription; transcriptome; transcripts; translation; types; ube3a; understanding; variety; vivo; web; wide; xist cache: cord-350019-4nlbu54e.txt plain text: cord-350019-4nlbu54e.txt item: #634 of 647 id: cord-350212-448mv4lt author: Chiuppesi, Flavia title: Development of a Multi-Antigenic SARS-CoV-2 Vaccine Using a Synthetic Poxvirus Platform date: 2020-07-17 words: 7764 flesch: 43 summary: This feature greatly facilitates the insertion of heterologous antigen sequences into the sMVA DNA by highly e cient bacterial recombination techniques and to produce recombinant sMVA vaccine vectors. 2C) , suggesting similar capacity of sMVA and wtMVA to spread in MVA permissive cells. keywords: addition; analysis; ankara; anova; antibodies; antibody; antigen; assay; bhk; binding; biological; cef; cells; cellular; cient; ciently; clinical; coli; comparison; con; control; cov-2; cov2; covid-19; development; differences; dilution; dna; double; encoding; expression; fig; figure; following; fpv; fragments; genome; groups; hours; human; humoral; igg1; igg2a; immune; immunity; immunization; immunogenicity; incubation; infection; kbp; luciferase; mice; modi; moi; mouse; multiple; n antigen; nab; novel; pandemic; plate; platform; potent; poxvirus; protein; ratio; recombinant; recombination; replication; responses; results; rmed; rst; sars; sequences; sera; similar; single; sino; smva; smva fragments; speci; speci c; spike; staining; synthetic; system; titers; tukey; vaccine; vaccine vectors; vaccinia; vectors; viral; virus; way; wtmva cache: cord-350212-448mv4lt.txt plain text: cord-350212-448mv4lt.txt item: #635 of 647 id: cord-350807-qdq96723 author: Reckziegel, Maria title: Viruses and atypical bacteria in the respiratory tract of immunocompromised and immunocompetent patients with airway infection date: 2020-05-27 words: 4659 flesch: 37 summary: Seminars in respiratory and critical care medicine Respiratory syncytial virus: infection, detection, and new options for prevention and treatment Human metapneumovirus infection after allogeneic hematopoietic stem cell transplantation Laboratory diagnosis of infections in cancer patients: challenges and opportunities Impact of viral multiplex real-time PCR on management of respiratory tract infection: a retrospective cohort study Burden of human metapneumovirus infections in patients with cancer: risk factors and outcomes Infection in organ transplantation Antiviral therapy for respiratory viral infections in immunocompromised patients Respiratory viral infections in solid organ and hematopoietic stem cell transplantation Treatment of alpha and beta herpesvirus infections in solid organ transplant recipients Herpesvirus respiratory infections in immunocompromised patients: epidemiology, management, and outcomes Multiple viral infections after haploidentical hematopoietic stem cell transplantation in a child with acute lymphoblastic leukemia Virus-bacteria interactions: an emerging topic in human infection Viral-bacterial co-infections in the respiratory tract Bacterial pneumonia as an influenza complication An official American Thoracic Society research statement: noninfectious lung injury after hematopoietic stem cell transplantation: idiopathic pneumonia syndrome Metagenomic sequencing detects respiratory pathogens in hematopoietic cellular transplant patients Effective use of oral ribavirin for respiratory syncytial viral infections in allogeneic haematopoietic stem cell transplant recipients Consecutive yearly outbreaks of respiratory syncytial virus in a haemato-oncology ward and efficacy of infection control measures Parainfluenza 3 infections early after kidney or simultaneous pancreas-kidney transplantation In vivo persistence of human rhinoviruses in immunosuppressed patients The Virome of the human respiratory tract Generation of multipotent cell lines from a distinct population of male germ line stem cells Lack of p73 mutations and late occurrence of p73 allelic deletions in melanoma tissues and cell