item: #1 of 435 id: cord-000282-phepjf55 author: Hsieh, Ying-Hen title: On epidemic modeling in real time: An application to the 2009 Novel A (H1N1) influenza outbreak in Canada date: 2010-11-05 words: 4047 flesch: 41 summary: This variant of Richards model provides a systematic method of determining whether an outbreak is single-or multi-phase in nature, and can be used to distinguish true turning points from peaks and valleys resulting from random variability in case counts. Inasmuch as Richards model analyzes the general trends of an epidemic (e.g., turning point, reproductive number, etc.), it can be used to fit any epidemiological time series for a given disease process, as long as the rate of change in the recorded outcome is proportional to changes in the true number of cases. keywords: data; epidemic; model; outbreak; phase; richards; time; turning cache: cord-000282-phepjf55.txt plain text: cord-000282-phepjf55.txt item: #2 of 435 id: cord-000332-u3f89kvg author: Broeck, Wouter Van den title: The GLEaMviz computational tool, a publicly available software to explore realistic epidemic spreading scenarios at the global scale date: 2011-02-02 words: 7460 flesch: 38 summary: The 2009 H1N1 influenza pandemic highlighted the importance of computational epidemic models for the real-time analysis of the health emergency related to the global spreading of new emerging infectious diseases [1] [2] [3] . The GLEaMviz proxy middleware is the server component that mediates between clients and simulation engines. keywords: client; data; disease; epidemic; gleamviz; influenza; mobility; model; pandemic; population; results; server; simulation; tool; user cache: cord-000332-u3f89kvg.txt plain text: cord-000332-u3f89kvg.txt item: #3 of 435 id: cord-000759-36dhfptw author: Uribe-Sánchez, Andrés title: Predictive and Reactive Distribution of Vaccines and Antivirals during Cross-Regional Pandemic Outbreaks date: 2011-06-05 words: 6946 flesch: 38 summary: A population-dynamic model for evaluating the potential spread of drug-resistant Influenza virus infections during community-based use of antivirals Economic analysis of Influenza vaccination and antiviral treatment for healthy working adults Antiviral resistance and the control of pandemic Influenza A small community model for the transmission of infectious diseases: comparison of School closure as an intervention in individual-based models of an Influenza pandemic Measures against transmission of pandemic H1N1 Influenza in Japan in 2009: simulation model Responding to simulated pandemic Simulation suggests that rapid activation of social distancing can arrest epidemic development due to a novel strain of Influenza Analysis of the effectiveness of interventions used during the 2009 A/H1N1 Influenza pandemic On estimation of vaccine efficacy using validation samples with selection bias Targeted social distancing design for pandemic Influenza Living with Influenza: impacts of government imposed and voluntarily selected interventions Containing pandemic Influenza with antiviral agents Reducing the impact of the next Influenza pandemic using household-based public health interventions Transmissibility of 1918 pandemic Influenza Finding optimal vaccination strategies for pandemic Influenza using genetic algorithms Modeling the worldwide spread of pandemic Influenza: baseline case and containment interventions Using Influenza-like illness data to reconstruct an Influenza outbreak FluTE, a publicly available stochastic Influenza epidemic simulation model Models of Infectious Disease Agent Study Strategies for containing an emerging Influenza pandemic in Southeast Asia Containing pandemic Influenza at the source Strategies for mitigating an Influenza pandemic Mitigation strategies for pandemic Influenza in the United States Modelling disease outbreaks in realistic urban social networks Modeling targeted layered containment of an Influenza pandemic in the United States Report from the Models of Infectious Disease Agent Study (MIDAS) Steering Committee Modeling community containment for pandemic Influenza: a letter report Interim pre-pandemic planning guidance: community strategy for pandemic Influenza mitigation in the United States The economic impact of pandemic Influenza in the United States: priorities for intervention A large scale simulation model for assessment of societal risk and development of dynamic mitigation strategies Pandemic Influenza: quarantine, isolation and social distancing Spatial considerations for the allocation of pre-pandemic Influenza vaccination in the United States Statistical Models and Methods for Lifetime Data Mathematical Epidemiology of Infectious Diseases: Model Building, Analysis and Interpretation Deaths from bacterial pneumonia during 1918-19 Influenza pandemic CDC Influenza operational plan WHO guidelines on the use of vaccine and antivirals during Influenza pandemics Influenza A(H1N1) Monovalent Vaccine Public response to community mitigation measures for pandemic Influenza Precautionary behavior in response to perceived threat of pandemic Influenza The immediate psychological and occupational impact of the 2003 SARS outbreak in a teaching hospital A infections Initial human transmission dynamics of the pandemic (H1N1) 2009 virus in North America Quantifying the routes of transmission for pandemic Influenza Little evidence for genetic susceptibility to Influenza A (H5N1) from family clustering data Estimating variability in the transmission of severe acute respiratory syndrome to household contacts in Hong Kong, China The transmissibility and control of pandemic Influenza a (H1N1) virus Detecting human-to-human transmission of avian Influenza A (H5N1) keywords: antiviral; availability; cost; impact; influenza; model; outbreak; pandemic; region; regional; resource; simulation; total cache: cord-000759-36dhfptw.txt plain text: cord-000759-36dhfptw.txt item: #4 of 435 id: cord-001603-vlv8x8l8 author: Ul-Haq, Zaheer title: 3D Structure Prediction of Human β1-Adrenergic Receptor via Threading-Based Homology Modeling for Implications in Structure-Based Drug Designing date: 2015-04-10 words: 5607 flesch: 47 summary: A new era in the treatment of heart failure Pharmacogenetics of the human beta-adrenergic receptors Predicting molecular interactions in silico: I. A guide to pharmacophore identification and its applications to drug design Virtual screening for SARS-CoV protease based on KZ7088 pharmacophore points Structure-based 3D-QSAR models and dynamics analysis of novel N-benzyl pyridinone as p38α MAP kinase inhibitors for anticytokine activity ClustalW and Clus-talX version 2.0 Comparison of composer and ORCHESTRAR SYBYL Molecular Modeling Software version 7.3, Tripos Associates I-TASSER: a unified platform for automated protein structure and function prediction PROCHECK: a program to check the stereochemical quality of protein structures VERIFY3D: assessment of protein models with three-dimensional profiles Verification of protein structures: patterns of nonbonded atomic interactions Surflex: fully automatic flexible molecular docking using a molecular similarity-based search engine FRED pose prediction and virtual screening accuracy GOLD version 3.0. Salt bridges play important roles in protein structure and function. keywords: alignment; binding; docking; drug; homology; hsβadr1; ligand; model; protein; receptor; residues; sequence; structure cache: cord-001603-vlv8x8l8.txt plain text: cord-001603-vlv8x8l8.txt item: #5 of 435 id: cord-001687-paax8pqh author: Henkel, Jan title: Bone Regeneration Based on Tissue Engineering Conceptions — A 21st Century Perspective date: 2013-09-25 words: 15793 flesch: 22 summary: As summarised above, adequate porosity and pore size is crucial for bone tissue engineering scaffolds in order to allow sufficient vascularisation and enable a supply of body fluids throughout the TEC. There are currently thousands of research papers and reviews available on bone tissue engineering, but there is still a major discrepancy between scientific research efforts on bone tissue engineering and the clinical application of such strategies. keywords: animal; applications; biomaterials; bone; bone graft; bone tissue; calcium; cells; defect; development; formation; fusion; graft; growth; materials; models; new; phosphate; pore; properties; regeneration; research; review; scaffold; surface; techniques; tissue; tissue engineering; use cache: cord-001687-paax8pqh.txt plain text: cord-001687-paax8pqh.txt item: #6 of 435 id: cord-001921-73esrper author: Lin, Cheng-Yung title: Zebrafish and Medaka: new model organisms for modern biomedical research date: 2016-01-28 words: 7754 flesch: 36 summary: Light and dark-Red fish, blue fish and Glow-in-dark fish Modification of bacterial artificial chromosomes through chi-stimulated homologous recombination and its application in zebrafish transgenesis Artificial chromosome transgenesis reveals longdistance negative regulation of rag1 in zebrafish Multiple upstream modules regulate zebrafish myf5 expression Use of the GAL4-UAS technique for targeted gene expression in zebrafish UDP-glucose dehydrogenase required for cardiac valve formation in zebrafish Activation of Notch signaling pathway precedes heart regeneration in zebrafish K-ATPase is essential for embryonic heart development in the zebrafish The embryonic vertebrate heart tube is a dynamic suction pump Four-dimensional cardiac imaging in living embryos via postacquisition synchronization of nongated slice sequences Zebrafish cardiac development requires a conserved secondary heart field Tbx1 is required for second heart field proliferation in zebrafish Novel regulatory sequence − 82/-62 functions as a key element to drive the somite-specificity of zebrafish myf-5 Foxd3 mediates zebrafish myf5 expression during early somitogenesis FoxD5 mediates anterior-posterior polarity through upstream modulator Fgf signaling during zebrafish somitogenesis Inactivation of zebrafish mrf4 leads to myofibril misalignment and motor axon growth disorganization Novel cis-element in intron 1 represses somite expression of zebrafish myf-5 MicroRNA-3906 regulates fast muscle differentiation through modulating the target gene homer-1b in zebrafish embryos Novel intronic microRNA represses zebrafish myf5 promoter activity through silencing dickkopf-3 gene Zebrafish Dkk3a protein regulates the activity of myf5 promoter through interaction with membrane receptor integrin α6b dickkopf-3-related gene regulates the expression of zebrafish myf5 gene through phosphorylated p38a-dependent Smad4 activity Myogenic regulatory factors Myf5 and Myod function distinctly during craniofacial myogenesis of zebrafish The transcription factor Six1a plays an essential role in the craniofacial myogenesis of zebrafish Normal function of Myf5 during gastrulation is required for pharyngeal arch cartilage development in zebrafish embryos Differential requirements for myogenic regulatory factors distinguish medial and lateral somitic, cranial and fin muscle fibre populations Retina-specific ciselements and binding nuclear proteins of carp rhodopsin gene Egr1 gene knockdown affects embryonic ocular development in zebrafish The embryonic expression patterns and the knockdown phenotypes of zebrafish ADP-ribosylation factor-like 6 interacting protein gene Arl6ip1 plays a role in proliferation during zebrafish retinogenesis Zebrafish arl6ip1 is required for neural crest development during embryogenesis Ras-related nuclear protein is required for late developmental stages of retinal cells in zebrafish eyes Transgenic zebrafish model to study translational control mediated by upstream open reading frame of human chop gene A parsimonious model for gene regulation by miRNAs Gene silencing by microRNAs: contributions of translational repression and mRNA decay Regulation of mRNA translation and stability by microRNAs MicroRNAs: target recognition and regulatory functions microRNA target predictions in animals Labeled microRNA pull-down assay system: an experimental approach for high-throughput identification of microRNAtarget mRNAs miR-1 and miR-206 regulate angiogenesis by modulating VegfA expression in zebrafish MiR-1 and miR-206 target different genes to have opposing roles during angiogenesis in zebrafish embryos Concise review: new frontiers in microRNA-based tissue regeneration Administration of microRNA-210 promotes spinal cord regeneration in mice Regulation of neonatal and adult mammalian heart regeneration by the miR-15 family Integrated analyses of zebrafish miRNA and mRNA expression profiles identify miR-29b and miR-223 as potential regulators of optic nerve regeneration Transplantation and in vivo imaging of multilineage engraftment in zebrafish bloodless mutants Hematopoiesis: an evolving paradigm for stem cell biology Transcriptional regulation of hematopoietic stem cell development in zebrafish Mutantspecific gene programs in the zebrafish Prostaglandin E2 regulates vertebrate haematopoietic stem cell homeostasis Prostaglandin E2 enhances human cord blood stem cell xenotransplants and shows long-term safety in preclinical nonhuman primate transplant models From Zebrafish to human: modular medical models Amiodarone induces overexpression of similar to versican b to repress the EGFR/Gsk3b/Snail signaling axis during cardiac valve formation of zebrafish embryos Cancer metastasis and EGFR signaling is suppressed by Amiodarone-induced Versican V2 In vivo recording of adult zebrafish electrocardiogram and assessment of drug-induced QT prolongation Zebrafish model for human long QT syndrome In-vitro recording of adult zebrafish heart electrocardiogram -a platform for pharmacological testing Liver development and cancer formation in zebrafish Zebrafish as a cancer model Zebrafish modelling of leukaemias Catch of the day: zebrafish as a human cancer model Zebrafish as a cancer model system A keratin 18 transgenic zebrafish Tg(k18(2.9):RFP) treated with inorganic arsenite reveals visible overproliferation of epithelial cells BRAF mutations are sufficient to promote nevi formation and cooperate with p53 in the genesis of melanoma The pathogenesis of cancer metastasis: the 'seed and soil' hypothesis revisited Zebrafish xenotransplantation as a tool for in vivo cancer study Metastatic behaviour of primary human tumours in a zebrafish xenotransplantation model Calpain 2 is required for the invasion of glioblastoma cells in the zebrafish brain microenvironment Distinct contributions of angiogenesis and vascular co-option during the initiation of primary microtumors and micrometastases Visualizing extravasation dynamics of metastatic tumor cells A novel zebrafish xenotransplantation model for study of glioma stem cell invasion Quantitative phenotyping-based in vivo chemical screening in a zebrafish model of leukemia stem cell xenotransplantation Zebrafish-based systems pharmacology of cancer metastasis Discovering chemical modifiers of oncogene-regulated hematopoietic differentiation STK-1, the human homolog of Flk-2/Flt-3, is selectively expressed in CD34+ human bone marrow cells and is involved in the proliferation of early progenitor/ stem cells Functions of flt3 in zebrafish hematopoiesis and its relevance to human acute myeloid leukemia Cancer-associated metabolite 2-hydroxyglutarate accumulates in acute myelogenous leukemia with isocitrate dehydrogenase 1 and 2 mutations Regulation of cancer cell metabolism Functions of idh1 and its mutation in the regulation of developmental hematopoiesis in zebrafish Inducible and repressable oncogene-addicted hepatocellular carcinoma in Tet-on xmrk transgenic zebrafish An inducible kras (V12) transgenic zebrafish model for liver tumorigenesis and chemical drug screening A transgenic zebrafish liver tumor model with inducible Myc expression reveals conserved Myc signatures with mammalian liver tumors Xmrk, kras and myc transgenic zebrafish liver cancer models share molecular signatures with subsets of human hepatocellular carcinoma Gaining translational momentum: more zebrafish models for neuroscience research Zebrafish as an emerging model for studying complex brain disorders Zebrafish models for translational neuroscience research: from tank to bedside Zebrafish models of major depressive disorders Threedimensional neurophenotyping of adult zebrafish behavior Aquatic blues: modeling depression and antidepressant action in zebrafish Social modulation of brain monoamine levels in zebrafish Can zebrafish learn spatial tasks? keywords: cancer; cells; development; embryos; example; expression; gene; heart; human; line; mir-1; mir-206; model; myf5; promoter; transgenic; vegfaa; zebrafish cache: cord-001921-73esrper.txt plain text: cord-001921-73esrper.txt item: #7 of 435 id: cord-002169-7kwlteyr author: Wu, Nicholas C title: Adaptation in protein fitness landscapes is facilitated by indirect paths date: 2016-07-08 words: 9324 flesch: 46 summary: key: cord-002169-7kwlteyr authors: Wu, Nicholas C; Dai, Lei; Olson, C Anders; Lloyd-Smith, James O; Sun, Ren title: Adaptation in protein fitness landscapes is facilitated by indirect paths date: 2016-07-08 journal: nan DOI: 10.7554/elife.16965 sha: doc_id: 2169 cord_uid: 7kwlteyr The structure of fitness landscapes is critical for understanding adaptive protein evolution. Rapid construction of empirical RNA fitness landscapes Empirical fitness landscapes reveal accessible evolutionary paths A quantitative highresolution genetic profile rapidly identifies sequence determinants of hepatitis C viral fitness and drug sensitivity RNA-peptide fusions for the in vitro selection of peptides and proteins Exploring protein fitness landscapes by directed evolution Crystal structure of the C2 fragment of streptococcal protein G in complex with the Fc domain of human IgG Streptococcal protein G. Gene structure and protein binding properties Natural selection and the concept of a protein space Landscapes and their correlation functions Evolvability as a function of purifying selection in TEM-1 blactamase Quantitative analyses of empirical fitness landscapes Hidden Randomness between Fitness Landscapes Limits Reverse Evolution The inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin Epistasis constrains mutational pathways of hemoglobin adaptation in high-altitude pikas Genetic background affects epistatic interactions between two beneficial mutations Fourier and Taylor series on fitness landscapes Darwinian evolution can follow only very few mutational paths to fitter proteins Should evolutionary geneticists worry about higher-order epistasis? keywords: adaptation; amino; bypass; epistasis; et al; figure; fitness; landscape; model; order; paths; protein; sequence; sign; supplement; variants cache: cord-002169-7kwlteyr.txt plain text: cord-002169-7kwlteyr.txt item: #8 of 435 id: cord-002474-2l31d7ew author: Lv, Yang title: Actual measurement, hygrothermal response experiment and growth prediction analysis of microbial contamination of central air conditioning system in Dalian, China date: 2017-04-03 words: 4939 flesch: 46 summary: Thus, air conditioning system should eliminate negative impact caused by its own, on this basis, it may relate to positive effect of the ventilation. The aim of the present study was to clarify characteristics of the microorganisms in air conditioning systems, and the study would be helpful for policymakers and HVAC engineers to develop the appropriate strategies and to conduct the bacteria and fungi characteristic assessments in HVAC system. keywords: air; air conditioning; analysis; fungal; growth; microbial; model; sample; species; system; temperature; unit cache: cord-002474-2l31d7ew.txt plain text: cord-002474-2l31d7ew.txt item: #9 of 435 id: cord-003243-u744apzw author: Michael, Edwin title: Quantifying the value of surveillance data for improving model predictions of lymphatic filariasis elimination date: 2018-10-08 words: 10328 flesch: 27 summary: key: cord-003243-u744apzw authors: Michael, Edwin; Sharma, Swarnali; Smith, Morgan E.; Touloupou, Panayiota; Giardina, Federica; Prada, Joaquin M.; Stolk, Wilma A.; Hollingsworth, Deirdre; de Vlas, Sake J. title: Quantifying the value of surveillance data for improving model predictions of lymphatic filariasis elimination date: 2018-10-08 journal: PLoS Negl Trop Dis DOI: 10.1371/journal.pntd.0006674 sha: doc_id: 3243 cord_uid: u744apzw BACKGROUND: The present results further pinpoint the crucial need for longitudinal infection surveillance data for enhancing the precision and accuracy of model predictions of the intervention durations required to achieve parasite elimination in an endemic location. keywords: data; information; mda; model; parameter; post; predictions; prevalence; scenario; site; table cache: cord-003243-u744apzw.txt plain text: cord-003243-u744apzw.txt item: #10 of 435 id: cord-003377-9vkhptas author: Wu, Tong title: The live poultry trade and the spread of highly pathogenic avian influenza: Regional differences between Europe, West Africa, and Southeast Asia date: 2018-12-19 words: 4969 flesch: 43 summary: The response variable in all models estimated was a log transformation of the number of H5N1 poultry outbreaks in a given country in a given year, obtained from the Emergency Prevention System for Animal Health (EMPRES), a joint project of the FAO and OIE The distribution of H5N1 poultry outbreaks between 2004-2016 across the member states of ASEAN, ECOWAS, and EU. keywords: avian; biosecurity; bloc; ecowas; h5n1; influenza; model; poultry; risk; trade cache: cord-003377-9vkhptas.txt plain text: cord-003377-9vkhptas.txt item: #11 of 435 id: cord-004157-osol7wdp author: Ma, Junling title: Estimating epidemic exponential growth rate and basic reproduction number date: 2020-01-08 words: 5475 flesch: 55 summary: key: cord-004157-osol7wdp authors: Ma, Junling title: Estimating epidemic exponential growth rate and basic reproduction number date: 2020-01-08 journal: Infect Dis Model DOI: 10.1016/j.idm.2019.12.009 sha: doc_id: 4157 cord_uid: osol7wdp The initial exponential growth rate of an epidemic is an important measure of the severeness of the epidemic, and is also closely related to the basic reproduction number. The results is summarized in below: logistic model Richards model coverage probability 43% 65% That is, even though the logistic model gives a narrow confidence interval, its coverage probability is low. keywords: epidemic; exponential; growth; model; number; rate; time cache: cord-004157-osol7wdp.txt plain text: cord-004157-osol7wdp.txt item: #12 of 435 id: cord-004332-99lxmq4u author: Zhao, Shi title: Large-scale Lassa fever outbreaks in Nigeria: quantifying the association between disease reproduction number and local rainfall date: 2020-01-10 words: 4198 flesch: 48 summary: We report clear evidence of rainfall impacts on LF epidemics in Nigeria and quantify the impact. LF epidemics typically start in November and last until May of the following year, with the majority of cases occurring in the first quarter of the following year, in addition to sporadic cases reported throughout the year. keywords: cases; epidemics; growth; model; number; rainfall; reproduction; time cache: cord-004332-99lxmq4u.txt plain text: cord-004332-99lxmq4u.txt item: #13 of 435 id: cord-004416-qw6tusd2 author: Krishna, Smriti M. title: Development of a two-stage limb ischemia model to better simulate human peripheral artery disease date: 2020-02-26 words: 8274 flesch: 42 summary: Low capillary density has been reported in the gastrocnemius muscle of PAD patients and animal HLI models and associated with functional impairment 38, 39 . Twenty eight days after HLI induction, the concentrations of circulating cytokines were similar in the two models studied. keywords: angiogenesis; artery; blood; exercise; fig; gastrocnemius; hli model; ischemia; limb; mice; model; muscle; sham; stage; stage hli; test; treadmill; vegf cache: cord-004416-qw6tusd2.txt plain text: cord-004416-qw6tusd2.txt item: #14 of 435 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: acid; actin; activation; activity; affinity; aggregation; amino; amyloid; analysis; applications; approach; assembly; associated; atomic; bilayer; binding; biological; cancer; cell; cell membrane; cell surface; chain; changes; channel; charge; chemical; cholesterol; complex; complexes; composition; compounds; concentration; conditions; conformational; control; correlation; data; delivery; detection; development; diffusion; distribution; dna; domain; drug; dynamics; effect; electron; energy; environment; enzyme; experiments; expression; fast; field; fluorescence; force; formation; free; function; fusion; gene; group; human; hydrophobic; imaging; increase; influence; institute; interaction; key; kinetics; laser; level; ligand; light; lipid; lipid membranes; liposomes; living; magnetic; major; measurements; mechanism; membrane; membrane binding; membrane interaction; membrane protein; membrane structure; membrane surface; method; microscopy; model; model membrane; molecular; molecules; nanoparticles; native; network; new; nmr; non; novel; number; order; organization; parameters; peptide; phase; plasma membrane; potential; presence; processes; properties; protein; protein complex; protein dynamics; protein interactions; protein structure; proton; range; rate; ray; reaction; receptor; region; regulation; research; residues; resolution; response; results; role; scattering; self; signal; simulations; sites; size; species; specific; spectra; spectroscopy; stability; state; structure; studies; study; substrate; surface; system; techniques; temperature; terminal; time; transfer; transition; transport; type; understanding; university; use; vesicles; vitro; vivo; water; work