lines Establishment of PCR for the early diagnosis of herpes simplex encephalitis HSV-2 DNA persistence in astrocytes of the trigeminal root entry zone: double labeling by in situ PCR and immunohistochemistry Detection of varicella-zoster virus DNA by polymerase chain reaction in the cerebrospinal fluid of patients suffering from neurological complications associated with chicken pox or herpes zoster Evaluation of the polymerase chain reaction for diagnosis of herpes simplex virus encephalitis Monitoring of patients for cytomegalovirus after organ transplantation by centrifugation culture and PCR Laboratory diagnosis of herpes zoster Detection of herpes simplex virus (types 1 and 2) and human herpesvirus 6 DNA in human brain tissue by polymerase chain reaction Detection by PCR of HHV-6 and EBV DNA in blood and oropharynx of healthy adults and HIV-seropositives Comparison of a LightCyclerbased real-time PCR for quantitation of Epstein-Barr viral load in different clinical specimens with semiquantitative PCR Human parechovirus infections in Dutch children and the association between serotype and disease severity Prevalence, types, and RNA concentrations of human parechoviruses, including a sixth parechovirus type, in stool samples from patients with acute enteritis Screening respiratory samples for detection of human rhinoviruses (HRVs) and enteroviruses: comprehensive VP4-VP2 typing reveals high incidence and genetic diversity of HRV species C MEGA6: molecular evolutionary genetics analysis version 6.0 Viruses as sole causative agents of severe acute respiratory tract infections in children Seroprevalence of herpes simplex virus type 1 and type 2 in Thuringia Seroprevalence of varicella-zoster virus in the German population Evolution of EBV seroprevalence and primary infection age in a French hospital and a city laboratory network Cytomegalovirus seroprevalence among children and adolescents in Germany: data from the German health interview and examination survey for children and adolescents (KiGGS) Human herpesvirus 6 Herpesvirus infections in organ transplant recipients Clinical impact of HSV-1 detection in the lower respiratory tract from hospitalized adult patients Quantitative detection of Epstein-Barr virus in bronchoalveolar lavage from transplant and nontransplant patients Detection of herpesvirus EBV DNA in the lower respiratory tract of ICU patients: a marker of infection of the lower respiratory tract? Epstein-Barr virus-associated pneumonia in patients with posttransplant lymphoproliferative disease after hematopoietic stem cell transplantation The role of infection in interstitial lung diseases: a review Epstein-Barr virus-associated pneumonia and bronchiolitis obliterans syndrome in a lung transplant recipient Detection of Epstein-Barr virus DNA in peripheral blood is associated with the development of bronchiolitis obliterans syndrome after lung transplantation Chromosomally integrated human herpesvirus 6: questions and answers Human herpesvirus-6 infections in kidney, liver, lung, and heart transplantation: review Varicella pneumonia in adults Detection of respiratory viruses using a multiplex real-time PCR assay in Germany Respiratory syncytial virus infection-associated hospitalization in adults: a retrospective cohort study Human bocaviruses: possible etiologic role in respiratory infection Human bocavirus infection as a cause of severe acute respiratory tract infection in children Frequent detection of bocavirus DNA in German children with respiratory tract infections Current understanding of human enterovirus D68 Enterovirus and parechovirus infection in children: a brief overview A method to identify respiratory virus infections in clinical samples using next-generation sequencing Capnetz Study G (2015) keywords: acute; addition; adults; age; authors; bacteria; barr; bov; c.p; cell; children; cmv; contribution; data; detection; development; diagnosis; disease; dna; ebv; epstein; equivalents; fig; genome; germany; hematopoietic; herpesviruses; hhv-6; higher; hmpv; hrv; human; immunocompetent; immunocompromised; immunosuppression; infections; influenza; kit; like; line; lung; m.p; observed; organ; pathogens; patients; pcr; pneumoniae; polymerase; positive; presence; prevalence; qiagen; reactivation; recipients; relevant; respiratory; rsv; rti; samples; solid; specimens; stem; study; supplementary; symptoms; syncytial; table; time; tract; transplant; transplantation; viral; viruses; years cache: cord-350807-qdq96723.txt plain text: cord-350807-qdq96723.txt item: #636 of 647 id: cord-350890-ajxvjkmq author: Hsieh, Yi-Fan title: A real-time convective PCR machine in a capillary tube instrumented with a CCD-based fluorometer date: 2013-07-05 words: 4226 flesch: 41 summary: A novel real time PCR machine with a miniature spectrometer for fluorescence sensing in a micro liter volume glass capillary Development of a CCD-based fluorimeter for real-time PCR machine The authors deeply appreciate the financial support offered by the National Science Council (NSC) of Taiwan, Republic of China, under Contract Numbers NSC 99-2221-E-002-119-MY3 and NSC 99-2221-E-002-081-MY3 . His current research interests include the micro-fluidic system for biology and real time PCR system for DNA quantitative sequencing. keywords: amplification; capillary; capillary tube; ccd; commercial; control; convection; copies; cpcr; cpcr machine; cpcr prototype; cycle; different; dna; dna amplification; dna copies; dye; fig; flow; fluid; fluorescence; hbv; images; initial; initial dna; instrument; intensity; labeling; length; light; machine; measured; mix; model; national; natural; pattern; pcr; pcr mix; platform; polymerase; processing; prototype; prototype machine; quantification; reaction; real; research; results; sample; signal; single; study; system; temperature; template; test; thermal; time; time pcr; tube; university; values; velocity cache: cord-350890-ajxvjkmq.txt plain text: cord-350890-ajxvjkmq.txt item: #637 of 647 id: cord-351197-xv6ymc4l author: Cibulski, Samuel title: A plate of viruses: Viral metagenomics of supermarket chicken, pork and beef from Brazil date: 2020-09-28 words: 1713 flesch: 29 summary: The 539 role of swine in the generation of novel influenza viruses 542 Recombination in eukaryotic single stranded DNA viruses Torque teno virus (TTV) is highly prevalent in the European wild boar 546 (Sus scrofa) Detection patterns of 548 porcine parvovirus (PPV) and novel porcine parvoviruses 2 through 6 (PPV2-549 PPV6) in Polish swine farms Metagenomics and future perspectives in 551 virus discovery Prediction and prevention 554 of the next pandemic zoonosis Understanding 557 spoilage microbial community and spoilage mechanisms in foods of animal origin Marine phage genomics: The tip of the iceberg A third gyrovirus species in human 564 faeces High frequency and extensive genetic heterogeneity 567 of TTSuV1 and TTSuVk2a in PCV2-infected and non-infected domestic pigs and 568 wild boars from Uruguay Complete nucleotide and amino acid 571 sequences and genetic organization of porcine kobuvirus, a member of a new 572 species in the genus Kobuvirus, family Picornaviridae Prevalence of the Novel Torque Teno Sus Virus Species k2b from Pigs in 576 the United States and Lack of Association with Post-Weaning Multisystemic 577 Wasting Syndrome or Mulberry Heart Disease A field guide to eukaryotic circular single-580 stranded DNA viruses: Insights gained from metagenomics Behaviour of Brochothrix 583 thermosphacta in presence of other meat spoilage microbial groups. From these, 0.75% were assigned to eukaryotic viruses and 99.25% to 133 bacteriophages. keywords: beef; brazil; chicken; circular; classification; contigs; cress; dna; eukarya; eukaryotic; family; genomes; gyroviruses; gyv3; high; meat; metagenomics; new; novel; pigs; porcine; pork; quality; reads; sequences; sequencing; single; species; study; supplementary; sus; taxonomic; teno; torque; viral; virome; viruses cache: cord-351197-xv6ymc4l.txt plain text: cord-351197-xv6ymc4l.txt item: #638 of 647 id: cord-351295-4toxlskr author: Lanave, Gianvito title: Identification of hepadnavirus in the sera of cats date: 2019-07-23 words: 2668 flesch: 40 summary: Fisher's exact test was performed to the collection A to evaluate the correlation between DCH positive cats and retrovirus positive cats. The actual patho-biology of DCH in cats should be determined in order to understand better the patterns of DCH infection. keywords: animals; article; australian; blood; cats; clinical; collection; copies; damage; dch; diagnosis; diseases; dna; feline; felv; fig; genome; group; hbv; hepadnavirus; hepatic; hepatitis; human; infected; infection; information; large; license; liver; novel; patients; pcr; phylogenetic; positive; prevalence; sera; significant; strain; study; sydney; test; total; viral; virus; viruses; www.nature.com/scientificreports cache: cord-351295-4toxlskr.txt plain text: cord-351295-4toxlskr.txt item: #639 of 647 id: cord-352172-g0jiaenw author: Stoevesandt, Oda title: Protein microarrays: high-throughput tools for proteomics date: 2014-01-09 words: 7470 flesch: 28 summary: In contrast to screening systems such as yeast two-hybrid, the in vitro nature of protein arrays allows for the control of the interaction conditions, protein concentrations, PTMs and specific cofactor requirements [2] . In situ synthesis of protein array (see Figure Recently, a novel system has been introduced that converts a reusable DNA array into multiple protein array copies ( Figure 2C ) keywords: activities; activity; affinity; amplification; ana; antibodies; antibody; antigen; applications; approach; arrayed; arraying; binding; biomarker; cancer; capture; cell; changes; chip; coli; covalent; density; detection; different; discovery; disease; dna; enzyme; epitopes; events; example; expression; factors; figure; free; functional; generation; high; human; identification; immobilization; immobilized; individual; interactions; kinase; label; labeling; large; lysates; lysis; means; methods; microarrays; modifications; molecular; molecules; mrna; multiple; new; novel; number; pathway; phase; phosphorylation; pisa; potential; production; profiling; protein; protein arrays; protein microarrays; proteome; proteomics; purification; purified; range; rapid; reagents; recent; receptor; recombinant; responses; reverse; review; samples; scale; screening; sensitive; sera; serum; signaling; single; situ; slide; small; species; specific; specificity; spots; spotting; studies; surface; synthesis; systems; tagged; target; technologies; technology; throughput; time; tools; transcription; use; yeast cache: cord-352172-g0jiaenw.txt plain text: cord-352172-g0jiaenw.txt item: #640 of 647 id: cord-352619-s2x53grh author: Payne, Natalie title: Novel Circoviruses Detected in Feces of Sonoran Felids date: 2020-09-15 words: 3266 flesch: 37 summary: Phylogenetic analyses reveal that one circovirus species is more closely related to rodent associated circoviruses and the other to bat associated circoviruses, sharing highest genome-wide pairwise identity of approximately 70% and 63%, respectively. [12] and antibodies to CDV, feline panleukopenia virus, feline calicivirus, and feline enteric coronavirus have been detected in pumas from southern Arizona [13] , other viruses circulating in populations of Sonoran felids are largely unknown. keywords: acids; alignment; amino; arizona; associated; bat; bobcats; canine; cds; cdv; circoviruses; circular; conservation; cyclovirus; disease; diversity; dna; dogs; domestic; endangered; evolutionary; fecal; feces; felids; feline; file; genbank; genomes; habitat; high; hosts; identity; lions; metagenomic; new; novel; nucleotides; ocelots; pairwise; phylogenetic; populations; porcine; potential; protein; puma; region; rep; rodent; samples; scat; sequence; single; small; sonfela; sonoran; species; spillover; strand; usa; viral; wide; wildlife cache: cord-352619-s2x53grh.txt