cache: cord-004584-bcw90f5b.txt plain text: cord-004584-bcw90f5b.txt item: #15 of 435 id: cord-005033-voi9gu0l author: Xuan, Huiyu title: A CA-based epidemic model for HIV/AIDS transmission with heterogeneity date: 2008-06-07 words: 6569 flesch: 53 summary: Ignoring the mobility of agents in epidemic models would jeopardize the creditability of the results obtained. Classical epidemic models divide the closed population into three subgroups: susceptible, infective, and recovered (removed). keywords: agent; aids; epidemic; hiv; infection; model; neighborhood; state; time cache: cord-005033-voi9gu0l.txt plain text: cord-005033-voi9gu0l.txt item: #16 of 435 id: cord-005321-b3pyg5b3 author: Cai, Li-Ming title: Global analysis of an epidemic model with vaccination date: 2017-07-21 words: 5606 flesch: 52 summary: Rocky Mount Global stability for the SEIR model in epidemiology A geometric approach to global-stability problems Global stability of SEIRS models in epidemiology Global dynamics of an SEIR epidemic model with vertical transmission New vaccine against tuberculosis: current developments and future challenges SVIR epidemic models with vaccination strategies Modeling and Dynamics of Infectious Diseases On the mechanism of strain replacement in epidemic models with vaccination, in current developments in mathematical biology Progression age enhanced backward bifurcation in an epidemic model with super-infection Logarithmic norms and projections applied to linear differential systems Modelling the effect of imperfect vaccines on disease epidemiology Global results for an SIRS model with vaccination and isolation Some application of Hausdorff dimension inequalities for ordinary differential equations Reproduction numbers and sub-threshold endemic equilibria for compartmental models of disease transmission Backward bifurcation of an epidemic model with treatment Global analysis of an SIS model with an infective vector on complex networks Global dynamics of a network epidemic model for waterborne diseases spread Global attractivity and permanence of a SVEIR epidemic model with pulse vaccination and time delay WHO advisory committee on variola virus research report of the fourteenth meeting Mathematical models have become important tools in analyzing the spread and control of infectious diseases [2] . keywords: bifurcation; equilibrium; model; system cache: cord-005321-b3pyg5b3.txt plain text: cord-005321-b3pyg5b3.txt item: #17 of 435 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: acid; activation; activity; addition; agents; agonist; aim; analysis; animal; anti; approach; assay; assessment; background; barrier; binding; blood; body; brain; camp; cancer; cancer cells; cardiac; cell death; cell line; cells; cgmp; changes; channels; chemical; chronic; clinical; complex; compounds; concentrations; conclusion; conditions; contrast; control; culture; current; damage; data; days; death; development; differences; different; differentiation; disease; dna; dose; drug; e.g.; effects; endothelial; enzyme; experiments; exposure; expression; factor; fibroblasts; findings; flow; fold; food; formation; fret; function; g protein; gene; germany; group; growth; health; heart; human; impact; increase; induction; inflammation; influence; inhibition; inhibitors; insulin; interaction; intracellular; kidney; levels; line; liver; loss; low; lung; mcpd; mechanisms; membrane; metabolism; metabolites; methods; mice; migration; model; mouse; mrna; nanoparticles; neurons; new; non; novel; number; oct1; order; p<0.05; parameters; pathways; patients; phosphorylation; plasma; platelet; potential; presence; present; primary; processes; products; proliferation; properties; protein; protein expression; rats; receptor; receptor activation; reduced; reduction; regulation; release; research; resistance; response; results; risk; role; samples; set; signaling; skin; small; specific; stimulation; stress; studies; study; substances; system; target; test; testing; therapy; time; tissue; total; toxicity; transcription; treatment; tumor; type; uptake; vitro; vivo; vs.; weight cache: cord-006229-7yoilsho.txt plain text: cord-006229-7yoilsho.txt item: #18 of 435 id: cord-007129-qjdg46o9 author: Simoes, Joana Margarida title: Spatial Epidemic Modelling in Social Networks date: 2005-06-21 words: 1797 flesch: 47 summary: The movement should always be considered in human epidemics models. Agent based models (ABM) offer a great potential for studying human complex behaviour, interacting within a spatial framework [4] . keywords: model; movement; network; world cache: cord-007129-qjdg46o9.txt plain text: cord-007129-qjdg46o9.txt item: #19 of 435 id: cord-007147-0v8ltunv author: Dungan, R. S. title: BOARD-INVITED REVIEW: Fate and transport of bioaerosols associated with livestock operations and manures date: 2010-11-17 words: 8232 flesch: 26 summary: Considering the fact that the number of CAFO continues to grow (USDA National Agricultural Statistics Service, 2009), along with a growing farm worker and encroaching civilian population, an increased understanding of the fate and transport of airborne microorganisms is required to ensure public health is not compromised. Airborne microorganisms and their components are generated as a mixture of droplets or particles, having different aerodynamic diameters ranging from 0.5 to 100 μm (Lighthart, 1994; keywords: airborne; animal; application; bioaerosol; concentrations; dispersion; et al; irrigation; land; manures; microbial; microorganisms; model; pathogens; risk; source; spray; transport; wastewater cache: cord-007147-0v8ltunv.txt plain text: cord-007147-0v8ltunv.txt item: #20 of 435 id: cord-007255-jmjolo9p author: Pulliam, Juliet R. C. title: Ability to replicate in the cytoplasm predicts zoonotic transmission of livestock viruses date: 2009-02-15 words: 2460 flesch: 36 summary: Humans have regular contact with all potentially infectious bodily fluids of domestic food animals; we thus ensure that the target species has contact with all viral groups infecting the source hosts by analyzing the pool of viral species known to infect sheep, goats, cattle, and pigs. Methods. Because influenza virus A infects domestic artiodactyls but was excluded from our database because it is maintained through continuous transmission in humans, we confirmed the robustness of our results to this exclusion; we also confirmed that our findings were robust to the inclusion of viral species for which human infection data were based solely on serology (see table B1 in appendix B, which appears only in the electronic edition of the Journal). keywords: ability; infect; replication; species; viruses cache: cord-007255-jmjolo9p.txt plain text: cord-007255-jmjolo9p.txt item: #21 of 435 id: cord-007726-bqlf72fe author: Rydell-Törmänen, Kristina title: The Applicability of Mouse Models to the Study of Human Disease date: 2018-11-09 words: 7993 flesch: 32 summary: In this chapter, an in-depth analysis of these similarities and differences is provided to allow researchers to use mouse models of human disease and primary cells derived from these animal models under the most appropriate and meaningful conditions. Using specific examples of mouse models of human lung disease, i.e., asthma, chronic obstructive pulmonary disease, and pulmonary fibrosis, this chapter explores the most salient features of mouse models of human disease and provides a full assessment of the advantages and limitations of these models, focusing on the relevance of disease induction and their ability to replicate critical features of human disease pathophysiology and response to treatment. keywords: administration; airway; animals; asthma; cell; differences; disease; fibrosis; human; inflammation; lung; mice; model; mouse; research cache: cord-007726-bqlf72fe.txt plain text: cord-007726-bqlf72fe.txt item: #22 of 435 id: cord-009481-6pm3rpzj author: Parnell, Gregory S. title: Intelligent Adversary Risk Analysis: A Bioterrorism Risk Management Model date: 2009-12-11 words: 6494 flesch: 44 summary: Furthermore, we believe the probabilities of adversary decisions (intent) should be an output of, not an input to, risk analysis models. First, only a limited number of risk management decisions can realistically be modeled. keywords: adversary; agent; analysis; attacker; consequences; decision; defender; example; model; probability; risk cache: cord-009481-6pm3rpzj.txt plain text: cord-009481-6pm3rpzj.txt item: #23 of 435 id: cord-010903-kuwy7pbo author: Liu, Jiajun title: Development of Population and Bayesian Models for Applied Use in Patients Receiving Cefepime date: 2020-03-05 words: 3738 flesch: 38 summary: 2 Goodness-of-fit plots for best-fit population cefepime PK model (model development) Results of the probability of target attainment (PTA) analysis are shown in Table 4 This study created a population and individual PK model for adult and pediatric patients and can serve as a Bayesian prior for precision dosing. Adult (n = 9) and partial pediatric (n = 24) datasets were utilized for PK model building ( Fig. 1) keywords: cefepime; dosing; model; patients; pediatric; population; precision cache: cord-010903-kuwy7pbo.txt plain text: cord-010903-kuwy7pbo.txt item: #24 of 435 id: cord-010977-fwz7chzf author: Myserlis, Pavlos title: Translational Genomics in Neurocritical Care: a Review date: 2020-02-20 words: 12007 flesch: 21 summary: Given that diseases common to the neurocritical care population so rarely afford access to brain tissue for pathologic or genomic analysis antemortem, model system genomic studies offer an important adjunct for translational research. As such, many model system studies start with RNA, examining how the genome responds to perturbation through the transcriptome. keywords: animal; approach; brain; care; disease; expression; gene; genome; genomic; hemorrhage; human; injury; mechanisms; models; patients; research; risk; sequencing; stroke; studies; study; systems; tbi; translational; variants cache: cord-010977-fwz7chzf.txt plain text: cord-010977-fwz7chzf.txt item: #25 of 435 id: cord-011400-zyjd9rmp author: Peixoto, Tiago P. title: Network Reconstruction and Community Detection from Dynamics date: 2019-09-18 words: 3328 flesch: 43 summary: Algorithms and Techniques Which graphical models are difficult to learn Estimation of sparse binary pairwise Markov networks using pseudo-likelihoods Inverse statistical problems: From the inverse Ising problem to data science Inferring networks of diffusion and influence On the convexity of latent social network inference Learning the graph of epidemic cascades Statistical inference approach to structural reconstruction of complex networks from binary time series Maximum-likelihood network reconstruction for SIS processes is NP-hard Network reconstruction from infection cascades Escaping the Curse of Dimensionality in Estimating Multivariate Transfer Entropy Causal network inference by optimal causation entropy Reconstructing propagation networks with natural diversity and identifying hidden sources Efficient reconstruction of heterogeneous networks from time series via compressed sensing Robust Reconstruction of Complex Networks from Sparse Data Universal data-based method for reconstructing complex networks with binary-state dynamics Reconstructing weighted networks from dynamics Reconstructing network topology and coupling strengths in directed networks of discrete-time dynamics Community detection in networks: A user guide Bayesian stochastic blockmodeling Exact recovery in the Ising blockmodel Community detection in networks with unobserved edges Network structure from rich but noisy data Reconstructing Networks with Unknown and Heterogeneous Errors Stochastic blockmodels and community structure in networks Nonparametric Bayesian inference of the microcanonical stochastic block model for summary of the full generative model used, details of the inference algorithm and more information on the analysis of empirical data Efficient Monte Carlo and greedy heuristic for the inference of stochastic block models Missing and spurious interactions and the reconstruction of complex networks Epidemic processes in complex networks Spatial interaction and the statistical analysis of lattice systems Equation of state calculations by fast computing machines Monte Carlo sampling methods using Markov chains and their applications Asymptotic analysis of the stochastic block model for modular networks and its algorithmic applications Artifacts or attributes? Inferring gene regulatory networks from multiple microarray datasets Dynamic models of large-scale brain activity Estimating spatial coupling in epidemiological systems: a mechanistic approach Bootstrapping topological properties and systemic risk of complex networks using the fitness model The role of social networks in information diffusion Network inference with confidence from multivariate time series Revealing Network Connectivity from Response Dynamics Inferring network topology from complex dynamics Revealing physical interaction networks from statistics of collective dynamics Learning factor graphs in polynomial time and sample complexity Reconstruction of Markov random fields from samples: Some observations and algorithms, in Approximation, Randomization and Combinatorial Optimization. keywords: community; detection; method; model; network; reconstruction cache: cord-011400-zyjd9rmp.txt plain text: cord-011400-zyjd9rmp.txt item: #26 of 435 id: cord-012866-p3mb7r0v author: Luo, Yan title: Predicting the treatment response of certolizumab for individual adult patients with rheumatoid arthritis: protocol for an individual participant data meta-analysis date: 2020-06-12 words: 5250 flesch: 41 summary: Previous treatment response prediction models for RA were mainly based on observational studies [7] [8] For stage 1, generally there are two types of risk models. keywords: arthritis; data; ipd; meta; model; patients; risk; stage; study; treatment cache: cord-012866-p3mb7r0v.txt plain text: cord-012866-p3mb7r0v.txt item: #27 of 435 id: cord-013784-zhgjmt2j author: Tang, Min title: Three-dimensional bioprinted glioblastoma microenvironments model cellular dependencies and immune interactions date: 2020-06-04 words: 13724 flesch: 40 summary: e Gene set enrichment analysis (GSEA) of the glioblastoma tissue vs cell culture signature as defined in d when applied to RNA-seq data comparing the 3D tetra-culture system with sphere cell culture. Data was derived from Miller et al. 36 g GSEA of the glioblastoma tissue vs cell culture signature as defined in f when applied to RNA-seq data comparing the 3D tetraculture system with sphere cell culture. keywords: 3d tetra; analysis; bars; brain; cancer; cell; cell culture; culture; culture model; expression; fig; gene; glioblastoma; gscs; human; macrophages; model; rna; signature; sphere; sphere culture; system; test; tetra; tissue; tri; tumor cache: cord-013784-zhgjmt2j.txt plain text: cord-013784-zhgjmt2j.txt item: #28 of 435 id: cord-015147-h0o0yqv8 author: None title: Oral Communications and Posters date: 2014-09-12 words: 73903 flesch: 39 summary: After 3 months of exposures, inflammatory cells in bronchoalveolar lavage fluid were increased in both the HCR-and LCR-smokeexposed(SE) animals compared to air-exposed controls (p<0.001); however there was a 2-3-fold increase in the number of neutrophils and lymphocytes in the LCR-over the HCR-SE group (p<0.001).Histopathology revealed there was greater inflammation and lung damage present in the LCR-versus HCR-SE group (p<0.05). This causes the symptoms of the early phase of AI and the onset of the late phase characterized by the penetration in the inflamed tissue of inflammatory cells, notably the eosinophils. keywords: activation; activity; acute; addition; adhesion; administration; aim; alpha; analysis; animals; anti; antibodies; antibody; arthritis; associated; beta; binding; blood; bone; cancer; cartilage; cells; chronic; complex; conditions; control; cox-2; cytokines; data; day; days; development; disease; dose; effect; expression; factor; function; gene; group; hours; human; il-1b; il-6; immune; increase; induction; inflammation; inflammatory; inhibited; inhibition; inhibitors; injection; injury; joint; kinase; leukocyte; levels; lps; lung; macrophages; mechanisms; mediators; methods; mice; mif; model; molecular; molecules; monocytes; mouse; mrna; neutrophils; new; novel; number; p38; pathways; patients; pcr; plasma; potential; presence; present; production; protein; rats; receptor; reduced; regulation; release; research; response; results; rheumatoid; role; selective; serum; signaling; skin; specific; stimulation; studies; study; synthesis; system; t cells; therapeutic; time; tissue; tnf; tnfa; treatment; tumor; type; university; vitro; vivo cache: cord-015147-h0o0yqv8.txt plain text: cord-015147-h0o0yqv8.txt item: #29 of 435 id: cord-015255-1qhgeirb author: Busby, J S title: Managing the social amplification of risk: a simulation of interacting actors date: 2012-07-11 words: 9935 flesch: 40 summary: The aim is to explore the implications of the principal findings of the fieldwork, and our basic theoretical commitments to social risk amplification as an attribution, with as little further adornment as possible, while also incorporating elements shown in the literature to be important aspects of risk amplification. The idea that social risk amplification is a subjective attribution, not an objective phenomenon, means that this divergence of risk perception and expert assessment does not amount to risk amplification. keywords: actors; amplification; assessment; dynamics; example; expert; model; modelling; perception; public; responses; risk; risk amplification; risk perception; system; way cache: cord-015255-1qhgeirb.txt plain text: cord-015255-1qhgeirb.txt item: #30 of 435 id: cord-016045-od0fr8l0 author: Liu, Ming title: Epidemic-Logistics Network Considering Time Windows and Service Level date: 2019-10-04 words: 5288 flesch: 56 summary: Emergency materials distribution problem with a MTSPTW characteristic in the antibioterrorism system is researched in this study, and the best equilibrium solution is obtained by the new hybrid GA. However, timeliness is much more important in emergency materials distribution network. keywords: demand; distribution; emergency; esl; logistics; materials; model; problem; time cache: cord-016045-od0fr8l0.txt plain text: cord-016045-od0fr8l0.txt item: #31 of 435 id: cord-016261-jms7hrmp author: Liu, Chunmei title: Profiling and Searching for RNA Pseudoknot Structures in Genomes date: 2005 words: 4334 flesch: 49 summary: Applications to protein modeling Prediction of RNA Pseudoknots-Comparative Study of Genetic Algorithms RNA pseudoknot prediction in energy based models RNAMotif, an RNA secondary structure definition and search algorithm Functional and structural analysis of a pseudoknot upstream of the tag-encoded sequence in E. coli tmRNA 7SK small nuclear RNA binds to and inhibits the activity of CDK9/cyclin T complexes Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics The language of RNA: a formal grammar that includes pseudoknots A Dynamic Programming Algorithm for RNA Structure Prediction Including Pseudoknots An iterated loop matching approach to the prediction of RNA secondary structures with pseudoknots Stochastic Context-Free Grammars for tRNA Modeling An expanding universes of noncoding RNAs Tree adjoining grammars for RNA structure prediction The 7SK small nuclear RNA inhibits the Cdk9/cyclin T1 kinase to control transcription Dynamic programming algorithms for RNA secondary structure prediction with pseudoknots RNA Pseudoknot Modeling Using Intersections of Stochastic Context Free Grammars with Applications to Database Search Small subunit ribosomal RNA modeling using stochastic context-free grammars Stochastic Modeling of Pseudoknot Structures: A Grammatical Approach Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids RNA sequence analysis using covariance models Ribonuclease P: unity and diversity in a tRNA processing ribozyme Direct RNA motif definition and identification from multiple sequence alignments using secondary structure profiles Characterization of the RNA components of a Putative Molecular Switch in the 3' Untranslated Region of the Murine Coronavirus Genome Rfam: an RNA family database RSEARCH: keywords: components; model; pseudoknot; rna; sequence; stems; structures cache: cord-016261-jms7hrmp.txt plain text: cord-016261-jms7hrmp.txt item: #32 of 435 id: cord-016364-80l5mua2 author: Menotti-Raymond, Marilyn title: The Domestic Cat, Felis catus, as a Model of Hereditary and Infectious Disease date: 2008 words: 6926 flesch: 28 summary: The canine genome Understanding the genetics of autoimmune disease: Two loci that regulate late onset Addison's disease in Portuguese Water Dogs Canine RPGRIP1 mutation establishes cone-rod dystrophy in miniature longhaired dachshunds as a homologue of human Leber congenital amaurosis Cat domestication age An STR forensic typing system for genetic individualization of domestic cat (Felis catus) samples Tyrosinase and tyrosinase related protein 1 alleles specify domestic cat coat color phenotypes of the albino and brown loci Feline polycystic kidney disease mutation identified in PKD1 An ∼140-kb deletion associated with feline spinal muscular atrophy implies an essential LIX1 function for motor neuron survival A homozygous single-base deletion in MLPH causes the dilute coat color phenotype in the domestic cat Albinism in the domestic cat (Felis catus) is associated with a tyrosinase (TYR) mutation Tyrosinase mutations associated with Siamese and Burmese patterns in the domestic cat (Felis catus) Molecular diagnosis of gangliosidosis: A model of inherited diseases in pure breeds Characterization of the molecular defect in a feline model for type II GM2-gangliosidosis (Sandhoff disease) An inversion of 25 base pairs causes feline GM2 gangliosidosis variant Mutation of the GM2 activator protein in a feline model of GM2 gangliosidosis Glycogen storage disease Type IV: Inherited deficiency of branching enzyme activity in cats Glycogen storage disease Type IV in Norwegian Forest Cats: Molecular detection of carriers Characterization of the mutations causing hemophilia B in 2 domestic cats A mutation in the lipoprotein lipase gene is the molecular basis of chylomicronemia in a colony of domestic cats A cardiac myosin binding protein C mutation in the Maine Coon cat with familial hypertrophic cardiomyopathy A missense mutation in Nacetylglucosamine-1-phosphotransferase causes mucolipidosis II in domestic shorthair cats Two mutations within a feline mucopolysaccharidosis type VI colony cause three different clinical phenotypes Molecular basis of feline beta-glucuronidase deficiency: An animal model of mucopolysaccharidosis VII Deletion of the dystrophin muscle promoter in feline muscular dystrophy Mutation analysis of feline Niemann-Pick C1 disease A tyrosinase gene missense mutation in temperature-sensitive type I oculocutaneous albinism. [130] [131] [132] Historically, many of the human oncogenes that defi ne signal transduction pathways were originally discovered in the context of feline leukemia virus interaction in cat models. keywords: animal; cat; cats; disease; dog; feline; gene; genome; human; linkage; map; mapping; model; mucopolysaccharidosis; sequence; species; therapy; type; virus cache: cord-016364-80l5mua2.txt plain text: cord-016364-80l5mua2.txt item: #33 of 435 id: cord-016954-l3b6n7ej author: Young, Colin R. title: Animal Models of Multiple Sclerosis date: 2008 words: 9721 flesch: 40 summary: Experimental studies in induced animal models have the advantage over studies in spontaneous models in that the onset and progression of the disease can be controlled. EXPERIMENTAL ALLERGIC ENCEPHALOMYELITIS IN GUINEA PIGS Guinea pigs have also been investigated to determine whether they may serve as useful EAE models of MS. keywords: animal; autoimmune; cells; cns; demyelination; disease; eae; encephalomyelitis; experimental; human; infection; lesions; mice; model; rats; virus cache: cord-016954-l3b6n7ej.txt plain text: cord-016954-l3b6n7ej.txt item: #34 of 435 id: cord-016965-z7a6eoyo author: Brockmann, Dirk title: Human Mobility, Networks and Disease Dynamics on a Global Scale date: 2017-10-23 words: 6793 flesch: 51 summary: Compared to the conventional use of geographic distance effective distance is a much better predictor of epidemic arrival time as is reflected by the linear relationship between arrival time and effective distance, e.g. compare to Fig. Effective distance should therefore decrease with traffic flux. keywords: distance; epidemic; fig; location; model; network; outbreak; population; system cache: cord-016965-z7a6eoyo.txt plain text: cord-016965-z7a6eoyo.txt item: #35 of 435 id: cord-017003-3farxcc3 author: Koibuchi, Yukio title: Numerical Simulation of Urban Coastal Zones date: 2010 words: 7578 flesch: 50 summary: River water runs through the urban area and runs off from the river mouth, spreading over the sea surface like a veil since river water has low density compared with saline sea water. We modeled Escherichia coliform (E. coli) by using experimental data in coastal sea water. keywords: bay; coastal; coli; density; fig; model; nutrients; phytoplankton; river; sea; surface; system; water cache: cord-017003-3farxcc3.txt plain text: cord-017003-3farxcc3.txt item: #36 of 435 id: cord-017181-ywz6w2po author: Maus, Carsten title: Component-Based Modelling of RNA Structure Folding date: 2008 words: 5368 flesch: 48 summary: RNA structures are hierarchically organised (see figure 2 ). To allow RNA structures to escape from local energy minima and refold to more stable structures, the base pair dissociation time will be randomised, which leads to very short bonding times in some cases although the activation energy needed for opening the base pair is quite large. keywords: base; folding; level; macro; model; pair; ribosome; rna; simulation; structure; time cache: cord-017181-ywz6w2po.txt plain text: cord-017181-ywz6w2po.txt item: #37 of 435 id: cord-017423-cxua1o5t author: Wang, Rui title: A Review of Microblogging Marketing Based on the Complex Network Theory date: 2011-11-12 words: 2683 flesch: 30 summary: On one hand, the interpersonal social network is different from the natural social network in six points: (1) Social network has smaller network diameter and average path length; (2) social network has higher clustering coefficient than the same-scale ER random network; (3) the degree distribution of social network has scale-free feature and follows power-law; (4) interpersonal social network has positive correlation of node degree distribution but natural social network has negative; (5) local clustering coefficient of the given node has negative correlation of the node degree in social network; (6) social network often has clear community structure The small world problem Collective dynamics of 'small-world' networks Emergence of scaling in random networks How viruses spread among computers and people Information exchange and the robustness of organizational networks Network structure and the diffusion of knowledge Team assembly mechanisms determine collaboration network structure and team performance Romualdo Pastor-Satorras, Alessandro Vespignani: Velocity and hierarchical spread of epidemic outbreaks in scale-free networks Epidemic spreading in community networks Social dilemmas in an online social network: the structure and evolution of cooperation The theory of learning in games Learning from neighbors A strategic model of social and economic networks Reputation-based partner choice promotes cooperation in social networks A local-world evolving network model The emergence of local norms in networks Research of the small-world character during rumor's propagation Study on coordinated diffusion of new products in internet market Doctoral Dissertation of Shanghai JiaoTong University Structural analysis of large online social network Talk of the network: A complex systems look at the underlying process of word-of-mouth Immunization of complex networks Meeting strangers and friends of friends: How random are socially generated networks keywords: degree; marketing; microblogging; model; network; theory cache: cord-017423-cxua1o5t.txt plain text: cord-017423-cxua1o5t.txt item: #38 of 435 id: cord-017595-v3rllyyu author: Puzyn, Tomasz title: Nanomaterials – the Next Great Challenge for Qsar Modelers date: 2009-06-25 words: 9667 flesch: 41 summary: Four-dimensional descriptors are defined by molecular properties arising from interactions of the molecule with probes characterizing the surrounding space or by stereodynamic representation of a molecule, including flexibility of bonds, conformational behavior, etc. The role of exact exchange Periodic boundary conditions in ab initio calculations Electronic and structural properties of the (1010) and (1120) ZnO surfaces Density functional theory study on the structural and electronic properties of low index rutile surfaces for TiO 2 /SnO 2 /TiO 2 and SnO 2 /TiO 2 /SnO 2 composite systems Clusters: A bridge across the disciplines of physics and chemistry A new concept of molecular nanodescriptors for QSAR/QSPR studies Nanoparticle analysis and characterization methodologies in environmental risk assessment of engineered nanoparticles A density functional theory study on the effect of shape and size on the ionization potential and electron affinity of different carbon nanostructures Quantum-size effects in capped and uncapped carbon nanotubes End-cap effects on vibrational structures of finitelength carbon nanotubes The electronic structures and properties of open-ended and capped carbon nanoneedles Modelling nanoneedles: A journey towards nanomedicine Modeling the structure-property relationships of nanoneedles: A journey toward nanomedicine Ab initio quantum chemical studies of fullerene molecules with substituents C 59 X X=Si Variable band gap ZnO nanostructures grown by pulsed laser deposition Theoretical study of the electronic structure and stability of titanium dioxide clusters (TiO 2 ) n with n=1-9 Probing the electronic structure and band gap evolution of titanium oxide clusters (TiO 2 ) n -(n=1−10) using photoelectron spectroscopy Oxide nanoparticle uptake in human lung fibroblasts: Effects of particle size, agglomeration, and diffusion at low concentrations In vitro cytotoxicity of oxide nanoparticles: Comparison to asbestos, silica, and the effect of particle solubility Handbook of physical-chemical properties and environmental fate for organic chemicals Clar valence bond representation of pi-bonding in carbon nanotubes QSPR modeling of solubility of polyaromatic hydrocarbons and fullerene in 1-octanol and n-heptane Solubility of fullerene Representation of C 60 solubilities in terms of computed molecular surface electrostatic potentials and areas QSPR modeling for solubility of fullerene (C 60 ) in organic solvents Artificial neural network approach to predict the solubility of C60 in various solvents Accurate quantitative structure-property relationship model to predict the solubility of C60 in various solvents based on a novel approach using a least-squares support vector machine CODESSA PRO. keywords: carbon; chemical; data; descriptors; effects; fullerene; model; nanomaterials; nanoparticles; nanotubes; properties; qsar; size; solubility; structure; studies; surface; toxicity; water cache: cord-017595-v3rllyyu.txt plain text: cord-017595-v3rllyyu.txt item: #39 of 435 id: cord-017728-yazo0lga author: Brauer, Fred title: Compartmental Models in Epidemiology date: 2008 words: 18602 flesch: 56 summary: Part 1: Single populations models Asymptotically autonomous epidemic models Epidemic Modelling: An Introduction Overall patterns in the transmission cycle of infectious disease agents The first epidemic model: a historical note on P.D. En'ko Detecting nonlinearity and chaos in epidemic data Singapore and Beijing experience The saturating contact rate in marriage and epidemic models Qualitative analysis for communicable disease models An immunization model for a hetereogeneous population The mathematics of infectious diseases Periodicity in epidemic models Periodicity and stability in epidemic models: a survey Abzweigung einer periodischen Lösungen von einer stationaren Lösung eines Differentialsystems McKendrick: A contribution to the mathematical theory of epidemics McKendrick: Contributions to the mathematical theory of epidemics, part. This system is easily solved recursively, and then the system (2.13) is an age of infection epidemic model with A(τ ) keywords: disease; endemic; epidemic; equation; equilibrium; infection; infective; members; model; number; population; population size; rate; size; time cache: cord-017728-yazo0lga.txt plain text: cord-017728-yazo0lga.txt item: #40 of 435 id: cord-017934-3wyebaxb author: Kurahashi, Setsuya title: An Agent-Based Infectious Disease Model of Rubella Outbreaks date: 2019-05-07 words: 3240 flesch: 55 summary: Section 3 describes related research on infectious disease models. The experimental result of rubella model of the workplace separated the sexes with a railway of infection of one or more women increases to 37%, and the case where more than ten women were infected was 30%. keywords: agent; disease; infection; model; rubella; smallpox cache: cord-017934-3wyebaxb.txt plain text: cord-017934-3wyebaxb.txt item: #41 of 435 id: cord-018746-s9knxdne author: Perra, Nicola title: Modeling and Predicting Human Infectious Diseases date: 2015-04-23 words: 9710 flesch: 50 summary: The next logical step in the hierarchy of large scale epidemic models is to take the description of the underlying population all the way down to the individual level with what are known as ABM. Epidemic models divide the progression of the disease into several states or compartments, with individuals transitioning compartments depending on their health status. keywords: case; data; degree; disease; epidemic; individuals; influenza; mobility; models; networks; node; number; population; time cache: cord-018746-s9knxdne.txt plain text: cord-018746-s9knxdne.txt item: #42 of 435 id: cord-018791-h3bfdr14 author: Rasulev, Bakhtiyor title: Recent Developments in 3D QSAR and Molecular Docking Studies of Organic and Nanostructures date: 2016-12-09 words: 10432 flesch: 36 summary: Soon after, CoMFA has become a prototype of 3D QSAR methods (Kim et al. 1998; Todeschini and Gramatica 1998; Podlogar and Ferguson 2000) . To give some view on a number of 3D QSAR methods developed for the last three decades, we listed below the ligand-based 3D QSAR methods and very short description per each of them. keywords: 3d qsar; activity; analysis; approach; authors; binding; comfa; compounds; docking; drug; et al; inhibitors; ligand; method; models; qsar; study cache: cord-018791-h3bfdr14.txt plain text: cord-018791-h3bfdr14.txt item: #43 of 435 id: cord-018899-tbfg0vmd author: Brauer, Fred title: Epidemic Models date: 2011-10-03 words: 19651 flesch: 54 summary: The definition of the basic reproduction number R 0 is that it is the number of secondary infections caused by a single infective introduced into a wholly susceptible population of size N â�� S 0 over the course of the infection of this single infective. In fact, this general framework is the age of infection epidemic model originally introduced by Kermack and McKendrick in 1927. keywords: disease; epidemic; infection; infective; model; number; population; probability; rate; time; â �; � � cache: cord-018899-tbfg0vmd.txt plain text: cord-018899-tbfg0vmd.txt item: #44 of 435 id: cord-018947-d4im0p9e author: Helbing, Dirk title: Challenges in Economics date: 2012-02-10 words: 11077 flesch: 44 summary: Other factors contributing to the difficulty to manage economic systems are the large heterogeneity of system elements and the considerable level of randomness as well as the possibility of a chaotic or turbulent dynamics (see Sect. 16.3.4) . Furthermore, the agents in economic systems are responsive to information, which can create self-fulfilling or self-destroying prophecy effects. keywords: agent; approach; behavior; control; dynamics; economics; effects; example; information; market; modeling; models; optimization; people; problems; self; system; theory; time cache: cord-018947-d4im0p9e.txt plain text: cord-018947-d4im0p9e.txt item: #45 of 435 id: cord-018976-0ndb7rm2 author: Iwasa, Yoh title: Mathematical Studies of Dynamics and Evolution of Infectious Diseases date: 2007 words: 1796 flesch: 45 summary: The mathematical study of infectious disease dynamics has a long history. The classic work by Kermack and McKendrick (1927) established the basis of modeling infectious disease dynamics. keywords: disease; dynamics; models; population cache: cord-018976-0ndb7rm2.txt plain text: cord-018976-0ndb7rm2.txt item: #46 of 435 id: cord-020193-3oqkdbq0 author: Bley, Katja title: Overcoming the Ivory Tower: A Meta Model for Staged Maturity Models date: 2020-03-06 words: 4734 flesch: 44 summary: By analyzing existing, staged maturity models, we develop a meta model for staged maturity models so different maturity models may share common semantics and syntax. A Meta Model for Staged Maturity Models date: 2020-03-06 journal: Responsible Design, Implementation and Use of Information and Communication Technology DOI: 10.1007/978-3-030-44999-5_28 sha: doc_id: 20193 cord_uid: 3oqkdbq0 When it comes to the economic and strategic development of companies, maturity models are regarded as silver bullets. keywords: concepts; development; factors; level; maturity; meta; mms; model cache: cord-020193-3oqkdbq0.txt plain text: cord-020193-3oqkdbq0.txt item: #47 of 435 id: cord-020610-hsw7dk4d author: Thys, Séverine title: Contesting the (Super)Natural Origins of Ebola in Macenta, Guinea: Biomedical and Popular Approaches date: 2019-10-12 words: 9758 flesch: 41 summary: Furthermore, it raises the question of whether there is evidence to indicate and confirm that 'bushmeat'-related information included in public health campaigns in the region actually reduced Ebola transmission. Bulletin de l'Académie vétérinaire de France Inclusivity and the Rogue Bats and the War Against the Invisible Enemy About the natural reservoir for Ebola virus see The Evolution of Ebola Virus: keywords: animal; bushmeat; case; deaths; disease; ebola; ebola virus; epidemic; guinea; health; human; macenta; model; outbreak; people; region; transmission; virus; wild cache: cord-020610-hsw7dk4d.txt plain text: cord-020610-hsw7dk4d.txt item: #48 of 435 id: cord-020683-5s3lghj6 author: Buonomo, Bruno title: Effects of information-dependent vaccination behavior on coronavirus outbreak: insights from a SIRI model date: 2020-04-09 words: 4678 flesch: 47 summary: Dynamics and Control Mathematical Epidemiology Oscillations and hysteresis in an epidemic model with informationdependent imperfect vaccination Global stability of an SIR epidemic model with information dependent vaccination Globally stable endemicity for infectious diseases with information-related changes in contact patterns Modeling of pseudo-rational exemption to vaccination for SEIR diseases The time course of the immune response to experimental coronavirus infection of man Mathematical Structures of Epidemic Systems A new transmission route for the propagation of the SARS-CoV-2 coronavirus Information-related changes in contact patterns may trigger oscillations in the endemic prevalence of infectious diseases Bistable endemic states in a susceptible-infectious-susceptible model with behavior-dependent vaccination Vaccinating behaviour, information, and the dynamics of SIR vaccine preventable diseases. Theor Bifurcation thresholds in an SIR model with informationdependent vaccination Fatal SIR diseases and rational exemption to vaccination The impact of vaccine side effects on the natural history of immunization programmes: an imitation-game approach Infection, reinfection, and vaccination under suboptimal immune protection: epidemiological perspectives Epidemiology of coronavirus respiratory infections Epidemics with partial immunity to reinfection Modeling Infectious Diseases in Humans and Animals Nonlinear dynamics of infectious diseases via informationinduced vaccination and saturated treatment Modeling the Interplay Between Human Behavior and the Spread of Infectious Diseases An Introduction to Mathematical Epidemiology Bistability of evolutionary stable vaccination strategies in the reinfection SIRI model Biological Delay Systems: Linear Stability Theory keywords: disease; epidemic; information; model; reinfection; time cache: cord-020683-5s3lghj6.txt plain text: cord-020683-5s3lghj6.txt item: #49 of 435 id: cord-020764-5tq9cr7o author: Vertrees, Roger A. title: Tissue Culture Models date: 2010-05-21 words: 11305 flesch: 33 summary: Currently, many terms are used that can be encompassed by the term: organ culture, cell culture, primary explants, and ex vivo propagation all deal with the in vitro cultivation of cells or tissues. Cell culture in general can be applied either to primary cells (e.g., those with a fi nite life span) or to cell lines (e.g., HeLa cells). keywords: airway; cancer; cell; cell culture; culture; differentiation; disease; growth; human; investigators; lines; lung; matrix; models; research; smooth; tissue; tissue culture; tumor; type; vitro; vivo; wall cache: cord-020764-5tq9cr7o.txt plain text: cord-020764-5tq9cr7o.txt item: #50 of 435 id: cord-020871-1v6dcmt3 author: Papariello, Luca title: On the Replicability of Combining Word Embeddings and Retrieval Models date: 2020-03-24 words: 2137 flesch: 51 summary: We replicate recent experiments attempting to demonstrate an attractive hypothesis about the use of the Fisher kernel framework and mixture models for aggregating word embeddings towards document representations and the use of these representations in document classification, clustering, and retrieval. Extending the IR replicability infrastructure to include performance aspects Distributed representations of sentences and documents Verboseness fission for BM25 document length normalization Efficient estimation of word representations in vector space Neural information retrieval: at the end of the early years A sentimental education: sentiment analysis using subjectivity summarization based on minimum cuts Seeing stars: exploiting class relationships for sentiment categorization with respect to rating scales The TREC robust retrieval track. keywords: document; experiments; mixture; models; retrieval; word cache: cord-020871-1v6dcmt3.txt plain text: cord-020871-1v6dcmt3.txt item: #51 of 435 id: cord-020888-ov2lzus4 author: Formal, Thibault title: Learning to Rank Images with Cross-Modal Graph Convolutions date: 2020-03-17 words: 5213 flesch: 48 summary: key: cord-020888-ov2lzus4 authors: Formal, Thibault; Clinchant, Stéphane; Renders, Jean-Michel; Lee, Sooyeol; Cho, Geun Hee title: Learning to Rank Images with Cross-Modal Graph Convolutions date: 2020-03-17 journal: Advances in Information Retrieval DOI: 10.1007/978-3-030-45439-5_39 sha: doc_id: 20888 cord_uid: ov2lzus4 We are interested in the problem of cross-modal retrieval for web image search, where the goal is to retrieve images relevant to a text query. We propose to revisit the problem of cross-modal retrieval in the context of re-ranking. keywords: cross; features; graph; image; learning; modal; ranking; retrieval; set; text cache: cord-020888-ov2lzus4.txt plain text: cord-020888-ov2lzus4.txt item: #52 of 435 id: cord-021426-zo9dx8mr author: Peiffer, Robert L. title: Models in Ophthalmology and Vision Research date: 2013-10-21 words: 14376 flesch: 38 summary: An experimental degenerative study An autoradiographic study of the projections of visual cortical area I to the thalamus, pretectum, and superior colliculus of the rabbit Pretectal and brain stem projections of the medial terminal nucleus of the accessory optic system of the rabbit and rat as studied by anterograde and retrograde neuronal tracing methods Projections of medial terminal accessory optic nucleus, ventral tegmental nuclei, and substantia nigra of rabbit and rat as studied by retrograde axonal transport of horseradish peroxidase Experimental subretinal hemorrhage in rabbits 5-Flurouracil and glaucoma filtering surgery: I. An animal model The effect of corneal trephination on neovascularization Bilateral ocular lipidosis in a cottontail rabbit fed an all-milk diet Induction of de novo synthesis of crystalline lenses in aphakic rabbits Scanning electron microscopy of corneal wound healing in the rabbit Microelectrode study of the accessory optic tract in the rabbit Susceptibility of the corneal epithelial basement membrane to injury in diabetic rabbits Experimental model for scleritis Experimental chorioretinitis in rabbits following injection of autologous retina in Freund's complete adjuvant Steroid-induced ocular hypertension in the rabbit: A model using subconjunctival injections Circulating immune complexes: Effects on ocular vascular permeability in the rabbit The influence of topical prostaglandin in HSA-induced uveitis in the rabbit Topographical relationships between the anatomy and physiology of the rabbit visual system Cortical and subcortical pathways for pupillary reactions in rabbits Characterized and predictable rabbit uveitis model for anti-inflammatory drug screening Meibomian gland dysfunction II: The role of keratinization in a rabbit model of MGD Pasteurella dacryocystitis in rabbits Rabbit ocular and pineal autoimmune response to retinal antigens Experimental angle block avoiding paracentesis reflex Penetrating corneal transplantation in the rabbit Transplantation and rejection of indi vidual cell layers of the cornea Bullous keratopathy; endothelial cell changes in experimental corneal edema Multifocal retinopathy in Borna disease infected rabbits Platelets and polymorphonuclear leukocytes in experimental ocular inflammation in the rabbit eye. Biomicroscopic and histologic findings Comparison of the neovascular effects of stimulated macrophages and neutrophils in autologous rabbit corneas Animal models of band keratopathy PAF-induced conjunctivitis in the rabbit is mediated by peptido-leukotrienes Experimental serous retinal detachment and focal pigment epithelial damage Topical fibronection and corneal epithelial wound healing in the rabbit Susceptibility of corneas from various animal species to in vitro bonding and invasion by Acanthomeba castellani Studies on experimental ocular toxoplasmosis in the rabbit Experimental ocular histoplasmosis Primary and secondary herpes simplex uveitis in rabbits Herpes simplex retinochoroiditis in newborn rabbits Studies on the handling of retinotoxic doses of iodate in rabbits The analysis of image motion by the rabbit retina Direction selective units in rabbit retina: Distribution of preferred directions Interplexiform cells in rabbit retina Direction selective retinal ganglion cells and control of optokinetic nystagmus in the rabbit Retinal ganglion cells projecting to the rabbit accessory optic system Ganglion cell density in albino and pigmented rabbit retinas labeled with a ganglion cell specific monoclonal antibody Acute experimental uveitis caused by a single administration of heterologous blood protein to the vitreous body of rabbits The rabbit as an alternative model for the intraocular testing of viscoelastic substances Myofibroblasts in the healing of filtering wounds in rabbit, dog, and cat Intraocular response to cotton, collagen, and cellulose in the rabbit Effects ofGM-rul ganglioside on the optic nerve and retina in experimental glaucoma The healing of corneal epithelial abrasions in the rabbit; a scanning electron microscope study Scanning electron microscopy of corneal graft rejection: Epithelial rejection, endothelial rejection, and formation of posterior graft membranes Two cases of corneal epithelial dystrophy in rabbits The Rabbit in Eye Research Anatomy and Histology of the Eye and Orbit in Domestic Animals Dendritic morphologies of retinal ganglion cells projecting to the lateral geniculate nucleus in the rabbit Simulation of massive periretinal proliferation by autotransplantation of retinal pigment epithelial cells in rabbits Ultrastructural analysis of experimental allergic uveitis in rabbits Vitreous hemorrhage. keywords: cells; ciliary; disease; duct; et al; ganglion; gland; humans; injection; lacrimal; lens; model; nerve; optic; orbit; posterior; rabbit; rabbit eye; rabbit model; rabbit retina; retina; study; uveitis cache: cord-021426-zo9dx8mr.txt plain text: cord-021426-zo9dx8mr.txt item: #53 of 435 id: cord-022219-y7vsc6r7 author: PEIFFER, ROBERT L. title: Animals in Ophthalmic Research: Concepts and Methodologies date: 2013-11-17 words: 24877 flesch: 43 summary: Deep inoculations are required to produce a stromal keratitis (Fig. 1) , while the epithelial disease may be induced through shallow scratches (Polli koff et al., 1972) . A discussion of the optical principles of specular mi croscopy is provided by Laing et al. keywords: animals; antigen; aqueous; blood; cataracts; cells; chamber; changes; cornea; culture; disease; dogs; drugs; effects; endothelial; et al; eye; fig; glaucoma; guinea; human; humor; injection; iop; laboratory; lens; lenses; model; monkeys; outflow; pressure; rabbit; rats; research; response; results; retina; species; studies; study; technique; tissue; use; uveitis; vessels cache: cord-022219-y7vsc6r7.txt plain text: cord-022219-y7vsc6r7.txt item: #54 of 435 id: cord-022494-d66rz6dc author: Webb, B. title: Comparative Modeling of Drug Target Proteins date: 2014-10-01 words: 8784 flesch: 45 summary: 19, 20 Computational protein structure prediction methods, such as threading 21 and comparative protein structure modeling, 22, 23 strive to bridge the sequence-structure gap by utilizing these evolutionary relationships. 9 Shown are the different ranges of applicability of comparative protein structure modeling, threading, and de novo structure prediction, their corresponding accuracies, and their sample applications. keywords: accuracy; alignment; docking; drug; errors; identity; ligand; methods; modeling; models; protein; sequence; structure; target; template cache: cord-022494-d66rz6dc.txt plain text: cord-022494-d66rz6dc.txt item: #55 of 435 id: cord-022891-vgfv5pi4 author: Hall, Graeme M. J. title: SIMULATING NEW ZEALAND FOREST DYNAMICS WITH A GENERALIZED TEMPERATE FOREST GAP MODEL date: 2000-02-01 words: 10493 flesch: 48 summary: We adopt recent evaluation methods for forest gap models to evaluate the ability of the model under current climates, but acknowledge that theoretical difficulties remain. (1996) compare versions of forest gap models showing changes due to additional features. keywords: agathis; area; beech; biomass; disturbance; dynamics; fig; forest; gap; growth; model; new; new zealand; nothofagus; site; soil; species; wardle; zealand cache: cord-022891-vgfv5pi4.txt plain text: cord-022891-vgfv5pi4.txt item: #56 of 435 id: cord-023284-i0ecxgus author: None title: Abstracts of publications related to QASR date: 2006-09-19 words: 19972 flesch: 40 summary: The systems allow interactive data communication among the simulation programs for their strategically combined use; e) The structure and functions of MolWorld is illustrated on modeling the alanine molecule: (i) data model of molecular structures; (ii) chemical formula input; (iii) generation of 3D molecular structure; (iv) formulation of bonding model; (v) interactive molecular orbital graphics; (vi) methods of visualizing electronic structures; (vii) use of molecular orbital graphics for chemical reactions. Title: Retention prediction of analytes in reversed-phase high-performance liquid chromatography based on molecular structure. keywords: activity; analysis; atoms; binding; chemical; compounds; conformations; crystal; data; descriptors; distance; energy; fig; group; linear; logp; method; model; modeling; molecular; molecules; nmr; number; parameters; protein; ray; receptor; relat; results; ring; set; site; solution; steric; structure; substituent; title; type; values cache: cord-023284-i0ecxgus.txt plain text: cord-023284-i0ecxgus.txt item: #57 of 435 id: cord-024061-gxv8y146 author: Alkhamis, Moh A. title: Animal Disease Surveillance in the 21st Century: Applications and Robustness of Phylodynamic Methods in Recent U.S. Human-Like H3 Swine Influenza Outbreaks date: 2020-04-21 words: 12857 flesch: 29 summary: In fact, during the last decade, phylodynamic models have become well-established tools for studying the evolution of animal viral diseases specially influenza (20) , FMD (17) , and PRRS (21) . There are many studies in the published literature comparing the results of phylodynamic models inferred from different gene segments or evolutionary parameters' priors (34) (35) (36) . keywords: data; evolutionary; figure; gene; influenza; methods; model; pb2; phylodynamic; posterior; rate; segment; sequences; states; substitution; surveillance; time; virus cache: cord-024061-gxv8y146.txt plain text: cord-024061-gxv8y146.txt item: #58 of 435 id: cord-024283-ydnxotsq author: Chen, Jiarui title: BESTox: A Convolutional Neural Network Regression Model Based on Binary-Encoded SMILES for Acute Oral Toxicity Prediction of Chemical Compounds date: 2020-02-01 words: 3059 flesch: 52 summary: [23] , multitask learning can improve performance of prediction models due to availability of more data on different toxicity effects. This may be due to fewer data available in the train set for higher toxicity compounds. keywords: chemical; compounds; data; model; prediction; smiles; toxicity cache: cord-024283-ydnxotsq.txt plain text: cord-024283-ydnxotsq.txt item: #59 of 435 id: cord-024341-sw2pdnh6 author: Aksyonov, Konstantin title: Development of Cloud-Based Microservices to Decision Support System date: 2020-05-05 words: 3011 flesch: 56 summary: As mentioned earlier, simulation tasks also end up in the database. The data obtained in the course of this work made it possible to analyze the current development of business process simulation systems (such as AnyLogic, ARIS, BPsim, G2) and highlight the requirements for a new system oriented to work on the Internet. keywords: agent; key; model; process; processes; service; simulation; task cache: cord-024341-sw2pdnh6.txt plain text: cord-024341-sw2pdnh6.txt item: #60 of 435 id: cord-024501-nl0gsr0c author: Tan, Chunyang title: MSGE: A Multi-step Gated Model for Knowledge Graph Completion date: 2020-04-17 words: 3239 flesch: 53 summary: Knowledge graph embedding models try to represent entities and relations in low-dimensional continuous vector space. Knowledge graph embedding models aim to represent entities and relations in knowledge graphs with low-dimensional vectors (e s , e r , e t ). keywords: embedding; entity; graph; information; knowledge; model; step cache: cord-024501-nl0gsr0c.txt plain text: cord-024501-nl0gsr0c.txt item: #61 of 435 id: cord-024515-iioqkydg author: Zhong, Qi title: Protecting IP of Deep Neural Networks with Watermarking: A New Label Helps date: 2020-04-17 words: 4589 flesch: 51 summary: Typical examples of black-box watermarking are the works in [1, 14] , where the authors utilized the back-door property of neural network models [1, 6] to embed ownership information when building the model. We implement a prototype of our framework and evaluate the performance under three different benchmark datasets, and investigate the relationship between model accuracy, perturbation strength, and key samples’ length. keywords: accuracy; box; dnn; label; model; samples; watermarking cache: cord-024515-iioqkydg.txt plain text: cord-024515-iioqkydg.txt item: #62 of 435 id: cord-024552-hgowgq41 author: Zhang, Ruixi title: Hydrological Process Surrogate Modelling and Simulation with Neural Networks date: 2020-04-17 words: 3567 flesch: 52 summary: Neural network models are known for their flexibility, efficient computation and capacity to deal with nonlinear correlation inside data. [5] uses neural network models to study the numerical partial differential equations of fluid flow in two dimensions. keywords: case; dem; equations; flood; model; network; neural; time; water cache: cord-024552-hgowgq41.txt plain text: cord-024552-hgowgq41.txt item: #63 of 435 id: cord-024866-9og7pivv author: Lepenioti, Katerina title: Machine Learning for Predictive and Prescriptive Analytics of Operational Data in Smart Manufacturing date: 2020-04-29 words: 4065 flesch: 40 summary: Time series forecasting involves prediction models that analyze time series data and usually infer future data trends. To do this, it implements algorithms, such as Recurrent Neural Networks for predictive analytics, and Multi-Objective Reinforcement Learning for prescriptive analytics. keywords: actions; analytics; data; learning; maintenance; manufacturing; model; predictive; time cache: cord-024866-9og7pivv.txt plain text: cord-024866-9og7pivv.txt item: #64 of 435 id: cord-025283-kf65lxp5 author: Nayyeri, Mojtaba title: Embedding-Based Recommendations on Scholarly Knowledge Graphs date: 2020-05-07 words: 4592 flesch: 52 summary: The results mentioned in the Table 2 validate that TransE-SM and RotatE-SM significantly outperformed other embedding models in all metrics. In a preliminary version of this work [11] , we tested a set of embedding models (in their original version) on top of a SKG in order to analyse suitability of KGEs for the use case of scholarly domain. keywords: embedding; graph; knowledge; loss; model; transe cache: cord-025283-kf65lxp5.txt plain text: cord-025283-kf65lxp5.txt item: #65 of 435 id: cord-025348-sh1kehrh author: Jurj, Sorin Liviu title: Deep Learning-Based Computer Vision Application with Multiple Built-In Data Science-Oriented Capabilities date: 2020-05-02 words: 7398 flesch: 47 summary: From automatically gathering images and classifying them each in their respective class folder in a matter of minutes, to removing duplicates, sorting images, training and evaluating a DL model in a matter of minutes, all these features are integrated in a sensible and intuitive manner that requires no knowledge of programming and DL. Despite all of these options, especially in the case of scraping the images from the internet, once stored they can still be unorganized or of a lower quality than expected, with images needed to be sorted out each in their respective class folder in order for the user (e.g. data scientist) to be able later to analyze and use this data for training a performant DL model. keywords: accuracy; dl model; energy; feature; folder; images; model; training; user; value cache: cord-025348-sh1kehrh.txt plain text: cord-025348-sh1kehrh.txt item: #66 of 435 id: cord-025404-rk2fuovf author: Venero, Sheila Katherine title: Automated Planning for Supporting Knowledge-Intensive Processes date: 2020-05-05 words: 5692 flesch: 54 summary: Our approach uses automated planning techniques to generate plans that define process models according to the current context. Our work investigates an automated way to generate process models for KiPs by mapping an artifact-centric case model into a planning model at run time. keywords: case; goal; knowledge; model; planning; process; processes; set; state; time cache: cord-025404-rk2fuovf.txt plain text: cord-025404-rk2fuovf.txt item: #67 of 435 id: cord-025517-rb4sr8r4 author: Koutsomitropoulos, Dimitrios A. title: Automated MeSH Indexing of Biomedical Literature Using Contextualized Word Representations date: 2020-05-06 words: 4478 flesch: 49 summary: We argue that current word embedding algorithms can be efficiently used to support the task of biomedical text classification. 3 we review relevant literature in the field of biomedical text classification; Sect. 4 presents our methodology and approach, by outlining the indexing procedure designed, describing the algorithms used and discussing optimizations regarding dataset balancing, distributed processing and training parallelization. keywords: classification; dataset; elmo; mesh; model; terms; text; training; word cache: cord-025517-rb4sr8r4.txt plain text: cord-025517-rb4sr8r4.txt item: #68 of 435 id: cord-025843-5gpasqtr author: Wild, Karoline title: Decentralized Cross-organizational Application Deployment Automation: An Approach for Generating Deployment Choreographies Based on Declarative Deployment Models date: 2020-05-09 words: 5032 flesch: 41 summary: Due to security concerns, organizations typically do not expose their internal APIs to the outside or leave control over application deployments to others. For application deployment automation two general approaches can be distinguished: declarative and imperative deployment modeling approaches keywords: application; cloud; components; declarative; deployment; models; participant cache: cord-025843-5gpasqtr.txt plain text: cord-025843-5gpasqtr.txt item: #69 of 435 id: cord-026336-xdymj4dk author: Ranjan, Rajesh title: Temporal Dynamics of COVID-19 Outbreak and Future Projections: A Data-Driven Approach date: 2020-06-06 words: 3690 flesch: 51 summary: For India and Russia, the growths are still close to exponential, and therefore there is a significant disparity in predictions by different epidemiological models. key: cord-026336-xdymj4dk authors: Ranjan, Rajesh title: Temporal Dynamics of COVID-19 Outbreak and Future Projections: A Data-Driven Approach date: 2020-06-06 journal: Trans Indian Natl DOI: 10.1007/s41403-020-00112-y sha: doc_id: 26336 cord_uid: xdymj4dk Long-term predictions for an ongoing epidemic are typically performed using epidemiological models that predict the timing of the peak in infections followed by its decay using non-linear fits from the available data. keywords: countries; covid-19; data; epidemic; epidemiological; models cache: cord-026336-xdymj4dk.txt plain text: cord-026336-xdymj4dk.txt item: #70 of 435 id: cord-026384-ejk9wjr1 author: Crilly, Colin J. title: Predicting the outcomes of preterm neonates beyond the neonatal intensive care unit: What are we missing? date: 2020-05-19 words: 6064 flesch: 35 summary: Based on a literature review of risk prediction models for preterm neonates predicting functional outcomes, future models should aim for more consistent outcomes definitions, standardized assessment schedules and measurement tools, and consideration of risk beyond physiologic antecedents. Our review provides a comprehensive analysis and critique of risk prediction models developed for preterm neonates, specifically predicting functional outcomes instead of mortality, to reveal areas of improvement for future studies aiming to develop risk prediction tools for this population. keywords: age; birth; children; infants; models; neonatal; outcomes; prediction; preterm; risk; studies cache: cord-026384-ejk9wjr1.txt plain text: cord-026384-ejk9wjr1.txt item: #71 of 435 id: cord-026503-yomnqr78 author: Basile, Davide title: Strategy Synthesis for Autonomous Driving in a Moving Block Railway System with Uppaal Stratego date: 2020-05-13 words: 6143 flesch: 50 summary: One of the earliest quantitative evaluations of moving block railway signalling systems can be found in [36] , based on GSM-R communications. None of these concern quantitative modelling and analysis, typically lacking uncertainty, which is fundamental for demonstrating the reliability of the operational behaviour of next generation satellite-based ERTMS Level 3 moving block railway signalling system models. keywords: block; model; railway; signalling; state; strategy; systems; time; train; uppaal cache: cord-026503-yomnqr78.txt plain text: cord-026503-yomnqr78.txt item: #72 of 435 id: cord-026742-us7llnva author: Gonçalves, Judite title: Effects of self-employment on hospitalizations: instrumental variables analysis of social security data date: 2020-06-15 words: 8636 flesch: 44 summary: Additionally, the COVID-19 crisis may lead to a larger share of wage employment conducted under remote work formats given their social/physical distancing properties. Social support at work may 1 Note that the COVID-19 crisis and its aftermath may contribute to the growth of self-employment, as wage employment opportunities in the labor market will decrease. keywords: data; effects; employment; health; hospitalization; individuals; job; model; self; stress; wage; workers cache: cord-026742-us7llnva.txt plain text: cord-026742-us7llnva.txt item: #73 of 435 id: cord-026827-6vjg386e author: Awan, Ammar Ahmad title: HyPar-Flow: Exploiting MPI and Keras for Scalable Hybrid-Parallel DNN Training with TensorFlow date: 2020-05-22 words: 6158 flesch: 51 summary: Two-node results for model parallelism are presented using VGG-16 and ResNet-1001-v2. Between model partitions, we use send and recv to exchange layer-data/partial-errors while allreduce is used to accumulate/average gradients across model replicas. keywords: communication; data; flow; hybrid; hypar; model; parallelism; partitions; performance; training cache: cord-026827-6vjg386e.txt plain text: cord-026827-6vjg386e.txt item: #74 of 435 id: cord-026949-nu46ok9w author: Varshney, Deeksha title: Natural Language Generation Using Transformer Network in an Open-Domain Setting date: 2020-05-26 words: 2921 flesch: 46 summary: Lately, generation based models have become quite popular. We formulate our task of response generation as a machine translation problem. keywords: decoder; dialog; generation; input; model; responses; systems cache: cord-026949-nu46ok9w.txt plain text: cord-026949-nu46ok9w.txt item: #75 of 435 id: cord-027119-zazr8uj5 author: Taif, Khasrouf title: Cast Shadow Generation Using Generative Adversarial Networks date: 2020-05-25 words: 4031 flesch: 50 summary: Which is understandable given the small number of training images. Hence, the number of training images was increased to 200 per case, to increase the training set to 1600 images. keywords: colour; image; learning; model; networks; set; shadows; training cache: cord-027119-zazr8uj5.txt plain text: cord-027119-zazr8uj5.txt item: #76 of 435 id: cord-027201-owzhv0xy author: Tkacz, Magdalena A. title: Advantage of Using Spherical over Cartesian Coordinates in the Chromosome Territories 3D Modeling date: 2020-06-15 words: 3145 flesch: 48 summary: The euchromatin was the starting point to model chromatin structure for us: we decided to model chromatin (and arms of chromosomes) as a sequence of tangent spheres (Fig. 2 ) -visually very similar to euchromatin (see Fig. 1 ). We made measurements -time necessary to generate CT models (equivalent to the time of CD simulation) with shifting coordinate system and using spherical coordinates is presented in Table 3 . keywords: chromatin; chromosome; coordinates; model; process; sphere cache: cord-027201-owzhv0xy.txt plain text: cord-027201-owzhv0xy.txt item: #77 of 435 id: cord-027228-s32v6bmd author: Subramanian, Vigneshwar title: Editorial: Why is modeling COVID-19 so difficult? date: 2020-06-19 words: 1118 flesch: 45 summary: Similarly, individual models can help clinicians design a management plan that has the best predicted outcome for each unique patient. When considering the value of COVID-19 models, there are several questions we must consider. keywords: assumptions; covid-19; model cache: cord-027228-s32v6bmd.txt plain text: cord-027228-s32v6bmd.txt item: #78 of 435 id: cord-027286-mckqp89v author: Ksieniewicz, Paweł title: Pattern Recognition Model to Aid the Optimization of Dynamic Spectrally-Spatially Flexible Optical Networks date: 2020-05-23 words: 4313 flesch: 48 summary: Further research, developing ideas presented in this article, will focus on the generalization of the presented model for a wider pool of network optimization problems. In Sect. 2, we introduce studied network optimization problem. keywords: atd; demand; model; network; number; optimization; problem; regression; vector cache: cord-027286-mckqp89v.txt plain text: cord-027286-mckqp89v.txt item: #79 of 435 id: cord-027315-1i94ye79 author: Bielecki, Andrzej title: Simulation of Neurotransmitter Flow in Three Dimensional Model of Presynaptic Bouton date: 2020-05-22 words: 2832 flesch: 54 summary: Dissertation Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins High-fidelity geometric modeling for biomedical applications New software developments for quality mesh generation and optimization from biomedical imaging data The natural reference point for assessing their quality is to compare them to the images of real boutons which have been thoroughly examined, for example, several years ago [17, 18] . keywords: bouton; mesh; model; neurotransmitter; synaptic; time cache: cord-027315-1i94ye79.txt plain text: cord-027315-1i94ye79.txt item: #80 of 435 id: cord-027316-echxuw74 author: Modarresi, Kourosh title: Detecting the Most Insightful Parts of Documents Using a Regularized Attention-Based Model date: 2020-05-22 words: 2117 flesch: 35 summary: Deep Learning Summit Standardization of featureless variables for machine learning models using natural language processing Generalized variable conversion using k-means clustering and web scraping An efficient deep learning model for recommender systems Effectiveness of Representation Learning for the Analysis of Human Behavior An evaluation metric for content providing models, recommendation systems, and online campaigns Combined Loss Function for Deep Convolutional Neural Networks A Randomized Algorithm for the Selection of Regularization Parameter. A neural probabilistic language model Theano: a CPU and GPU math expression compiler Audio chord recognition with recurrent neural networks A singular value thresholding algorithm for matrix completion Exact matrix completion via convex optimization Compressive sampling Long short-term memory-networks for machine reading Learning phrase representations using RNN encoder-decoder for statistical machine translation Framewise phoneme classification with bidirectional LSTM and other neural network architectures Generating sequences with recurrent neural networks The Elements of Statistical Learning; Data miNing, Inference and Prediction Handwritten digit recognition via deformable prototypes Gene Shaving' as a method for identifying distinct sets of genes with similar expression patterns Matrix Completion via Iterative Soft-Thresholded SVD Package 'impute'. keywords: embedding; encoder; learning; model; neural; translation cache: cord-027316-echxuw74.txt plain text: cord-027316-echxuw74.txt item: #81 of 435 id: cord-027318-hinho0mh author: Zak, Matthew title: Classification of Lung Diseases Using Deep Learning Models date: 2020-05-22 words: 4067 flesch: 49 summary: We tried all models with three deep net classifiers (VGG16, ResNet-50, Incep-tionV3) in the task of classification of lung images into two classes: pneumonia and tuberculosis. We created lung diseases classification pipeline based on transfer learning that was applied to small datasets of lung images. keywords: chest; classification; dataset; images; learning; lung; models; network cache: cord-027318-hinho0mh.txt plain text: cord-027318-hinho0mh.txt item: #82 of 435 id: cord-027336-yk3cs8up author: Paciorek, Mateusz title: Scalable Signal-Based Simulation of Autonomous Beings in Complex Environments date: 2020-05-22 words: 4315 flesch: 48 summary: BEEHAVE: a systems model of honeybee colony dynamics and foraging to explore multifactorial causes of colony failure High-performance computing framework with desynchronized information propagation for large-scale simulations Exploitation of high performance computing in the flame agent-based simulation framework Repast HPC: a platform for large-scale agent-based modeling Super-scalable algorithms for computing on 100,000 processors Simulation of freeway traffic on a general-purpose discrete variable computer Pre-evacuation data collected from a mid-rise evacuation exercise A cellular automaton model for freeway traffic HPC large-scale pedestrian simulation based on proxemics rules Verification and validation of simulation models Cellular automaton model for evacuation process with obstacles Genealogy of traffic flow models Towards realistic and effective agent-based models of crowd dynamics Scalable agent-based modelling with cloud HPC resources for social simulations Crowd analysis: a survey Acknowledgments. The method requires defining dedicated simulation models, however, in return it can provide linear scalability of simulation. keywords: beings; cell; evacuation; grid; model; people; signal; simulation cache: cord-027336-yk3cs8up.txt plain text: cord-027336-yk3cs8up.txt item: #83 of 435 id: cord-027337-eorjnma3 author: Fratrič, Peter title: Integrating Agent-Based Modelling with Copula Theory: Preliminary Insights and Open Problems date: 2020-05-22 words: 4864 flesch: 44 summary: Springer Texts in Statistics Autoregressive conditional heteroscedasticity with estimates of the variance of United Kingdom inflation Volatility and Time Series Econometrics: Essays in Honor of Robert Engle An Introduction to Copulas Dependence Modeling with Copulas A review of copula models for economic time series Copulas and Its Application in Hydrology and Water Resources Typically, agent models are manually specified from known or plausible templates of behaviour. keywords: agent; copula; dependence; level; market; model; time; variables cache: cord-027337-eorjnma3.txt plain text: cord-027337-eorjnma3.txt item: #84 of 435 id: cord-027438-ovhzult0 author: Veen, Lourens E. title: Easing Multiscale Model Design and Coupling with MUSCLE 3 date: 2020-05-25 words: 4558 flesch: 51 summary: Simulation models of multiscale systems (multiscale models for short), are typically coupled simulations: they consist of several submodels between which information is exchanged. Uncertainty Quantification of simulation models is an important part of their evaluation. keywords: coupling; framework; model; multiscale; muscle; simulation; state; submodels cache: cord-027438-ovhzult0.txt plain text: cord-027438-ovhzult0.txt item: #85 of 435 id: cord-028420-z8sv9f5k author: Filighera, Anna title: Fooling Automatic Short Answer Grading Systems date: 2020-06-09 words: 4284 flesch: 53 summary: This kind of universal trigger attack is especially critical as such triggers can be easily employed by anyone once they are found. It generates short sequences of tokens, called universal adversarial triggers, which try to make a model predict a target class regardless of the actual sample. keywords: answer; attacks; cheating; class; model; triggers cache: cord-028420-z8sv9f5k.txt plain text: cord-028420-z8sv9f5k.txt item: #86 of 435 id: cord-028636-wxack9zv author: Hachicha, A. title: Analysis of the bitcoin stock market indexes using comparative study of two models SV with MCMC algorithm date: 2020-07-06 words: 5258 flesch: 54 summary: An analysis of stocks, bonds and gold Bitcoin gold and the US dollar-a replication and extension Bitcoin, gold and the US dollar-a replication and extension Studies of stock market volatility changes Japans BITpoint to add bitcoin payments to retail outlets Some central banks are exploring the use of cryptocurrencies Spillovers between bitcoin and other assets during bear and bull markets Explosive behavior in the prices of Bitcoin and altcoins Cagli The impact of monetary policy shocks on stock market bubbles: International evidence Explaining the Gibbs sampler The jump behavior of foreign exchange market: analysis of ThaiBaht Markov Chain Monte Carlo methods for stochastic volatility models Financial market volatility, macroeconomic fundamentals and investor sentiment South Korea officially legalizes bitcoin, huge market for traders Oops, I forgot the light on! More recently, stock market volatility was relatively high in 2015-when the fall of Chinese stock indices spread to the United States and Europe-and when Brexit was voted in mid-2016. keywords: bitcoin; chain; indices; market; mcmc; model; price; stochastic; stock; svol; volatility cache: cord-028636-wxack9zv.txt plain text: cord-028636-wxack9zv.txt item: #87 of 435 id: cord-028789-dqa74cus author: Ouhami, Maryam title: Deep Transfer Learning Models for Tomato Disease Detection date: 2020-06-05 words: 2696 flesch: 51 summary: Nevertheless, according to the accuracies listed, the approaches based on deep learning models outperformed the approaches based on feature engineering. Plant