plain text: cord-352619-s2x53grh.txt item: #641 of 647 id: cord-352891-ljmkqdzx author: Parang, Keykavous title: Comparative Antiviral Activity of Remdesivir and Anti-HIV Nucleoside Analogs against Human Coronavirus 229E (HCoV-229E) date: 2020-05-17 words: 3177 flesch: 47 summary: 3-azido-2,3-dideoxythymidine (AZT) Treatment of chronic hepatitis B in HIV co-infected patients Emtricitabine, a new antiretroviral agent with activity against HIV and hepatitis B virus Emtricitabine (FTC) for the treatment of HIV infection Synthesis and anti-HIV activities of phosphate triester derivatives of 3 -fluoro-2 ,3 -dideoxythymidine and 3 -azido-2 ,3 -dideoxythymidine Synthesis and biological evaluation of fatty acyl ester derivatives of 2 ,3 -didehydro-2 ,3 -dideoxythymidine Synthesis and biological evaluation of fatty acyl ester derivatives of (-)-2 ,3 -dideoxy-3 -thiacytidine Emtricitabine prodrugs with improved anti-HIV activity and cellular uptake Structure of the RNA-dependent RNA polymerase from COVID-19 virus We acknowledge ImQuest Biosciences for assistance in conducting the antiviral assays. Human Coronaviruses: A Review of Virus-Host Interactions Coronavirus 229E-related pneumonia in immunocompromised patients Clinical and molecular epidemiological features of coronavirus HKU1-associated community-acquired pneumonia Human coronaviruses A Rare Case of Human Coronavirus 229E Associated with Acute Respiratory Distress Syndrome in a Healthy Adult Prophylactic and therapeutic remdesivir (GS-5734) treatment in the rhesus macaque model of MERS-CoV infection Broad-spectrum antiviral GS-5734 inhibits both epidemic and zoonotic coronaviruses Compassionate Use of Remdesivir for Patients with Severe Covid-19 Coronavirus Susceptibility to the Antiviral Remdesivir (GS-5734) Is Mediated by the Viral Polymerase and the Proofreading Exoribonuclease Learning from the Past: Possible Urgent Prevention and Treatment Options for Severe Acute Respiratory Infections Caused by 2019-nCoV Arguments in favour of remdesivir for treating SARS-CoV-2 infections Broad spectrum antiviral remdesivir inhibits human endemic and zoonotic deltacoronaviruses with a highly divergent RNA dependent RNA polymerase RNA-dependent DNA polymerases Anti-HIV activity of adefovir (PMEA) and PMPA in combination with antiretroviral compounds: In vitro analyses Anti-human immunodeficiency virus activity and cellular metabolism of a potential prodrug of the acyclic nucleoside phosphonate 9-R-(2-phosphonomethoxypropyl)adenine (PMPA) 2 -deoxy-4 -C-ethynyl-2-fluoroadenosine: A nucleoside reverse transcriptase inhibitor with highly potent activity against wide spectrum of HIV-1 strains, favorable toxic profiles, and stability in plasma Concise synthesis of the anti-HIV nucleoside EFdA 3 -substituted 2 ,3 -dideoxynucleoside analogues as potential anti-HIV (HTLV-III/LAV) agents Synthesis, in vitro anti-HIV activity, and biological stability of 5 -O-myristoyl analogue derivatives of 3 -fluoro-2 ,3 -dideoxythymidine (FLT) as potential bifunctional prodrugs of FLT In vitro anti-hepatitis B virus activities of 5-O-myristoyl analogue derivatives of 3-fluoro-2,3-dideoxythymidine (FLT) and keywords: active; activity; acute; acyl; agents; antiviral; assay; broad; cells; clinical; compounds; conjugates; coronaviruses; covid-19; dependent; dna; drug; evaluation; fatty; flt; ftc; hcov-229e; hiv; human; mers; nrtis; nucleoside; patients; polymerase; potential; prodrug; rdrp; remdesivir; respiratory; reverse; rna; sars; severe; spectrum; syndrome; synthesis; transcriptase; treatment; xtt cache: cord-352891-ljmkqdzx.txt plain text: cord-352891-ljmkqdzx.txt item: #642 of 647 id: cord-353297-jizitnfl author: Meyer, R.F. title: Viruses and Bioterrorism date: 2008-07-30 words: 3819 flesch: 40 summary: between virus names and species names would be to change the current names of virus species into nonlatinized binomial names. Given that the common names of viruses are used repeatedly in scientific texts there is a need