Phenom Deep leaning approach with colorimetric spaces and vegetation indices for vine diseases detection in UAV images Deep learning for plant diseases: detection and saliency map visualisation Image set for deep learning: field images of maize annotated with disease symptoms An open access repository of images on plant health to enable the development of mobile disease diagnostics Densely connected convolutional networks Very deep convolutional networks for large-scale image recognition A comparative study of fine-tuning deep learning models for plant disease identification VGG16 for plant image classification with transfer learning and data augmentation Deep learning with unsupervised data labeling for weed detection in line crops in UAV images Using deep learning for image-based plant disease detection Imagenet: a large-scale hierarchical image database Performance analysis of Google Colaboratory as a tool for accelerating deep learning applications Deep Learning with Python Acknowledgment. keywords: blight; images; layers; learning; models; plant; study cache: cord-028789-dqa74cus.txt plain text: cord-028789-dqa74cus.txt item: #88 of 435 id: cord-029311-9769dgb6 author: Nemati, Hamed title: Validation of Abstract Side-Channel Models for Computer Architectures date: 2020-06-13 words: 8435 flesch: 50 summary: The way in which we compare final cache states for distinguishability depends on the attacker and observational model in question. For example, in a two-way set associative cache, accessing a, a and a, b, where both a and b have the same cache set index but different cache tags, may result in different cache states. keywords: attacker; attacks; cache; execution; information; memory; model; observations; program; set; states; test cache: cord-029311-9769dgb6.txt plain text: cord-029311-9769dgb6.txt item: #89 of 435 id: cord-030681-4brd2efp author: Friston, Karl J. title: Dynamic causal modelling of COVID-19 date: 2020-08-07 words: 18453 flesch: 50 summary: Dynamic causal modelling subsumes state estimation and system identification under one Bayesian procedure, to provide probability densities over unknown latent states (i.e., state estimation) and model parameters (i.e., system identification), respectively. However, this requires the estimation of the uncertainty about model parameters and states, which is necessary to evaluate the (marginal) likelihood of the data at hand. keywords: country; data; distancing; example; home; immunity; model; model parameters; modelling; number; parameters; people; population; predictions; probability; states; time cache: cord-030681-4brd2efp.txt plain text: cord-030681-4brd2efp.txt item: #90 of 435 id: cord-030683-xe9bn1cc author: Wang, Wenxi title: A Study of Symmetry Breaking Predicates and Model Counting date: 2020-03-13 words: 6670 flesch: 51 summary: Model count (#) and time taken in seconds (t[s]) for different problem sizes are shown. For model counts, we report the tool output and the ratio of the count under one setting to the count under another setting. keywords: alloy; breaking; cnf; count; counting; level; model; predicates; problem; symmetry; symmetry breaking cache: cord-030683-xe9bn1cc.txt plain text: cord-030683-xe9bn1cc.txt item: #91 of 435 id: cord-030686-wv77zwsc author: Budde, Carlos E. title: FIG: The Finite Improbability Generator date: 2020-03-13 words: 2026 flesch: 58 summary: Coupling and importance sampling for statistical model checking Automation of Importance Splitting Techniques for Rare Event Simulation FIG: the Finite Improbability Generator. ASQC basic references in quality control Command-based importance sampling for statistical model checking PRISM 4.0: Verification of probabilistic real-time systems Splitting techniques Plasma Lab: A modular statistical model checking platform SBIP 2.0: Statistical model checking stochastic real-time systems Stochastic Automata for Fault Tolerant Concurrent Systems Introduction to rare event simulation Rare Event Simulation Using Monte Carlo Methods Rare event simulation for dynamic fault trees Advanced RESTART method for the estimation of the probability of failure of highly reliable hybrid dynamic systems Importance functions for restart simulation of general Jackson networks RESTART vs Splitting: A comparative study Rare event simulation of non-Markovian queueing networks using RESTART method RESTART: a method for accelerating rare event simulations Probable inference, the law of succession, and statistical inference Probabilistic verification of discrete event systems using acceptance sampling Acknowledgments. keywords: event; fig; importance; model; simulation cache: cord-030686-wv77zwsc.txt plain text: cord-030686-wv77zwsc.txt item: #92 of 435 id: cord-031143-a1qyadm6 author: Pinto Neto, Osmar title: Compartmentalized mathematical model to predict future number of active cases and deaths of COVID-19 date: 2020-08-30 words: 5291 flesch: 46 summary: Lack of testing and under-notification of active cases has been largely reported for the COVID-19 (Hasell et al. 2020; WorldoMeter, 2020; UFPel, 2020) ; in consequence, active cases data were corrected by a factor. Our main findings were as follows: (a) our model was able to accurately fit the either deaths or active cases data of all countries tested independent of what stage of the epidemic they were using optimized coefficient values in agreement with recent reports; (b) when trying to fit both sets of data at the same time, fit was good for some countries, but not for all; (c) using our model, large ranges for each input, and (black circles for deaths and green circle for active cases). keywords: cases; covid-19; data; deaths; model; number; rate; results cache: cord-031143-a1qyadm6.txt plain text: cord-031143-a1qyadm6.txt item: #93 of 435 id: cord-031232-6cv8n2bf author: de Weck, Olivier title: Handling the COVID‐19 crisis: Toward an agile model‐based systems approach date: 2020-08-27 words: 7909 flesch: 45 summary: In this paper, we draw attention to the core importance of having realistic system models to manage and to mitigate a systemic crisis of the order of magnitude such as the COVID-19 crisis. In this paper, authors from several of the key countries involved in COVID‐19 propose a holistic systems model that views the problem from a perspective of human society including the natural environment, human population, health system, and economic system. keywords: approach; confinement; covid-19; covid-19 crisis; crisis; epidemic; health; human; models; population; society; system; time cache: cord-031232-6cv8n2bf.txt plain text: cord-031232-6cv8n2bf.txt item: #94 of 435 id: cord-031460-nrxtfl3i author: Sharma, Vikas Kumar title: Modeling and Forecasting of COVID-19 Growth Curve in India date: 2020-09-05 words: 6143 flesch: 60 summary: Since many real-life datasets consist of an element of non-stationarity, to model such datasets, ARIMA model was developed. ( , 2015 for more details on ARIMA model, estimation and its application. keywords: arima; cases; covid-19; data; exponential; growth; india; model; time; values cache: cord-031460-nrxtfl3i.txt plain text: cord-031460-nrxtfl3i.txt item: #95 of 435 id: cord-031957-df4luh5v author: dos Santos-Silva, Carlos André title: Plant Antimicrobial Peptides: State of the Art, In Silico Prediction and Perspectives in the Omics Era date: 2020-09-02 words: 16639 flesch: 34 summary: Thus, there is a need for computational framework methods to predict protein structures based on the knowledge of the sequence. In addition, in recent years, there has been impressive progress in the development of algorithms for protein folding that may aid in the prediction of protein structures from amino acid sequence information. keywords: acid; activity; amps; analysis; antifungal; approaches; binding; bonds; cysteine; database; defensins; disulfide; docking; family; figure; function; gene; identification; information; lipid; methods; modeling; models; motif; novel; pathogen; peptides; plant; potential; prediction; present; protein; residues; sequence; structure cache: cord-031957-df4luh5v.txt plain text: cord-031957-df4luh5v.txt item: #96 of 435 id: cord-032413-zbbpfaj4 author: Lu, Shasha title: A Novel Feature Selection Approach Based on Tree Models for Evaluating the Punching Shear Capacity of Steel Fiber-Reinforced Concrete Flat Slabs date: 2020-09-03 words: 6298 flesch: 44 summary: Due to the same conditions with tree models, tree depth was evaluated as the most effective parameter. [62] studied the sophisticated data analysis approach for estimating shear punching capacity. keywords: concrete; data; models; prediction; punching shear; sfrc; shear capacity; shear strength; slabs; steel; strength; tree cache: cord-032413-zbbpfaj4.txt plain text: cord-032413-zbbpfaj4.txt item: #97 of 435 id: cord-033010-o5kiadfm author: Durojaye, Olanrewaju Ayodeji title: Potential therapeutic target identification in the novel 2019 coronavirus: insight from homology modeling and blind docking study date: 2020-10-02 words: 8149 flesch: 48 summary: Qualitative Model Energy Analysis (QMEAN) is a composite scoring function that describes protein structures on the basis of major geometrical aspects. A novel coronavirus and SARS Crystal structures of the main peptidase from the SARS coronavirus inhibited by a substrate-like aza-peptide epoxide Dissection study on the SARS 3C-like protease reveals the critical role of the extra domain in dimerization of the enzyme: defining the extra domain as a new target for design of highly-specific protease inhibitors 3C-like proteinase from SARS coronavirus catalyzes substrate hydrolysis by a general base mechanism Only one protomer is active in the dimer of SARS 3C-like proteinase Biosynthesis, purification, and substrate specificity of severe acute respiratory syndrome coronavirus 3C-like proteinase A trial of lopinavir-ritonavir in adults hospitalized with severe covid-19 EMBOSS: the European molecular biology open software suite SRS, an indexing and retrieval tool for flat file data libraries Issues in bioinformatics benchmarking: the case study of multiple sequence alignment HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 Toward the estimation of the absolute quality of individual protein structure models MolProbity: more and better reference data for improved all-atom structure validation Chapter 2: Protein Composition and Structure Modeling protein quaternary structure of homo-and hetero-oligomers beyond binary interactions by homology UCSF chimera-a visualization system for exploratory research and analysis Fasman GD (1974) Prediction of protein conformation Protein Identification and Analysis Tools on the ExPASy Server The rapid generation of mutation data matrices from protein sequences MEGA7: keywords: 2019; acid; amino; amino acid; binding; coronavirus; docking; model; ncov; protein; proteinase; sars; score; sequence; structure; target protein; template cache: cord-033010-o5kiadfm.txt plain text: cord-033010-o5kiadfm.txt item: #98 of 435 id: cord-033882-uts6wfqw author: Khakharia, Aman title: Outbreak Prediction of COVID-19 for Dense and Populated Countries Using Machine Learning date: 2020-10-16 words: 5857 flesch: 60 summary: Although the overall accuracy achieved was very good, we are still trying to implement prediction models using different algorithms that could give us higher accuracy. By using the data of these countries, we trained standard prediction models using multiple ML algorithms and obtained different accuracy for each of the models for different countries. keywords: accuracy; cases; countries; covid-19; data; error; model; number; prediction; values cache: cord-033882-uts6wfqw.txt plain text: cord-033882-uts6wfqw.txt item: #99 of 435 id: cord-034181-ji4empe6 author: Saqib, Mohd title: Forecasting COVID-19 outbreak progression using hybrid polynomial-Bayesian ridge regression model date: 2020-10-23 words: 4642 flesch: 46 summary: Bayesian inference based approach is really important to conduct for COVID-19 pandemic rather than doing point estimations because it makes it possible to obtain probability density functions for model parameters and estimate the uncertainty that is important in the risk assessment analytics. In the Bayesian regression approach, we can take into account Other models are developed with good accuracy but as well as data become available, those entire algorithms will not able to survive without a few evaluations due to the dynamic nature of pandemic escalation of the COVID-19 but the proposed model corrects the distributions for model parameters and forecasting results using parameters distributions. keywords: bayesian; cases; covid-19; data; distribution; fig; model; pandemic; prediction cache: cord-034181-ji4empe6.txt plain text: cord-034181-ji4empe6.txt item: #100 of 435 id: cord-034834-zap82dta author: Bai, Xiao title: A Review of Micro-Based Systemic Risk Research from Multiple Perspectives date: 2020-06-27 words: 14933 flesch: 36 summary: Financial systemic risk research can be said to be the most intersecting field between finance and even economics and other disciplines. Meanwhile, cross-disciplinary research methods from other disciplines have been introduced, such as the introduction of complex network models when studying the structural stability of the system, linking the contagious effects of financial systemic risks to the transmission pathways of infectious diseases or bio-food chains [1] [2] keywords: bank; banking; contagion; credit; crisis; crisis research; economic; economy; impact; institutions; investment; liquidity; market; mechanism; methods; micro; model; network; risk; risk research; structure; system; theory cache: cord-034834-zap82dta.txt plain text: cord-034834-zap82dta.txt item: #101 of 435 id: cord-034839-6xctzwng author: Bień-Barkowska, Katarzyna title: Looking at Extremes without Going to Extremes: A New Self-Exciting Probability Model for Extreme Losses in Financial Markets date: 2020-07-20 words: 9894 flesch: 52 summary: This deficit of POT VaR models is recouped by their accuracy at low q levels. One of the first dynamic specifications of POT models that took into account the volatility clustering phenomenon and allowed economists to perceive VaR as a conditional quantile was a two-stage method developed in [3] . keywords: conditional; distribution; function; losses; model; pot; pot model; pot var; probability; risk; sep; threshold; time; var; var model cache: cord-034839-6xctzwng.txt plain text: cord-034839-6xctzwng.txt item: #102 of 435 id: cord-034843-cirltmy4 author: Nabipour, M. title: Deep Learning for Stock Market Prediction date: 2020-07-30 words: 8850 flesch: 52 summary: Complexity Stock Market Trend Prediction Using High-Order Information of Time Series Prediction of Stock Market Using Neural Network Strategies Global stock market prediction based on stock chart images using deep Q-network A numerical-based attention method for stock market prediction with dual information ModAugNet: A new forecasting framework for stock market index value with an overfitting prevention LSTM module and a prediction LSTM module Genetic algorithm-optimized long short-term memory network for stock market prediction Which artificial intelligence algorithm better predicts the Chinese stock market Stock market prediction on high-frequency data using generative adversarial nets Deep learning networks for stock market analysis and prediction: Methodology, data representations, and case studies Deep learning-based feature engineering for stock price movement prediction. [36] tried to examine the performance of deep learning algorithms for stock market prediction with three unsupervised feature extraction ways, PCA, restricted Boltzmann machine and auto encoder. keywords: data; learning; lstm; market; models; neural; output; prediction; stock; stock market; time; tree; value cache: cord-034843-cirltmy4.txt plain text: cord-034843-cirltmy4.txt item: #103 of 435 id: cord-034846-05h2no14 author: Singer, Gonen title: Ordinal Decision-Tree-Based Ensemble Approaches: The Case of Controlling the Daily Local Growth Rate of the COVID-19 Epidemic date: 2020-08-07 words: 7267 flesch: 44 summary: In Section 2.2, we develop ordinal AdaBoost and random forest algorithms based on ordinal decision tree models that use this measure. A novel heuristic rule learning approach for ordinal classification with monotonicity constraints Learning and classification of monotonic ordinal concepts Monotonicity maintenance in information-theoretic machine learning algorithms Monotone classification with decision trees Monotonic classification extreme learning machine Adding monotonicity to learning algorithms may impair their accuracy A weighted information-gain measure for ordinal classification trees An objective-based entropy approach for interpretable models in support of human resource management: The case of absenteeism at work Evaluation of the effect of learning disabilities and accommodations on the prediction of the stability of academic behaviour of undergraduate engineering students using decision trees Identification of subgroups of terror attacks with shared characteristics for the purpose of preventing mass-casualty attacks: A data-mining approach Decision tree ensemble method for analyzing traffic accidents of novice drivers in urban areas Neural Networks for Pattern Recognition On combining classifiers EBOC: Ensemble-based ordinal classification in transportation A novel classifier ensemble approach for financial distress prediction Comparative analysis of decision tree algorithms: ID3, C4.5 and random forest Random forest in remote sensing: A review of applications and future directions Congestive heart failure detection using random forest classifier The performance comparison of Adaboost and SVM applied to SAR ATR Modest AdaBoost-Teaching AdaBoost to generalize better A robust multi-class AdaBoost algorithm for mislabeled noisy data. keywords: adaboost; classification; classifiers; decision; forest; growth; models; performance; random; value cache: cord-034846-05h2no14.txt plain text: cord-034846-05h2no14.txt item: #104 of 435 id: cord-035388-n9hza6vm author: Xu, Jie title: Federated Learning for Healthcare Informatics date: 2020-11-12 words: 6144 flesch: 38 summary: The next generation of precision medicine: observational studies, electronic health records, biobanks and continuous monitoring National health information privacy: regulations under the health insurance portability and accountability act Robust aggregation for adaptive privacy preserving federated learning in healthcare KETOS: Clinical decision support and machine learning as a service-A training and deployment platform based on Docker One-shot federated learning Distributed learning of deep neural network over multiple agents Deep compression: compressing deep neural networks with pruning, trained quantization and huffman coding Robust federated training via collaborative machine teaching using trusted instances Federated learning for mobile keyboard prediction Private federated learning on vertically partitioned data via entity resolution and additively homomorphic encryption Central server free federated learning over single-sided trust social networks The Rationale for Learning Communities and Learning Community Models Distilling the knowledge in a neural network Observational health data sciences and informatics (ohdsi): opportunities for observational researchers Patient clustering improves efficiency of federated machine learning to predict mortality and hospital stay time using distributed electronic medical records Privacy preserving qoe modeling using collaborative learning Mining electronic health records: towards better research applications and clinical care Improving federated learning personalization via model agnostic meta learning A survey towards federated semi-supervised learning Mimic-iii, a freely accessible critical care database Advances and open problems in federated learning Efficient decentralized deep learning by dynamic model averaging Incentive design for efficient federated learning in mobile networks: A contract theory approach Credit risk assessment from combined bank records using federated learning Federated tensor factorization for computational phenotyping Federated optimization: distributed optimization beyond the datacenter Federated optimization: distributed machine learning for on-device intelligence Federated learning: strategies for improving communication efficiency Survey of personalization techniques for federated learning Peer-to-peer federated learning on graphs Deep learning Privacy-preserving patient similarity learning in a federated environment: development and analysis Federated optimization for heterogeneous networks Fair resource allocation in federated learning Distributed learning from multiple ehr databases: Contextual embedding models for medical events Two-stage federated phenotyping and patient representation learning Threats to federated learning: a survey Communication-efficient learning of deep networks from decentralized data Learning differentially private recurrent language models Predictive modeling of the hospital readmission risk from patients' claims data using machine learning: A case study on copd Deep learning for healthcare: review, opportunities and challenges Agnostic federated learning System and method for dynamic context-sensitive federated search of multiple information repositories Client selection for federated learning with heterogeneous resources in mobile edge Dissecting racial bias in an algorithm used to manage the health of populations Multiparty differential privacy via aggregation of locally trained classifiers Large-scale assessment of a smartwatch to identify atrial fibrillation Federated and differentially private learning for electronic health records The eicu collaborative research database, a freely available multi-center database for critical care research Modern framework for distributed healthcare data analytics based on hadoop A model and infrastructure for federated learning content repositories Accelerating dnn training in wireless federated edge learning system Braintorrent: a peer-to-peer environment for decentralized federated learning Learning in a large function space: privacypreserving mechanisms for svm learning A generic framework for privacy preserving deep learning Federated learning for ultra-reliable lowlatency v2v communications Robust and communication-efficient federated learning from non-iid data Preserving patient privacy while training a predictive model of in-hospital mortality Biscotti: a ledger for private and secure peer-topeer machine learning Privacy-preserving deep learning Federated learning in distributed medical databases: meta-analysis of large-scale subcortical brain data An investigation into on-device personalization of end-to-end automatic speech recognition models Using the adap learning algorithm to forecast the onset of diabetes mellitus Federated multi-task learning Multiparty privacy in social media unfriendly: multi-party privacy risks in social networks Federated learning: rewards & challenges of distributed private ml A hybrid approach to privacy-preserving federated learning Federated learning of electronic health records improves mortality prediction in patients hospitalized with covid-19 medRxiv Deep reinforcement learning with double q-learning Split learning for health: distributed deep learning without sharing raw patient data Ai in health: state of the art, challenges, and future directions -edge ai: Intelligentizing mobile edge computing, caching and communication by federated learning Federated learning for healthcare informatics Federated patient hashing Federated machine learning: concept and applications A federated learning framework for healthcare iot devices Federated learning with non-iid data Mobile edge computing, blockchain and reputationbased crowdsourcing iot federated learning: a secure, decentralized and privacy-preserving system Multi-objective evolutionary federated learning Federated reinforcement learning Publisher's Note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations Conflict of Interest The authors declare that they have no conflict of interest. In particular, we summarize the general solutions to the statistical challenges, system challenges, and privacy issues in federated learning, and point out the implications and potentials in healthcare. keywords: clients; communication; data; healthcare; learning; machine; mobile; model; patient; privacy; server; training cache: cord-035388-n9hza6vm.txt plain text: cord-035388-n9hza6vm.txt item: #105 of 435 id: cord-048325-pk7pnmlo author: Hanley, Brian title: An object simulation model for modeling hypothetical disease epidemics – EpiFlex date: 2006-08-23 words: 8902 flesch: 56 summary: There is also a cell exchange fraction specifiable to model hosts moving from cell to cell. Disease Vectors introduce disease into host populations at some location in some area, in either a limited way or on a regular cycle. keywords: area; contact; data; demographic; disease; epiflex; figure; hosts; immunity; influenza; location; model; modeling; number; population cache: cord-048325-pk7pnmlo.txt plain text: cord-048325-pk7pnmlo.txt item: #106 of 435 id: cord-048353-hqc7u9w3 author: Chis Ster, Irina title: Transmission Parameters of the 2001 Foot and Mouth Epidemic in Great Britain date: 2007-06-06 words: 6400 flesch: 50 summary: When fitting models with time varying infectivity parameters we actually fit I post and the ratio m This may seem paradoxical but reflects the fact that while culling (the effect of which is explicitly included in the input data) dramatically reduced case incidence in April, from May to September 2001, case incidence maintained itself at a low level -but almost entirely within cattle farms. keywords: cattle; epidemic; farms; infected; infection; infectivity; model; parameters; sheep; species; time cache: cord-048353-hqc7u9w3.txt plain text: cord-048353-hqc7u9w3.txt item: #107 of 435 id: cord-048461-397hp1yt author: Coelho, Flávio C title: Epigrass: a tool to study disease spread in complex networks date: 2008-02-26 words: 4005 flesch: 50 summary: This has led to the development of network epidemic models. One may classify network epidemic models according to node behavior. keywords: disease; epidemic; epigrass; model; network; node; number; simulation; spread cache: cord-048461-397hp1yt.txt plain text: cord-048461-397hp1yt.txt item: #108 of 435 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: backbone; disorder; dna; lengths; localisation; model; sequences; transport cache: cord-102359-k1xxz4hc.txt plain text: cord-102359-k1xxz4hc.txt item: #109 of 435 id: cord-102850-0kiypige author: Huang, C.-C. title: A Machine Learning Study to Improve Surgical Case Duration Prediction date: 2020-06-12 words: 4731 flesch: 49 summary: It revealed the importance of operation and surgeon factors in operation case duration prediction. We applied multiple ML methods for operation case duration prediction. keywords: case; data; duration; license; model; operation; preprint cache: cord-102850-0kiypige.txt plain text: cord-102850-0kiypige.txt item: #110 of 435 id: cord-103280-kf6mqv4e author: Bergs, Thomas title: Determination of Johnson-Cook material model parameters for AISI 1045 from orthogonal cutting tests using the Downhill-Simplex algorithm date: 2020-12-31 words: 7780 flesch: 42 summary: These results motivated for the development of a methodology capable to determine material model parameters robust and inversely from the machining process, which can be used with lower computational effort. By using the Downhill-Simplex-Algorithm, it was possible to determine material model parameters within 17 iterations and achieving an average deviation between the experiment and the simulations below 10 %. keywords: chip; cutting; cutting process; force; machining; material; material model; model; model parameters; parameters; process; results cache: cord-103280-kf6mqv4e.txt plain text: cord-103280-kf6mqv4e.txt item: #111 of 435 id: cord-103435-yufvt44t author: van Aalst, Marvin title: Constructing and analysing dynamic models with modelbase v1.0 - a software update date: 2020-10-02 words: 4087 flesch: 32 summary: Mathematical models based on a system of differential equations that link the dosing regimen with the dynamics of a disease are called pharmacokinetic-pharmacodynamic (PK-PD) models [30] and with the next example we explore how modelbase can be used to develop such models. Mathematical models are accepted as valuable tools in advancing biological and medical research keywords: construction; drug; label; modelbase; modelling; models; process; results; software; systems cache: cord-103435-yufvt44t.txt plain text: cord-103435-yufvt44t.txt item: #112 of 435 id: cord-103502-asphso2s author: Herrgårdh, Tilda title: An organ-based multi-level model for glucose homeostasis: organ distributions, timing, and impact of blood flow date: 2020-10-21 words: 8166 flesch: 51 summary: Another application of glucose homeostasis models exist for meal response T2D simulator model, developed for pedagogical and motivational purposes (Maas et al. 2015) . Original multi-level model Rejected by Figure 2 Updated glucose distribution among organs Can describe Figure 2 Rejected by Figure 3 Updated glucose dynamic behaviours by improving interstitial fluid insulin Can describe Figure 3 Rejected by Figure 4 Updated glucose dynamic behaviours by redesigning an intracellular model Can describe Figure 4 Rejected by Figure 5 Blood flow has an influence on adipose tissue glucose uptake Rejected by Figure 5 Insulin has an influence on adipose tissue glucose uptake The impact of mathematical modeling on the understanding of diabetes and related complications Model-Based Interspecies Scaling of Glucose Homeostasis The Computational Patient has Diabetes and a COVID Physiologic evaluation of factors controlling glucose tolerance in man. keywords: adipose; blood; data; et al; fig; glucose; glucose uptake; insulin; model; muscle; tissue; uptake cache: cord-103502-asphso2s.txt plain text: cord-103502-asphso2s.txt item: #113 of 435 id: cord-103913-jgko7b0j author: Macedo, A. M. S. title: A comparative analysis between a SIRD compartmental model and the Richards growth model date: 2020-08-06 words: 3035 flesch: 43 summary: Growth models, however, have the drawback that their parameters may not be easily interpreted in terms of standard epidemiological concepts [16] , as can the parameters of the usual compartmental models. A glaring instance of the inadequacy of standard compartmental models for the COVID-19 epidemic is their inability to predict the power-law behavior often seen in the early-growth regime as well as in the saturation phase of the accumulated death curves-a feature that is well captured by growth models [15] , as already mentioned. keywords: covid-19; medrxiv; model; parameters; preprint; sird cache: cord-103913-jgko7b0j.txt plain text: cord-103913-jgko7b0j.txt item: #114 of 435 id: cord-104133-d01joq23 author: Arthur, Ronan F. title: Adaptive social contact rates induce complex dynamics during epidemics date: 2020-07-14 words: 5242 flesch: 46 summary: A common approach to incorporating behavior into epidemic models is to 64 track co-evolving dynamics of behavior and infection [16, 19, 20] , where behavior 65 represents an i-state of the model [21] . The spread of awareness and its 532 Proceedings of the National Academy of Sciences A review The Dynamics of Physiologically Structured Populations Periodicity in epidemiological models Measles in England and Wales-I: an analysis of factors 544 underlying seasonal patterns Seasonal and interannual cycles of endemic cholera in 547 Bengal 1891-1940 in relation to climate and geography Etiology of Newly Emerging Marine Diseases Epidemic cycles driven by host behaviour Periodic solutions of delay differential equations 552 arising in some models of epidemics A contribution to the mathematical theory of 555 epidemics The Royal Society Modeling infectious diseases in humans and animals Princeton University Press Time series modelling of childhood diseases dynamical systems approach Adaptive human behavior in epidemiological models Choices, beliefs, and infectious disease dynamics Higher disease prevalence can 568 induce greater sociality: a game theoretic coevolutionary model Global stability of an SIR epidemic 571 Global stability for the SEIR model in epidemiology Scipy-based delay differential equation (dde) solver The strategy of building models of complex ecological systems Simple mathematical models with very complicated dynamics Journal of the Fisheries Board of Canada Time-delay versus stability in population models with two and three 587 trophic levels Time delays are not necessarily destabilizing Different epidemic curves for severe acute respiratory 591 Rational epidemics and their public control Group interest versus self-interest in smallpox 596 vaccination policy keywords: behavior; contact; disease; dynamics; epidemic; model; number; time cache: cord-104133-d01joq23.txt plain text: cord-104133-d01joq23.txt item: #115 of 435 id: cord-104486-syirijql author: Adiga, Aniruddha title: Data-driven modeling for different stages of pandemic response date: 2020-09-21 words: 7181 flesch: 39 summary: As with any mathematical modeling effort, data plays a big role in the utility of such models. Similar to the importation risk, such models may provide an estimate of when cases may emerge in different parts of the country. keywords: case; contact; covid-19; data; datasets; disease; individuals; modeling; models; number; pandemic; response; spread; stages; time cache: cord-104486-syirijql.txt plain text: cord-104486-syirijql.txt item: #116 of 435 id: cord-117688-20gfpbyf author: Cakmakli, Cem title: Bridging the COVID-19 Data and the Epidemiological Model using Time Varying Parameter SIRD Model date: 2020-07-03 words: 7554 flesch: 53 summary: Time variation in model parameters is captured using the generalized autoregressive score modelling structure designed for the typically daily count data related to pandemic. Other frameworks with time varying model parameters almost exclusively allow for the time variation only in the infection rate. keywords: countries; model; pandemic; parameters; rate; sird model; time; t−1 cache: cord-117688-20gfpbyf.txt plain text: cord-117688-20gfpbyf.txt item: #117 of 435 id: cord-118553-ki6bbuod author: Piccolomini, Elena Loli title: Preliminary analysis of COVID-19 spread in Italy with an adaptive SEIRD model date: 2020-03-22 words: 1844 flesch: 50 summary: In section 2 we describe the details of SEIRD model with constant and with time dependent infection rate SEIRD(rm). (2) in the S and E equations in (1) we obtain SEIRD rational model SEIRD(rm). keywords: data; model; rate; seird cache: cord-118553-ki6bbuod.txt plain text: cord-118553-ki6bbuod.txt item: #118 of 435 id: cord-118731-h5au2h09 author: None title: cord-118731-h5au2h09 date: None words: 7181 flesch: 39 summary: As with any mathematical modeling effort, data plays a big role in the utility of such models. Similar to the importation risk, such models may provide an estimate of when cases may emerge in different parts of the country. keywords: case; contact; covid-19; data; datasets; disease; individuals; modeling; models; number; pandemic; response; spread; stages; time cache: cord-118731-h5au2h09.txt plain text: cord-118731-h5au2h09.txt item: #119 of 435 id: cord-119104-9d421si9 author: Huynh, Tin Van title: BANANA at WNUT-2020 Task 2: Identifying COVID-19 Information on Twitter by Combining Deep Learning and Transfer Learning Models date: 2020-09-06 words: 1816 flesch: 56 summary: In the future, we will improve our model's performance by exploring different features of the users' tweets and transfer learning models with fine-tuning techniques. The ensemble model from our three transformer and deep learning models is used for the final prediction. keywords: covid-19; information; model; tweets cache: cord-119104-9d421si9.txt plain text: cord-119104-9d421si9.txt item: #120 of 435 id: cord-121200-2qys8j4u author: Zogan, Hamad title: Depression Detection with Multi-Modalities Using a Hybrid Deep Learning Model on Social Media date: 2020-07-03 words: 10040 flesch: 46 summary: This motivates us to leverage the superior neural network learning capability with the rich and heterogeneous behavioural patterns of social media users. (3) We built a CNN network to classify user timeline posts concatenated with BiGRU network to identify social media users who suffer from depression. keywords: authors; data; depression; detection; features; information; learning; media; model; multi; tweets; user; word cache: cord-121200-2qys8j4u.txt plain text: cord-121200-2qys8j4u.txt item: #121 of 435 id: cord-122344-2lepkvby author: Hayashi, Hiroaki title: What's New? Summarizing Contributions in Scientific Literature date: 2020-11-06 words: 7263 flesch: 39 summary: The overall trend of CONTROLCODE model outpeforming MULTIHEAD model is still observed in the evaluation. Existing techniques for model based planning are most effective in small-scale problems, often require background knowledge of the domain, and use pre-defined solution strategies. keywords: context; contribution; control; et al; model; paper; set; summaries; summarization; task; training; work cache: cord-122344-2lepkvby.txt plain text: cord-122344-2lepkvby.txt item: #122 of 435 id: cord-123800-pxhott2p author: Pandey, Gaurav title: SEIR and Regression Model based COVID-19 outbreak predictions in India date: 2020-04-01 words: 3165 flesch: 57 summary: They have reviewed research papers based on deterministic mass action models, regression models, prediction rules, Bayesian network, SEIR model, ARIMA forecasting model etc. Regression models are statistical sets of processes which are used to estimate or predict the target or dependent variable on the basis of dependent variables. keywords: cases; covid-19; data; disease; model; regression cache: cord-123800-pxhott2p.txt plain text: cord-123800-pxhott2p.txt item: #123 of 435 id: cord-125330-jyppul4o author: Crokidakis, Nuno title: Modeling the evolution of drinking behavior: A Statistical Physics perspective date: 2020-08-24 words: 3630 flesch: 47 summary: Epidemic models have been widely used to study contagion processes such as the spread of infectious diseases [1] and rumors [2] . = m(t = 0) and one can obtain the expression for the basic reproduction number As it is usual in epidemic models keywords: alcohol; consumption; drinkers; model; population; risk cache: cord-125330-jyppul4o.txt plain text: cord-125330-jyppul4o.txt item: #124 of 435 id: cord-126012-h7er0prc author: Diaz, Victor Hugo Grisales title: COVID-19: Forecasting mortality given mobility trend data and non-pharmaceutical interventions date: 2020-09-25 words: 3168 flesch: 46 summary: In their work, they demonstrate that mobility data provides a leading indicator of contagious rates in eight US States. In this contribution, our previous model [5] is extended to predict mortality and to include a term to estimate the reduction on the contagious rates given reported mobility data. keywords: countries; data; mobility; model; number cache: cord-126012-h7er0prc.txt plain text: cord-126012-h7er0prc.txt item: #125 of 435 id: cord-127900-78x19fw4 author: Leung, Abby title: Contact Graph Epidemic Modelling of COVID-19 for Transmission and Intervention Strategies date: 2020-10-06 words: 5032 flesch: 49 summary: In this work, we propose to incorporate structural information of contact network between individuals and show the effects of NPIs applied on different categories of contact networks. In comparison, our model can directly utilize contact networks and we also model the impact of wearing masks. keywords: contact; covid-19; degree; infected; model; networks; nodes; npis cache: cord-127900-78x19fw4.txt plain text: cord-127900-78x19fw4.txt item: #126 of 435 id: cord-128991-mb91j2zs author: Agapiou, Sergios title: Modeling of Covid-19 Pandemic in Cyprus date: 2020-10-05 words: 7458 flesch: 52 summary: Implementation of joint maximum likelihood estimation of model parameters and outlier sizes. Figure Data and code are available at GitHub (https://github.com/chrisnic12/covid_cyprus) Detecting multiple generalized change-points by isolating single ones Remdesivir for the treatment of Covid-19 -preliminary report Bayesian Theory Real time Bayesian estimation of the epidemic potential of emerging infectious diseases Statistical Fraud Detection: A Review Joint estimation of model parameters and outlier effects in time series Generalized SEIR epidemic model (fitting and computation) A New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics The species severe acute respiratory syndrome-related coronavirus: classifying 2019-ncov and naming it sars-cov-2 Statistical analysis of time series: Some recent developments Impact of non-pharmaceutical interventions (NPI)s to reduce COVID-19 mortality and healthcare demand Statistical Analysis of Count Time Series Models: A GLM perspective Log-linear Poisson autoregression An mrna vaccine against sars-cov-2 -preliminary report Inference for single and multiple change-points in time series Regression Models for Time Series Analysis Modeling infectious diseases in humans and animals A contribution to the mathematical theory of epidemics Substantial undocumented infection facilitates the rapid dissemination of novel coronavirus (sars-cov-2) tscount: An R package for analysis of count time series following generalized linear models Generalized Linear Models Hand-hygiene mitigation strategies against global disease spreading through the air transportation network Circular binary segmentation for the analysis of array-based DNA copy number data Epidemic analysis of COVID-19 in China by dynamical modeling Monte Carlo statistical methods Adaptive trend estimation in financial time series via multiscale change-pointinduced basis recovery Estimating the dimension of a model The metric we need to manage COVID-19 rt: The effective reproduction number Coronavirus disease (COVID-19) -situation report-197 Estimating the number of change-points via Schwarz' criterion A novel coronavirus from patients with pneumonia in China keywords: analysis; cases; covid-19; cyprus; data; model; number; rate; time cache: cord-128991-mb91j2zs.txt plain text: cord-128991-mb91j2zs.txt item: #127 of 435 id: cord-129272-p1jeiljo author: Broniec, William title: Using VERA to explain the impact of social distancing on the spread of COVID-19 date: 2020-03-30 words: 1933 flesch: 41 summary: The Virtual Experimentation Research Assistant (VERA) is a web application that enables users to construct conceptual models of complex systems and run model simulations. The right panel depicts model parameters and their initial values for the simulation of the conceptual model. keywords: model; simulation; spread; vera cache: cord-129272-p1jeiljo.txt plain text: cord-129272-p1jeiljo.txt item: #128 of 435 id: cord-130240-bfnav9sn author: Friston, Karl J. title: Dynamic causal modelling of COVID-19 date: 2020-04-09 words: 13600 flesch: 48 summary: Dynamic causal modelling subsumes state estimation and system identification under one Bayesian procedure, to provide probability densities over unknown latent states (i.e., state estimation) and model parameters (i.e., system identification), respectively. However, this requires the estimation of the uncertainty about model parameters and states, which is necessary to evaluate the (marginal) likelihood of the data at hand. keywords: bayesian; country; data; distancing; evidence; example; figure; model; number; parameters; people; population; probability; terms; time cache: cord-130240-bfnav9sn.txt plain text: cord-130240-bfnav9sn.txt item: #129 of 435 id: cord-130928-ozxvtvjt author: Albi, G. title: Control with uncertain data of socially structured compartmental epidemic models date: 2020-04-27 words: 8704 flesch: 49 summary: Previously, this type of approach has been used successfully in the case of social models of consensus [1-4, 8, 12, 18] . Selective model-predictive control for flocking systems Uncertainty quantification in control problems for flocking models Boltzmann-type control of opinion consensus through leaders Optimal control of a SIR epidemic model with general incidence function and a time delays The French connection: The first large populationbased contact survey in France relevant for the spread of infectious diseases Time-optimal control strategies in SIR epidemic models Un)conditional consensus emergence under perturbed and decentralized feedback controls Parameter estimation and uncertainty quantification for an epidemic model A generalization of the Kermack-McKendrick deterministic epidemic model Towards uncertainty quantification and inference in the stochastic SIR epidemic model Sparse stabilization and optimal control of the Cucker-Smale model Epidemiological models with age structure, proportionate mixing, and cross-immunity Optimizing vaccination strategies in an age structured SIR model Optimal control for pandemic influenza: the role of limited antiviral treatment and isolation Fitting dynamic models to epidemic outbreaks with quantified uncertainty: A primer for parameter uncertainty, identifiability, and forecasts Uncertainty quantification for kinetic models in socioeconomic and life sciences Kinetic models for optimal control of wealth inequalities Estimating the number of infections and the impact of non-pharmaceutical interventions on COVID-19 in 11 European countries Threshold behaviour of a SIR epidemic model with age structure and immigration Mixing in age-structured population models of infectious diseases Modeling heterogeneous mixing in infectious disease dynamics, in Models for Infectious Human Diseases The mathematics of infectious diseases Analytical and numerical results for the age-structured S-I-S epidemic model with mixed inter-intracohort transmission Correcting under-reported COVID-19 case numbers: estimating the true scale of the pandemic Uncertainty Quantification for Hyperbolic and Kinetic Equations, SEMA-SIMAI Springer Series A Contribution to the Mathematical Theory of Epidemics Modeling optimal age-specific vaccination strategies against pandemic influenza An optimal control theory approach to nonpharmaceutical interventions The reproductive number of COVID-19 is higher compared to SARS coronavirus Estimating the asymptomatic proportion of coronavirus disease 2019 (COVID-19) cases on board the Diamond Princess cruise ship Optimal, near-optimal, and robust epidemic control Social contacts and mixing patterns relevant to the spread of infectious diseases An introduction to uncertainty quantification for kinetic equations and related problems Projecting social contact matrices in 152 countries using contact surveys and demographic data GitHub: keywords: age; control; data; epidemic; infected; model; number; time cache: cord-130928-ozxvtvjt.txt plain text: cord-130928-ozxvtvjt.txt item: #130 of 435 id: cord-130967-cvbpgvso author: Dinamarca, Jos'e Luis title: Clinical concepts might be included in health-related mathematic models date: 2020-04-23 words: 1499 flesch: 55 summary: Indeed, we have some examples of current models. In Mexico, an a empt has been made to predict the behavior of COVID-19 and es mate possible scenarios through Gauss model. keywords: country; model cache: cord-130967-cvbpgvso.txt plain text: cord-130967-cvbpgvso.txt item: #131 of 435 id: cord-132307-bkkzg6h1 author: Blanco, Natalia title: Prospective Prediction of Future SARS-CoV-2 Infections Using Empirical Data on a National Level to Gauge Response Effectiveness date: 2020-07-06 words: 3762 flesch: 37 summary: The total number of cases for the COVID-19 epidemic in 28 countries was analyzed and fitted to several simple rate models including the logistic, Gompertz, quadratic, simple square, and simple exponential growth models. While logistic growth models have been widely used to model epidemics 16, 27 , uncertainties in estimates of R0 (and therefore the population carrying capacity NM) make prospective predictions of the course of the epidemic difficult 14, 27 . keywords: cases; covid-19; growth; model; number; quadratic; total cache: cord-132307-bkkzg6h1.txt plain text: cord-132307-bkkzg6h1.txt item: #132 of 435 id: cord-132843-ilxt4b6g author: Zhao, Liang title: Event Prediction in the Big Data Era: A Systematic Survey date: 2020-07-19 words: 19744 flesch: 44 summary: Event time prediction focuses on predicting when future events will occur. Event prediction models also tend to over-rely on low-quality input data that can be easily disturbed or manipulated, lacking sufficient robustness to survive noisy signals and adversarial attacks. keywords: approach; data; different; domains; event; event prediction; event time; example; forecasting; future; information; input; learning; location; media; methods; models; multi; occurrence; point; prediction; prediction methods; process; research; semantic; sequence; spatial; survey; system; techniques; time; type cache: cord-132843-ilxt4b6g.txt plain text: cord-132843-ilxt4b6g.txt item: #133 of 435 id: cord-133273-kvyzuayp author: Christ, Andreas title: Artificial Intelligence: Research Impact on Key Industries; the Upper-Rhine Artificial Intelligence Symposium (UR-AI 2020) date: 2020-10-05 words: 42474 flesch: 53 summary: [16] have shown, that, despite their initial design for image data, a residual neural network (ResNet) can perform quite well on time-series classification. Additionally, it discusses whether more general requirements can be sufficiently addressed in the scenarios, as e.g. proposed in ethical guidelines for AI based systems like [9, 10] . keywords: algorithm; approach; behavior; bottle; case; classification; data; dataset; deep; detection; devices; evaluation; example; features; figure; human; image; information; input data; learning; level; machine; methods; model; networks; object; parameters; patient; point; process; processing; product; quality; real; reality; results; robot; set; size; space; speed; step; stress; structure; system; time; training; training data; type; use; user; validation; walk cache: cord-133273-kvyzuayp.txt plain text: cord-133273-kvyzuayp.txt item: #134 of 435 id: cord-133917-uap1vvbm author: Grave, Mal'u title: Adaptive Mesh Refinement and Coarsening for Diffusion-Reaction Epidemiological Models date: 2020-10-22 words: 5927 flesch: 52 summary: Disease transmission may be modeled as compartmental models, in which the population under study is divided into compartments and has assumptions about the nature and time rate of transfer from one compartment to another. Disease transmission may be modeled as compartmental models, in which the population under study is divided into compartments and has assumptions about the nature and time rate of transfer from one