for abbreviating them and the ICTV has published several lists of recommended acronyms for virus names. keywords: aerosol; agents; animals; attack; binomial; biological; bioterrorism; blood; british; cell; century; concern; countermeasures; culture; development; disease; dissemination; dna; effective; fever; filoviruses; genetic; health; high; hiv; host; humans; infected; infection; laboratory; large; long; major; medical; names; new; number; outbreaks; pandemic; person; plants; population; potential; production; public; rapid; response; rna; sequences; smallpox; south; species; table; threat; transmission; vaccine; variola; viral; viral agents; virus; viruses; warfare; weapons cache: cord-353297-jizitnfl.txt plain text: cord-353297-jizitnfl.txt item: #643 of 647 id: cord-353389-5dtwje1b author: Han, Guojun title: Absolute and Relative Quantification of Multiplex DNA Assays Based on an Elemental Labeling Strategy date: 2013-01-28 words: 3312 flesch: 48 summary: First, DNA targets were added to the suspension array of capture-probe functionalized magnetic microparticles (MMPs), and mixed with elemental labeling DNA probes. Importantly, both absolute and relative quantification could be performed for multiplex analysis of DNA targets. keywords: absolute; abundance; analysis; assay; capture; dilution; dna; dna targets; dota; dps; elemental; elements; figure; hida; hybridization; icp; information; isotope; labeling; mass; measurement; method; multiplex; multiplexing; pmol; probes; quantification; ratio; rees; relative; report; rps; sample; specific; tags; targets cache: cord-353389-5dtwje1b.txt plain text: cord-353389-5dtwje1b.txt item: #644 of 647 id: cord-354000-jxqskt4k author: Warren, Cody J. title: The Antiviral Restriction Factors IFITM1, 2 and 3 Do Not Inhibit Infection of Human Papillomavirus, Cytomegalovirus and Adenovirus date: 2014-05-14 words: 4440 flesch: 41 summary: IFN-b exhibits strong anti-proliferative effects on human cancer cells at concentrations far lower than those for IFN-a [50] . Despite high expression (Fig. 2B) , IFITM1, 2 or 3 did not inhibit virus infection ( Fig. 2A) . keywords: actin; ad5; adenovirus; antiviral; cancer; capsid; cells; cervical; control; cov; data; degradation; dna; effect; endosomes; enhanced; entry; epithelial; expression; factors; fig; fusion; genes; gfp; hacat; hcmv; hela; high; host; hpv; hpv16; human; ifitm1; ifn; immune; infection; infectivity; inhibit; interferon; invitrogen; isgs; keratinocytes; knockdown; levels; lines; low; lucf; mechanisms; mrna; overexpression; papillomavirus; pathway; primary; proteins; qpcr; responses; restriction; results; rna; role; sars; shrna; specific; treatment; type; vector; viral; virus; viruses cache: cord-354000-jxqskt4k.txt plain text: cord-354000-jxqskt4k.txt item: #645 of 647 id: cord-354990-2hx7f6ny author: ZAKIAN, VIRGINIA A. title: Telomere formation in yeast date: 1989 words: 699 flesch: 41 summary: Because the resolution reaction is excluded unequivocally by DNA sequence data , telomere-telomere recombination remains the only reasonable explanation for the transfer of telomeric sequences that we have observed. SIR-We recently demonstrated that dur-, ing formation of new telomeres in the yeast Saccharomyces cerevisiae, telomeric sequences are often transferred between DNA termini'. keywords: codon; data; dna; explanation; genomes; order; resolution; rna; sequence; serine; telomere; telomeric; transfer; viral; yeast cache: cord-354990-2hx7f6ny.txt plain text: cord-354990-2hx7f6ny.txt item: #646 of 647 id: cord-355913-fhvt1ht1 author: Burrell, Christopher J. title: Virus Replication date: 2016-11-11 words: 9867 flesch: 41 summary: The situation is quite different for RNA viruses as these are unique having genetic information coded as RNA. For RNA viruses, the regulation of transcription is, on the whole, not as complex as is the case for DNA viruses. keywords: acid; adenovirus; amino; assay; assembly; attachment; binding; budding; capsid; case; cell; cellular; changes; chapter; complex; culture; cycle; cytoplasm; dependent; development; different; dna; dna replication; domain; double; early; entry; enveloped; essential; events; example; expression; family; fig; form; functions; fusion; genes; genome; glycoprotein; herpesviruses; host; host cell; hours; human; important; infection; influenza; initiation; internal; intracellular; long; mammalian; mechanisms; membrane; molecule; mrna; negative; new; non; nucleic; nucleocapsid; nucleus; number; order; particles; particular; period; plaque; plasma; polymerase; positive; primary; primer; proceeds; process; production; proteins; receptors; regulation; regulatory; release; replication; residues; rna; rna polymerase; rna viruses; sample; sense; sequence; short; single; site; species; splicing; strand; strategies; structure; study; surface; synthesis; template; transcribed; transcription; transcripts; translation; type; understanding; viral; viral genome; viral proteins; viral rna; virion; virology; virus replication; viruses cache: cord-355913-fhvt1ht1.txt plain text: cord-355913-fhvt1ht1.txt item: #647 of 647 id: cord-356291-0x1jhya6 author: Tang, Liang title: Three-dimensional structure of the bacteriophage P22 tail machine date: 2005-06-02 words: 6202 flesch: 52 summary: No syringes please, ejection of phage T7 DNA from the virion is enzyme driven Structural transformations accompanying the assembly of bacteriophage P22 portal protein rings in vitro The UL6 gene product forms the portal for entry of DNA into the herpes simplex virus capsid Structure of a viral DNA gatekeeper at 10 Å resolution by cryo-electron microscopy Studying large viruses The PredictProtein server Characterization of bacteriophage P22 tailspike mutant proteins with altered endorhamnosidase and capsid assembly activities Models of bacteriophage DNA packaging motors Herpes simplex virus DNA cleavage and packaging proteins associate with the procapsid prior to its maturation Structure of the bacteriophage phi29 DNA packaging motor Crystal structure of phage P22 tailspike protein complexed with Salmonella sp. O-antigen receptors Phage P22 tailspike protein: crystal structure of the head-binding domain at 2.3 Å , fully refined structure of the endorhamnosidase at 1.56 Å resolution, and the molecular basis of O-antigen recognition and cleavage Structure of the uncleaved human H1 hemagglutinin from the extinct 1918 influenza virus Image reconstruction reveals the complex molecular organization of adenovirus Steps in the stabilization of newly packaged DNA during phage P22 morphogenesis Structure of bacteriophage T4 fibritin: The map has been deposited with EMDB database at the European Bioinformatics Institute with an accession code of EMD-1119. Insights into assembly from structural analysis of bacteriophage PRD1 Tailed bacteriophages: the order caudovirales Cryoelectron microscopy of viruses Bacteriophage P22 tail accessory factor gp26 is a long triple-stranded coiled-coil Purification and organization of the gene 1 portal protein required for phage P22 DNA packaging The DNA translocating vertex of dsDNA bacteriophage Structure and functions of the bacteriophage P22 tail protein Mechanism of head assembly and DNA encapsulation in Salmonella phage p22. keywords: analysis; assembly; axis; bacteriophage; bacteriophage p22; binding; capsid; cell; channel; crown; cryoem; data; density; diameter; dimensional; dna; domain; electron; end; et al; figure; fold; form; functions; gp10; gp15; gp26; gp4; guasch; head; high; host; infection; king; length; like; long; machine; map; mass; membrane; micrographs; microscopy; molecular; needle; opening; orlova; p22; p22 portal; p22 tail; packaging; particles; phage; phi29; portal; portal protein; protein; ray; receptor; reconstruction; residues; resolution; spp1; stalk; strauss; structure; symmetry; tail; tail machine; tail tube; tailspike; terminal; tube; virus; wing cache: cord-356291-0x1jhya6.txt plain text: cord-356291-0x1jhya6.txt