compartment to another keywords: days; diffusion; element; exposed; figure; model; population; time cache: cord-133917-uap1vvbm.txt plain text: cord-133917-uap1vvbm.txt item: #135 of 435 id: cord-135004-68y19dpg author: Russo, Carlo title: Impact of Spherical Coordinates Transformation Pre-processing in Deep Convolution Neural Networks for Brain Tumor Segmentation and Survival Prediction date: 2020-10-27 words: 3210 flesch: 43 summary: We trained different models by changing pre-processing method (Cartesian and spherical) and some layers hyperparameters. These findings showed a complementary nature of different models; therefore, we combined the outputs of these models to test whether the prediction performance could be improved further. keywords: features; model; prediction; segmentation; spherical; tumor cache: cord-135004-68y19dpg.txt plain text: cord-135004-68y19dpg.txt item: #136 of 435 id: cord-140624-lphr5prl author: Grundel, Sara title: How much testing and social distancing is required to control COVID-19? Some insight based on an age-differentiated compartmental model date: 2020-11-02 words: 8723 flesch: 56 summary: As a remedy, we designed optimal social distancing strategies with a focus on applicability and acceptance in the general population, i.e. strategies with slowly changing contact reductions. Agedifferentiated contact reductions may improve upon these results as they yield qualitatively similar social distancing strategies and prioritize relaxing restrictions for the work-force and children. keywords: age; cases; control; covid-19; distancing; infectious; model; number; social; testing; time cache: cord-140624-lphr5prl.txt plain text: cord-140624-lphr5prl.txt item: #137 of 435 id: cord-140839-rij8f137 author: Langfeld, Kurt title: Dynamics of epidemic diseases without guaranteed immunity date: 2020-07-31 words: 2288 flesch: 49 summary: The different mathematical approaches have different objectives: A significant application of the statistical methods frequently aims at the early detection of disease outbreaks [4] , while modelling either tries to develop a model as realistic as possible for a given outbreak or to design a simplistic model, which, however, reveals some universal truth about the outbreak dynamics. This should influence the decision to what extent efforts focus on developing a cure or a vaccine. Strategies for containing an emerging influenza pandemic in southeast asia Statistical methods for the prospective detection of infectious disease outbreaks: a review Statistical studies of infectious disease incidence A contribution to the mathematical theory of epidemics Thresholds for epidemic outbreaks in finite scale-free networks The impacts of network topology on disease spread The mathematics of infectious diseases Statistical inference in a stochastic epidemic seir model with control intervention: Ebola as a case study Modelling the covid-19 epidemic and implementation of population-wide interventions in italy Mathematical modelling on phase based transmissibility of coronavirus A conceptual model for the coronavirus disease 2019 (covid-19) outbreak in wuhan, china with individual reaction and governmental action Data-based analysis, modelling and forecasting of the covid-19 outbreak Estimating clinical severity of covid-19 from the transmission dynamics in wuhan, china Capturing the time-varying drivers of an epidemic using stochastic dynamical systems Early dynamics of transmission and control of covid-19: a mathematical modelling study Beitrag zur theorie des ferromagnetismus Statistical Mechanics of Lattice Systems: A Concrete Mathematical Introduction Nonuniversal critical dynamics in monte carlo simulations An R package with real-time data, historical data and Shiny app I thank Lorenz von Smekal (Giessen) and Paul Martin (Leeds) for helpful discussions. keywords: disease; model; network; outbreak cache: cord-140839-rij8f137.txt plain text: cord-140839-rij8f137.txt item: #138 of 435 id: cord-140977-mg04drna author: Maltezos, S. title: Methodology for Modelling the new COVID-19 Pandemic Spread and Implementation to European Countries date: 2020-06-27 words: 3987 flesch: 50 summary: Also A is constant while n and τ are model parameters. From the obtained solution for R 0 we can also calculate the parameter a of SIR model, a = βR 0 , where β can be calculated from the peak value of the daily reported recovered individuals by the formula, β = R p /I tot,p , where I tot,p represents the integral of the DRC curve with upper limit the peaking time t p . keywords: epidemic; model; number; time cache: cord-140977-mg04drna.txt plain text: cord-140977-mg04drna.txt item: #139 of 435 id: cord-142398-glq4mjau author: Dhar, Abhishek title: A critique of the Covid-19 analysis for India by Singh and Adhikari date: 2020-04-11 words: 1933 flesch: 60 summary: It is expected that the main message on sensitivity of model predictions to parameter choices would not change by increasing the complexity of the model. (II) we first analyze a simpler version of the model studied in [1] and show that for a certain choice of model parameters, this already reproduces the main features seen in the more complicated model. keywords: lockdown; model; number cache: cord-142398-glq4mjau.txt plain text: cord-142398-glq4mjau.txt item: #140 of 435 id: cord-143539-gvt25gac author: Marmarelis, Myrl G. title: Latent Embeddings of Point Process Excitations date: 2020-05-05 words: 5359 flesch: 48 summary: Problems of Monetary Management: The U.K. Experience An introduction to total least squares Universal boosting variational inference Power comparisons of shapiro-wilk, kolmogorov-smirnov, lilliefors and anderson-darling tests Glove: Global vectors for word representation Parameters behind nonparametric statistics: Kendall's tau, somers' d and median differences The probable error of a mean Heterogeneities in the case fatality ratio in the west african ebola outbreak A review of epidemiological parameters from ebola outbreaks to inform early public health decision-making Option moneyness and price disagreements General methodology for nonlinear modeling of neural systems with poisson point-process inputs Some statistical methods connected with series of events Latent point process allocation Mutually regressive point processes Efficient non-parametric bayesian hawkes processes Nonparametric regressive point processes based on conditional gaussian processes Structured variational inference in continuous cox process models Bayesian nonparametric poisson-process allocation for time-sequence modeling Scalable high-resolution forecasting of sparse spatiotemopral events with kernel methods Scalable bayesian inference for excitatory point process networks Temporal network embedding with micro-and macro-dynamics Deep random splines for point process intensity estimation of neural population data Deep mixture point processes: Spatio-temporal event prediction with rich contextual information Fully neural network based model for general temporal point processes Generative sequential stochastic model for marked point processes Geometric hawkes processes with graph convolutional recurrent neural networks, Association for the Advancement of Artificial Intelligence Recurrent marked temporal point processes: Embedding event history to vector Neural jump stochastic differential equations [3, 4] , neuronal firings [5] , and market trade-level activity [6, 7] naturally suit the form of diachronic point processes with an underlying causal-interaction network. keywords: embedding; event; hawkes; model; point; process; processes; time cache: cord-143539-gvt25gac.txt plain text: cord-143539-gvt25gac.txt item: #141 of 435 id: cord-143847-vtwn5mmd author: Ryffel, Th'eo title: ARIANN: Low-Interaction Privacy-Preserving Deep Learning via Function Secret Sharing date: 2020-06-08 words: 6043 flesch: 58 summary: The CIFAR-10 dataset Imagenet classification with deep convolutional neural networks Gradient-based learning applied to document recognition MNIST handwritten digit database Oblivious neural network predictions via minionn transformations Aby3: A mixed protocol framework for machine learning Secureml: A system for scalable privacy-preserving machine learning An improved newton iteration for the generalized inverse of a matrix, with applications Information technology-based tracing strategy in response to COVID-19 in South Korea-privacy controversies Privacy-preserving contact tracing of covid-19 patients Chameleon: A hybrid secure computation framework for machine learning applications Deepsecure: Scalable provably-secure deep learning Imagenet large scale visual recognition challenge A generic framework for privacy preserving deep learning Privacy-preserving deep learning Very deep convolutional networks for large-scale image recognition Securenn: Efficient and private neural network training Falcon: Honest-majority maliciously secure framework for private deep learning Tiny imagenet challenge How to generate and exchange secrets The cut-and-choose game and its application to cryptographic protocols We would like to thank Geoffroy Couteau, Chloé Hébant and Loïc Estève for helpful discussions throughout this project. Thanks to the flexibility of our framework, we can train each of these networks in plain text and need only one line of code to turn them into private networks, where all parameters are secret shared. keywords: data; function; learning; model; networks; protocol; training; use cache: cord-143847-vtwn5mmd.txt plain text: cord-143847-vtwn5mmd.txt item: #142 of 435 id: cord-147202-clje3b2r author: Ghanam, Ryad title: SEIRD Model for Qatar Covid-19 Outbreak: A Case Study date: 2020-05-26 words: 3868 flesch: 63 summary: Furthermore, model interventions were placed at days t = , t = , t = , t = and t = with an Dirac delta impulse at time τ = . This work has demonstrated how to build a SEIRD model for the Covid-outbreak in the State of Qatar, include interventions, estimate model parameters and generate posterior predictive intervals using a Bayesian framework. keywords: data; day; model; rate; time cache: cord-147202-clje3b2r.txt plain text: cord-147202-clje3b2r.txt item: #143 of 435 id: cord-151871-228t4ymc author: Unceta, Irene title: Differential Replication in Machine Learning date: 2020-07-15 words: 4226 flesch: 46 summary: key: cord-151871-228t4ymc authors: Unceta, Irene; Nin, Jordi; Pujol, Oriol title: Differential Replication in Machine Learning date: 2020-07-15 journal: nan DOI: nan sha: doc_id: 151871 cord_uid: 228t4ymc When deployed in the wild, machine learning models are usually confronted with data and requirements that constantly vary, either because of changes in the generating distribution or because external constraints change the environment where the model operates. To survive in such an ecosystem, machine learning models need to adapt to new conditions by evolving over time. keywords: data; differential; knowledge; learning; machine; model; replication cache: cord-151871-228t4ymc.txt plain text: cord-151871-228t4ymc.txt item: #144 of 435 id: cord-154170-7pnz98o6 author: Ponciano, Jos'e Miguel title: Poverty levels, societal and individual heterogeneities explain the SARS-CoV-2 pandemic growth in Latin America date: 2020-05-22 words: 3254 flesch: 39 summary: The models we have examined and compared included compartmental SEIR models and models with demographic stochasticity and environmental noise with added sampling error and a poverty random effect (the SEG model). We draw on prior work in conservation biology, population dynamics and epidemiological theory to complement the current suite of deterministic epidemiological models, characterize the role of urban poverty in shaping the region's SARS-CoV-2 epidemics, and develop a methodology to generate short (5-15 days), sequentially updatable, process-based forecasts. keywords: cases; countries; data; growth; model; number; poverty; time cache: cord-154170-7pnz98o6.txt plain text: cord-154170-7pnz98o6.txt item: #145 of 435 id: cord-156676-wes5my9e author: Masud, Sarah title: Hate is the New Infodemic: A Topic-aware Modeling of Hate Speech Diffusion on Twitter date: 2020-10-09 words: 8730 flesch: 53 summary: However, they do not tackle the problem of modeling the diffusion and restrict themselves to identifying different characteristics of hate speech in Gab. Hate speech on Twitter: Twitter, as one of the largest micro-blogging platforms with a worldwide user base, has a long history of accommodating hate speech, cyberbullying, and toxic behavior. In this work, we choose to focus on the dynamics of hate speech on Twitter mainly due to two reasons: (i) the wide-spread usage of Twitter compared to other platforms provides scope to grasp the hate diffusion dynamics in a more realistic manifestation, and (ii) understanding how hate speech emerges and spreads even in the presence of some top-down checking measures, compared to unmoderated platforms like Gab. Diffusion patterns of hate vs. non-hate on Twitter: Hate speech is often characterized by the formation of echochambers, i.e., only a small group of people engaging with such contents repeatedly. keywords: diffusion; features; hate; hate speech; information; models; prediction; retina; retweet; speech; tweets; twitter; user cache: cord-156676-wes5my9e.txt plain text: cord-156676-wes5my9e.txt item: #146 of 435 id: cord-158494-dww63e9f author: Wakefield, Jon title: Small Area Estimation of Health Outcomes date: 2020-06-18 words: 9437 flesch: 54 summary: The Lancet A review of adaptive cluster sampling High resolution age-structured mapping of childhood vaccination coverage in low and middle income countries Finite Population Sampling and Inference: A Prediction Approach First antibody surveys draw fire for quality, bias Ecologic studies revisited Prevalence mapping Applied Spatial Statistics for Public Health Data Spatially disaggregated population estimates in the absence of national population and housing census data Pointless spatial modeling Selection without replacement from within strata with probability proportional to size Small area estimation when auxiliary information is measured with error Small area estimation using unmatched sampling and linking models Fully Bayesian benchmarking of small area estimation models Penalized spline model-based estimation of the finite population total from probability-proportional-to-size samples In each plot we have the direct estimates (with uncertainty bars) plotted against the posterior medians of the predictive distribution Modeling Figure 22: HIV prevalence estimates at the admin-3 level, using the betabinomial model. Cluster level covariate models are appealing when compared to area-level covariate alternatives, since they are closer to the mechanism of action, and reduce the possibility of ecological bias (Wakefield, 2008) . keywords: area; cluster; data; design; estimates; level; model; population; prevalence; sae; sample; sampling; survey cache: cord-158494-dww63e9f.txt plain text: cord-158494-dww63e9f.txt item: #147 of 435 id: cord-159103-dbgs2ado author: Rieke, Nicola title: The Future of Digital Health with Federated Learning date: 2020-03-18 words: 6704 flesch: 41 summary: Medical data is particularly diverse -not only in terms of type, dimensionality and characteristics of medical data in general but also within a defined medical task, due to factors like acquisition protocol, brand of the medical device or local demographics. key: cord-159103-dbgs2ado authors: Rieke, Nicola; Hancox, Jonny; Li, Wenqi; Milletari, Fausto; Roth, Holger; Albarqouni, Shadi; Bakas, Spyridon; Galtier, Mathieu N.; Landman, Bennett; Maier-Hein, Klaus; Ourselin, Sebastien; Sheller, Micah; Summers, Ronald M.; Trask, Andrew; Xu, Daguang; Baust, Maximilian; Cardoso, M. Jorge title: The Future of Digital Health with Federated Learning date: 2020-03-18 journal: nan DOI: nan sha: doc_id: 159103 cord_uid: dbgs2ado Data-driven Machine Learning has emerged as a promising approach for building accurate and robust statistical models from medical data, which is collected in huge volumes by modern healthcare systems. keywords: access; data; datasets; federated; healthcare; institutions; learning; medical; model; peer; privacy; research; training cache: cord-159103-dbgs2ado.txt plain text: cord-159103-dbgs2ado.txt item: #148 of 435 id: cord-160382-8n3s5j8w author: Yamagata, Yoriyuki title: Simultaneous estimation of the effective reproducing number and the detection rate of COVID-19 date: 2020-05-02 words: 2614 flesch: 60 summary: medRxiv, page 2020 Stan: A probabilistic programming language Estimating the number of infections and the impact of non ArviZ a unified library for exploratory analysis of Bayesian models in Python Analyzing covid-19 data with sird models Practical Bayesian model evaluation using leave-one-out cross-validation and WAIC Asymptotic equivalence of bayes cross validation and widely applicable information criterion in singular learning theory Japan E-mail address: yoriyuki.yamagata@aist.go.jp The author thanks to Kentaro Matsuura and the Tokyo. Further, by well-established statistical methods, we can compare the explanatory power of different models. keywords: data; estimate; model cache: cord-160382-8n3s5j8w.txt plain text: cord-160382-8n3s5j8w.txt item: #149 of 435 id: cord-161039-qh9hz4wz author: Tripathy, Shrabani S. title: Flood Evacuation During Pandemic: A multi-objective Framework to Handle Compound Hazard date: 2020-10-03 words: 2926 flesch: 41 summary: Various studies have used optimization models for flood evacuation to minimize losses considering factors like travel time and distance, cost of evacuation, and usage of infrastructure (5, 6, 14, (17) (18) (19) . Here we address an important compound event problem related to flood evacuation to minimize the loss due to flood hazards, while also demonstrating the potential issues associated with Compound climate risks in the COVID-19 pandemic Increased human and economic losses from river flooding with anthropogenic warming Detecting change in UK extreme precipitation using results from the climate prediction . keywords: evacuation; flood; model; number; optimization; planning; shelters cache: cord-161039-qh9hz4wz.txt plain text: cord-161039-qh9hz4wz.txt item: #150 of 435 id: cord-162105-u0w56xrp author: Centeno, Raffy S. title: How much did the Tourism Industry Lost? Estimating Earning Loss of Tourism in the Philippines date: 2020-04-21 words: 3564 flesch: 54 summary: Box-Jenkins methodology refers to a systematic method of identifying, fitting, checking, and using SARIMA time series models. The projected P 170.5 billion loss on Philippines foreign tourism is really a huge money. keywords: data; model; philippines; series; time; tourism cache: cord-162105-u0w56xrp.txt plain text: cord-162105-u0w56xrp.txt item: #151 of 435 id: cord-162772-5jgqgoet author: Viguerie, Alex title: Simulating the spread of COVID-19 via spatially-resolved susceptible-exposed-infected-recovered-deceased (SEIRD) model with heterogeneous diffusion date: 2020-05-11 words: 3168 flesch: 43 summary: Incubation period of 2019 novel coronavirus (2019-CoV) infections among travelers from Wuhan, China Serial interval of COVID-19 among publicly reported confirmed cases The Ensemble Kalman Filter Impact of non-pharmaceutical interventions (NPIs) to reduce COVID19 mortality and healthcare demand Spread and dynamics of the COVID-19 epidemic in Italy: Effects of emergency containment measures Modelling the COVID-19 epidemic and implementation of population-wide interventions in Italy Partial differential equations in ecology: spatial interactions and population dynamics Numerical simulation of a suceptible-exposed-infectious spacecontinuous model for the spread of rabies in raccoons across a realistic landscape Modeling the dynamics of novel coronavirus (2019-nCov) with fractional derivative Galerkin methods for a model of population dynamics with nonlinear diffusion A numerical method for spatial diffusion in age-structured populations Postitive RT-PCR test results in patients recovered from COVID-19 Serial interval of novel coronavirus (COVID-19) infections COVID-19 and Italy: what next? We plan to consider non-constant model parameters and adaptively update them according to measured data using dataassimilation procedures [4] . keywords: covid-19; data; dynamics; model; outbreak; population cache: cord-162772-5jgqgoet.txt plain text: cord-162772-5jgqgoet.txt item: #152 of 435 id: cord-163946-a4vtc7rp author: Awasthi, Raghav title: VacSIM: Learning Effective Strategies for COVID-19 Vaccine Distribution using Reinforcement Learning date: 2020-09-14 words: 4476 flesch: 47 summary: Therefore, we pipelined the ACKTR model with a supervised learning based Contextual Bandits approach where recommendations for vaccine distribution policy were used as training data for the latter. In this paper, we introduce VacSIM, a novel feed-forward reinforcement learning approach for learning effective policy combined with near real-time optimization of vaccine distribution and demonstrate its potential benefit if applied to five States across India. keywords: action; approach; distribution; learning; model; policy; state; vaccine; vacsim cache: cord-163946-a4vtc7rp.txt plain text: cord-163946-a4vtc7rp.txt item: #153 of 435 id: cord-164964-vcxx1s6k author: Kharkwal, Himanshu title: University Operations During a Pandemic: A Flexible Decision Analysis Toolkit date: 2020-10-20 words: 7395 flesch: 47 summary: The simulator uses actual student class enrollment data from the University of Minnesota and contains 46,782 students, 5,570 classes and 5,570 instructors. In this paper, we present a flexible framework that allows for various models for human behavior and socialization patterns, decisions and choices, infection transfer models, disease progression models, etc. to simulate the outcomes under different policies. keywords: classes; covid-19; disease; impact; infection; mask; model; network; people; person; simulation; students; university cache: cord-164964-vcxx1s6k.txt plain text: cord-164964-vcxx1s6k.txt item: #154 of 435 id: cord-167889-um3djluz author: Chen, Jianguo title: A Survey on Applications of Artificial Intelligence in Fighting Against COVID-19 date: 2020-07-04 words: 12258 flesch: 46 summary: The radiological signs of COVID-19 CXR images include airspace opacity, GGO, and later mergers. The architecture of the COVID-19 outbreak prediction model based on AI models is shown in Fig. keywords: cases; classification; coronavirus; cov-2; covid-19; cxr; data; deep; detection; disease; drug; et al; features; images; learning; lung; methods; model; patients; potential; prediction; protein; sars; sequences; website cache: cord-167889-um3djluz.txt plain text: cord-167889-um3djluz.txt item: #155 of 435 id: cord-168862-3tj63eve author: Porter, Mason A. title: Nonlinearity + Networks: A 2020 Vision date: 2019-11-09 words: 11847 flesch: 43 summary: Congestion induced by the structure of multiplex networks Tie-decay temporal networks in continuous time and eigenvector-based centralities Multilayer networks in a nutshell Multilayer networks in a nutshell Temporal and structural heterogeneities emerging in adaptive temporal networks Synchronization in complex networks Mathematical frameworks for oscillatory network dynamics in neuroscience Turing patterns in multiplex networks Morphogenesis of Spatial Networks Evolving voter model on dense random graphs Generative benchmark models for mesoscale structure in multilayer networks Birth and stabilization of phase clusters by multiplexing of adaptive networks Network geometry with flavor: From complexity to quantum geometry Chaos in generically coupled phase oscillator networks with nonpairwise interactions Topology of random geometric complexes: A survey Explosive transitions in complex networksÕ structure and dynamics: Percolation and synchronization Factoring and weighting approaches to clique identification Mathematical Models in Population Biology and Epidemiology How does active participation effect consensus: Adaptive network model of opinion dynamics and influence maximizing rewiring Anatomy of a large-scale hypertextual Web search engine A model for the influence of media on the ideology of content in online social networks Frequency-based brain networks: As with other adaptive network models, researchers have developed some nonrigorous theory (e.g., using mean-field approximations and their generalizations) on adaptive voter models with simplistic rewiring schemes, but they have struggled to extend these ideas to models with more realistic rewiring schemes. keywords: adaptive; analysis; dynamics; edges; graphs; interactions; models; multilayer; networks; nodes; oscillators; processes; random; state; structure; study; time; types cache: cord-168862-3tj63eve.txt plain text: cord-168862-3tj63eve.txt item: #156 of 435 id: cord-169288-aeyz2t6c author: Runvik, Haakan title: Initialization of a Disease Transmission Model date: 2020-07-17 words: 3355 flesch: 45 summary: Probability distributions of model states for Stockholm county according to simulation from estimated initial conditions. Probability distributions of model states for Vstra Gtaland county according to simulation from estimated initial conditions. keywords: data; estimation; model; problem; state cache: cord-169288-aeyz2t6c.txt plain text: cord-169288-aeyz2t6c.txt item: #157 of 435 id: cord-171231-m54moffr author: Habli, Ibrahim title: Enhancing Covid-19 Decision-Making by Creating an Assurance Case for Simulation Models date: 2020-05-17 words: 2234 flesch: 40 summary: We argue that any COVID-19 simulation model that is used to guide critical policy decisions would benefit from being supported with such a case to explain how, and to what extent, the evidence from the simulation can be relied on to substantiate policy conclusions. However, a recent systematic review of 31 diagnostic and prediction models for COVID-19 concluded that, at present, none of these models could be recommended for practical use to inform critical policy decisions [2] . keywords: argument; evidence; models; policy; safety cache: cord-171231-m54moffr.txt plain text: cord-171231-m54moffr.txt item: #158 of 435 id: cord-174036-b3frnfr7 author: Thomas, Loring J. title: Spatial Heterogeneity Can Lead to Substantial Local Variations in COVID-19 Timing and Severity date: 2020-05-20 words: 6667 flesch: 40 summary: To model networks of potential contacts at scale, we employ spatial network models (19) , which are both computationally tractable and able to capture the effects of geography and population heterogeneity on network structure (20) . We also present chloropleth maps showing spatial variation in peak infection times, as well as the correlations between the infection trajectory within local areal units and the aggregate infection trajectory for the city as a whole. keywords: city; covid-19; days; diffusion; disease; heterogeneity; individuals; infection; models; network; time cache: cord-174036-b3frnfr7.txt plain text: cord-174036-b3frnfr7.txt item: #159 of 435 id: cord-174692-ljph6cao author: Dadlani, Aresh title: Deterministic Models in Epidemiology: From Modeling to Implementation date: 2020-04-07 words: 7579 flesch: 54 summary: Department of Mathematics, University of British Columbia The mathematics of infectious diseases Epidemic Disease in England: the Evidence of Variability and of Persistency of Type, ser A contribution to the mathematical theory of epidemics Population biology of infectious diseases: Part I Epidemiological models with age structure, proportionate mixing, and cross-immunity A Thousand and One Epidemic Models, ser Modeling Infectious Diseases in Humans and Animals An Introduction to Infectious Disease Modeling Nonlinear Systems Infectious Diseases of Humans: Dynamics and Control Bifurcation thresholds in an SIR model with information-dependent vaccination Bifurcation analysis in an SIR epidemic model with birth pulse and pulse vaccination Stability and bifurcations in an epidemic model with varying immunity period Qualitative and bifurcation analysis using an SIR model with a saturated treatment function On the global stability of SIS, SIR and SIRS epidemic models with standard incidence A simple SIS epidemic model with a backward bifurcation Bifurcation analysis of an SIS epidemic model with nonlinear birth rate Backward bifurcation in simple SIS model Bifurcation and chaos in SIS epidemic model Stability of Hopf bifurcation of a delayed SIRS epidemic model with stage structure Bifurcation analysis of an SIRS epidemic model with generalized incidence Bifurcations of an SIRS epidemic model with nonlinear incidence rate Dynamical Modeling and Analysis of Epidemics Population dynamics of fox rabbits in Europe Some epidemiological models with nonlinear incidence Complex dynamics of discrete SEIS models with simple demography Dynamic analysis of an SEIS model with bilinear incidence rate Mathematical Understanding of Infectious Disease Dynamics Effects of quarantine in six endemic models for infectious diseases Global results for an epidemic model with vaccination that exhibits backward bifurcation Time delays in epidemic models: modeling and numerical considerations Dynamics of a discrete age-structured SIS models Continuous-time age-structured models in population dynamics and epidemiology, ser An age-structured model for pertussis transmission A deterministic model for gonorrhea in a nonhomogeneous population Qualitative analysis for communicable disease models An epidemic model in a patchy environment Analysis of a reaction-diffusion system modeling man-environment-man epidemics Melnikov analysis of chaos in an epidemiological model with almost periodic incidence rates A myriad of works on epidemic models and their variants have been reported in the literature. keywords: epidemic; figure; models; population; system cache: cord-174692-ljph6cao.txt plain text: cord-174692-ljph6cao.txt item: #160 of 435 id: cord-175015-d2am45tu author: Moran, Rosalyn J. title: Estimating required 'lockdown' cycles before immunity to SARS-CoV-2: Model-based analyses of susceptible population sizes, 'S0', in seven European countries including the UK and Ireland date: 2020-04-09 words: 3812 flesch: 51 summary: = 1. For the HMM and both ODE models (ODE model and ODE_City) to estimate the model parameters, we employed a standard (variational Laplace) Bayesian scheme to optimise parameters of corresponding DCM (spm_NLSI_GN) (Friston, Mattout et al. 2007) . Crucially, Maximum a posteriori (MAP) estimates of S0 for each country indicated effective population sizes of below 20% (of total population size), under both the continuous time and HMM models. keywords: cases; countries; hmm; model; population cache: cord-175015-d2am45tu.txt plain text: cord-175015-d2am45tu.txt item: #161 of 435 id: cord-175366-jomeywqr author: Massonis, Gemma title: Structural Identifiability and Observability of Compartmental Models of the COVID-19 Pandemic date: 2020-06-25 words: 6470 flesch: 38 summary: However, the accuracy of mechanistic models is constrained by the uncertainties in our knowledge, which creates uncertainties in model parameters and even in the model structure [8] . Figure 1 : Classification of SIR models. keywords: covid-19; identifiability; individuals; model; observability; parameters; rate; states; time cache: cord-175366-jomeywqr.txt plain text: cord-175366-jomeywqr.txt item: #162 of 435 id: cord-176131-0vrb3law author: Bao, Richard title: PECAIQR: A Model for Infectious Disease Applied to the Covid-19 Epidemic date: 2020-06-17 words: 6605 flesch: 57 summary: Analysis of model predictions for different cutoff dates in the training data shows that the model is quite stable and consistent when predicting on the region past the peak. Analysis of model predictions for different cutoff dates in the training data shows that the model is quite stable and consistent when predicting on the region past the peak. keywords: counties; county; data; deaths; fit; model; parameter; people; time cache: cord-176131-0vrb3law.txt plain text: cord-176131-0vrb3law.txt item: #163 of 435 id: cord-176677-exej3zwh author: Coveney, Peter V. title: When we can trust computers (and when we can't) date: 2020-07-08 words: 6297 flesch: 34 summary: 57 Recent years have seen an explosive growth in digital data accompanied by the rising public awareness that their lives depend on algorithms, though it is plain to all that any computer code is based on an algorithm, without which it will not run. 85 The Turing Way -A handbook for reproducible data science The need for open source software in machine learning As Concerns About Non-Reproducible Data Mount, Some Solutions Take Shape Addressing Scientific Fraud. keywords: computers; data; learning; machine; models; reproducibility; research; results; science; simulations; systems; theory; uncertainty cache: cord-176677-exej3zwh.txt plain text: cord-176677-exej3zwh.txt item: #164 of 435 id: cord-178783-894gkrsk author: Zhang, Rui title: Drug Repurposing for COVID-19 via Knowledge Graph Completion date: 2020-10-19 words: 8191 flesch: 39 summary: The potential of recent advances in artificial intelligence (AI) and machine learning for COVID-19 drug repurposing has also been highlighted [14] and several studies using these techniques have reported promising results [15] [16] [20, 21] ap-proach for COVID-19 drug repurposing. keywords: approach; completion; covid-19; data; discovery; drug; graph; inhibits; knowledge; literature; methods; models; network; patterns; protein; relations; repurposing cache: cord-178783-894gkrsk.txt plain text: cord-178783-894gkrsk.txt item: #165 of 435 id: cord-182586-xdph25ld author: Sun, Fei title: Dynamics of an imprecise stochastic multimolecular biochemical reaction model with L'{e}vy jumps date: 2020-04-26 words: 1681 flesch: 57 summary: [3] studied the sensitivity summation theorems for stochastic biochemical reaction models. In recent decades, the study of biochemical reaction model has become one of the famous topics in mathematical biology and catalytic enzyme research. keywords: model; reaction; stochastic cache: cord-182586-xdph25ld.txt plain text: cord-182586-xdph25ld.txt item: #166 of 435 id: cord-184685-ho72q46e author: Huang, Tongtong title: Population stratification enables modeling effects of reopening policies on mortality and hospitalization rates date: 2020-08-10 words: 4853 flesch: 42 summary: Among existing models, the ODE compartment-based models occupy a middle ground between network models at the individual-level and purely count-driven statistical analyses that are disease-dynamics-agnostic, which will be our main interest in this paper. Compartment models, which originated in the early 20th century keywords: contact; covid-19; data; hcd; hospitalization; model; mortality; policies; population; reopening cache: cord-184685-ho72q46e.txt plain text: cord-184685-ho72q46e.txt item: #167 of 435 id: cord-185125-be11h9wn author: Baldea, Ioan title: What Can We Learn from the Time Evolution of COVID-19 Epidemic in Slovenia? date: 2020-05-25 words: 2405 flesch: 41 summary: To briefly remind, standard logistical growth in time t of an infected population n = n(t) follows an ordinary differential equation containing two constants (input model parameters): the (intrinsic) infection rate κ(> 0) and the so called carrying capacity N. Estimating model parameters from data fitting in a certain time interval to make predictions can easily run into a difficulty like that described in the first paragraph of Section 2.3. keywords: covid-19; equation; model; time cache: cord-185125-be11h9wn.txt plain text: cord-185125-be11h9wn.txt item: #168 of 435 id: cord-190495-xpfbw7lo author: Molnar, Tamas G. title: Safety-Critical Control of Compartmental Epidemiological Models with Measurement Delays date: 2020-09-22 words: 4206 flesch: 58 summary: SIR model. key: cord-190495-xpfbw7lo authors: Molnar, Tamas G.; Singletary, Andrew W.; Orosz, Gabor; Ames, Aaron D. title: Safety-Critical Control of Compartmental Epidemiological Models with Measurement Delays date: 2020-09-22 journal: nan DOI: nan sha: doc_id: 190495 cord_uid: xpfbw7lo We introduce a methodology to guarantee safety against the spread of infectious diseases by viewing epidemiological models as control systems and by considering human interventions (such as quarantining or social distancing) as control input. keywords: compartments; control; covid-19; input; model; safety cache: cord-190495-xpfbw7lo.txt plain text: cord-190495-xpfbw7lo.txt item: #169 of 435 id: cord-191876-03a757gf author: Weinert, Andrew title: Processing of Crowdsourced Observations of Aircraft in a High Performance Computing Environment date: 2020-08-03 words: 3989 flesch: 52 summary: If the geospatial filtering parameters and aircraft registry data doesn't change, only new Open Sky data needs to be organized. [9] to process billions of aircraft observations in a scalable and efficient manner. keywords: aircraft; data; directories; directory; files; level; models; network; observations cache: cord-191876-03a757gf.txt plain text: cord-191876-03a757gf.txt item: #170 of 435 id: cord-193856-6vs16mq3 author: Zhou, Tongxin title: Spoiled for Choice? Personalized Recommendation for Healthcare Decisions: A Multi-Armed Bandit Approach date: 2020-09-13 words: 12297 flesch: 36 summary: First, we design and implement two deeplearning models to extract user embeddings and item embeddings, which enables us to capture information that is critical to a healthcare decision-making context, such as users' health histories and health-behavior sequences (Johnson et al. 2002; Step 2 (Optimization): Solve the following optimization problem: Observe a new batch of data ( , ( , )), [ ], Update the posterior mean by: Update the posterior variance by: Recommendation size constraint Binary decision To improve the characterization of individuals' health-management contexts and enhance recommendation personalization, we design a deep-learning model to construct user embeddings. keywords: challenge; data; diversity; embeddings; framework; health; healthcare; individuals; learning; loss; mab; management; model; recommendation; users; weight cache: cord-193856-6vs16mq3.txt plain text: cord-193856-6vs16mq3.txt item: #171 of 435 id: cord-195082-7tnwkxuh author: Oodally, Ajmal title: Modeling dependent survival data through random effects with spatial correlation at the subject level date: 2020-10-12 words: 4802 flesch: 53 summary: r package version 2 Convergence of a stochastic approximation version of the EM algorithm Coping with time and space in modelling malaria incidence: a comparison of survival and count regression models An adaptive metropolis algorithm Coupling a stochastic approximation version of em with an mcmc procedure Modeling spatial survival data using semiparametric frailty models Analysis of spatial frailty models by a weighted estimating equation A jackknife estimator of variance for cox regression for correlated survival data Finding the observed information matrix when using the em algorithm Markov chains and stochastic stability Convergent stochastic algorithm for parameter estimation in frailty models using integrated partial likelihood Maximum likelihood inference for multivariate frailty models using an automated monte carlo em algorithm Asymptotic properties of maximum likelihood estimators and likelihood ratio tests under nonstandard conditions Asymptotic statistics Jackknife, bootstrap and other resampling methods in regression analysis The effect of dams and seasons on malaria incidence and anopheles abundance in ethiopia We note however that this grouping structure is different from the usual grouping structure in spatial survival models in the sense that the members of the group have exactly the same geographical coordinates. keywords: algorithm; data; frailty; likelihood; model cache: cord-195082-7tnwkxuh.txt plain text: cord-195082-7tnwkxuh.txt item: #172 of 435 id: cord-195263-i4wyhque author: Heider, Philipp title: COVID-19 mitigation strategies and overview on results from relevant studies in Europe date: 2020-05-11 words: 4355 flesch: 49 summary: Past studies have shown that countermeasures are able to reduce reproduction numbers or transmission rates in epidemics. Past studies have shown that countermeasures are able to reduce reproduction numbers or transmission rates in epidemics. keywords: epidemic; growth; measures; model; number; rate; reproduction; spread cache: cord-195263-i4wyhque.txt plain text: cord-195263-i4wyhque.txt item: #173 of 435 id: cord-196353-p05a8zjy author: Backhausz, 'Agnes title: Virus spread and voter model on random graphs with multiple type nodes date: 2020-02-17 words: 7553 flesch: 58 summary: We confront outcomes on different random graphs and the numerical solutions of the differential equations originating from the continuous time counterpart of the process. We studied the possible differences of the processes on different graphs, regarding the nature and magnitude of distinct result and both tried to find the reasons for them, to understand how can the structure of an underlying network affect outcomes. keywords: age; graphs; individuals; model; nodes; opinion; vaccination cache: cord-196353-p05a8zjy.txt plain text: cord-196353-p05a8zjy.txt item: #174 of 435 id: cord-198449-cru40qp4 author: Carballosa, Alejandro title: Incorporating social opinion in the evolution of an epidemic spread date: 2020-07-09 words: 5416 flesch: 46 summary: The framework of mobility networks allows the explicit simulation of entire populations down to the scale of single individuals, modelling the structure of human interactions, mobility and contact patterns. A first observation of their topologies demonstrate that they fit a scale free network with a power law connectivity distribution and exponents = 1.39 for October'19 and = 1.77 for April'20 network keywords: epidemic; individuals; model; network; nodes; opinion; population cache: cord-198449-cru40qp4.txt plain text: cord-198449-cru40qp4.txt item: #175 of 435 id: cord-203620-mt9ivgzi author: McCreery, Clara H. title: Effective Transfer Learning for Identifying Similar Questions: Matching User Questions to COVID-19 FAQs date: 2020-08-04 words: 5740 flesch: 54 summary: key: cord-203620-mt9ivgzi authors: McCreery, Clara H.; Katariya, Namit; Kannan, Anitha; Chablani, Manish; Amatriain, Xavier title: Effective Transfer Learning for Identifying Similar Questions: Matching User Questions to COVID-19 FAQs date: 2020-08-04 journal: nan DOI: nan sha: doc_id: 203620 cord_uid: mt9ivgzi People increasingly search online for answers to their medical questions but the rate at which medical questions are asked online significantly exceeds the capacity of qualified people to answer them. First, medical questions imbibe a large amount of medical information that a single word can completely change the meaning of the question. keywords: answer; bert; domain; model; pairs; question; similarity; task; training cache: cord-203620-mt9ivgzi.txt plain text: cord-203620-mt9ivgzi.txt item: #176 of 435 id: cord-205559-q50vog59 author: Zhang, Lelin title: Detecting Transaction-based Tax Evasion Activities on Social Media Platforms Using Multi-modal Deep Neural Networks date: 2020-07-27 words: 3870 flesch: 48 summary: Pre-training of Deep Bidirectional Transformers for Language Understanding Concept, Motives and Channels of Digital Shadow Economy: Consumers' Attitude Identifying substance use risk based on deep neural networks and Instagram social media data Deep Residual Learning for Image Recognition Long short-term memory Parameter-Efficient Transfer Learning for NLP Adam: A Method for Stochastic Optimization A Keras TensorFlow 2.0 implementation of BERT, ALBERT and adapter-BERT Ima-geNet Classification with Deep Convolutional Neural Networks A Machine Learning Approach for the Detection and Characterization of Illicit Drug Dealers on Instagram: Model Evaluation Study Chinese Grey Market a '$1 Billion Tax Black Hole' the Network of Chinese Personal Shoppers Known As Daigou Have Been Quietly Operating a Grey Market for Years, but Do They Pay Tax? The Digital Archipelago: How Online Commerce Is Driving Indonesia's Economic Development Distributed Representations of Words and Phrases and their Compositionality Thailand To Launch Value-Added Tax In 2020 Millions of Ugandans quit internet services as social media tax takes effect The curse of cash: How large-denomination bills aid crime and tax evasion and constrain monetary policy An Economic Perspective on Tax Evasion Going deeper with convolutions EfficientNet: Rethinking Model Scaling for Convolutional Neural Networks Tax Office trawls Facebook, Instagram and other social media to catch out dodgers 2020. The model using image features achieved the highest precision (0.756), showing that it was most sensitive to tax evasion activities, but its overall performance (F1 score = 0.696) was compromised with the lowest recall (0.645). keywords: activities; evasion; features; media; model; posts; tax; transaction cache: cord-205559-q50vog59.txt plain text: cord-205559-q50vog59.txt item: #177 of 435 id: cord-208252-e0vlaoii author: Calvetti, Daniela title: Bayesian dynamical estimation of the parameters of an SE(A)IR COVID-19 spread model date: 2020-05-09 words: 7818 flesch: 43 summary: The Epidemiology and Control of Malaria A brief history of R 0 and a recipe for its calculation On the definition and computation of the basic reproduction ratio R 0 in models for infectious diseases in heterogeneous populations The construction of next-generation matrices for compartmental epidemic models The COVID-19 data, consisting of the daily count of newly reported infection, corresponds to observations of the flux ϕ 2 : In the absence of additional populationlevel inputs, this is the data that must be used to estimate the cohort sizes and model parameters. keywords: asymptomatic; cohort; covid-19; data; individuals; model; number; particle; rate; transmission cache: cord-208252-e0vlaoii.txt plain text: cord-208252-e0vlaoii.txt item: #178 of 435 id: cord-209221-vjfmxsks author: Ishiguro, Katsuhiko title: Data Transfer Approaches to Improve Seq-to-Seq Retrosynthesis date: 2020-10-02 words: 7297 flesch: 54 summary: Such behaviors are not mentioned in the literature so far, possibly opening a new question for model training. We showed in this study that the hypothesis does not hold for single model training on USPTO-50K, which is the default training strategy in previous studies. keywords: accuracy; dataset; et al; fine; model; pre; retrosynthesis; test; training; transfer; tuning cache: cord-209221-vjfmxsks.txt plain text: cord-209221-vjfmxsks.txt item: #179 of 435 id: cord-213974-rtltf11w author: Lensink, Keegan title: Segmentation of Pulmonary Opacification in Chest CT Scans of COVID-19 Patients date: 2020-07-07 words: 5520 flesch: 47 summary: The medical students were used to collect lung segmentation labels, while the radiologists and residents were used to collect segmentation labels for patterns of opacification. We provide open source implementations and pre-trained weights for multiple segmentation models trained on our dataset. keywords: covid-19; data; lung; model; opacification; patterns; scans; segmentation; set cache: cord-213974-rtltf11w.txt plain text: cord-213974-rtltf11w.txt item: #180 of 435 id: cord-214774-yro1iw80 author: Srivastava, Anuj title: Agent-Level Pandemic Simulation (ALPS) for Analyzing Effects of Lockdown Measures date: 2020-04-25 words: 4988 flesch: 55 summary: The importance of simulations based analysis of epidemic spread is emphasized in [11] but with a focus on infection models within host. From an epidemiological perspective, as large amount of infection, containment, and recovery data from the this pandemic becomes available over time, the community is currently relying essentially on simulation models to help assess situations and to evaluate options [1] . keywords: agents; alps; community; day; infection; model; restrictions; time cache: cord-214774-yro1iw80.txt plain text: cord-214774-yro1iw80.txt item: #181 of 435 id: cord-216208-kn0njkqg author: Botha, Andr'e E. title: A simple iterative map forecast of the COVID-19 pandemic date: 2020-03-23 words: 2484 flesch: 56 summary: While there are a number of models available for the global spread of infectious diseases 3 , some even containing very sophisticated traffic layers 4 , relatively few researchers are making use of simpler models that can provide the big picture without difficult to interpret unambiguously. For the data in Table 2 , the output from the script should be: who-director-general-s-opening-remarks-at-the-media-briefing-on-covid Covert coronavirus infections could be seeding new outbreaks Insights from early mathematical models of 2019-ncov acute respiratory disease (COVID-19) dynamics GLEAMviz: keywords: cases; data; day; model; number cache: cord-216208-kn0njkqg.txt plain text: cord-216208-kn0njkqg.txt item: #182 of 435 id: cord-217139-d9q7zkog author: Kumar, Sumit title: Future of COVID-19 in Italy: A mathematical perspective date: 2020-04-18 words: 3480 flesch: 60 summary: Figure 5 shows various scenarios of the epidemic in Italy in case disease transmission rate would have been timely controlled. Severe acute respiratory syndrome coronavirus 2 (sars-cov-2) and corona virus disease-2019 (covid-19): the epidemic and the challenges Corcione, 2019-novel coronavirus outbreak: A new challenge Early transmission dynamics in wuhan, china, of novel coronavirus-infected pneumonia Clinical characteristics of 138 hospitalized patients with 2019 novel coronavirus-infected pneumonia in wuhan, china Novel wuhan (2019-ncov) coronavirus The next big threat to global health? Critical care utilization for the covid-19 outbreak in lombardy, italy: early experience and forecast during an emergency response Covid-19 and italy: what next? Covid-19 in italy: momentous decisions and many uncertainties Predicting the ultimate outcome of the covid-19 outbreak in italy The reproductive number of covid-19 is higher compared to sars coronavirus The construction of nextgeneration matrices for compartmental epidemic models keywords: covid-19; disease; italy; model; pandemic cache: cord-217139-d9q7zkog.txt plain text: cord-217139-d9q7zkog.txt item: #183 of 435 id: cord-219817-dqmztvo4 author: Oghaz, Toktam A. title: Probabilistic Model of Narratives Over Topical Trends in Social Media: A Discrete Time Model date: 2020-04-14 words: 5199 flesch: 42 summary: Topic models over time with continuous-time distribution [5] and dynamic topic models [35] intend to capture the rise and falls of topics within a time range. The identified narratives can be evaluated using effective evaluation metrics for topic models. keywords: activity; data; distribution; events; media; model; narrative; summarization; text; time; topic cache: cord-219817-dqmztvo4.txt plain text: cord-219817-dqmztvo4.txt item: #184 of 435 id: cord-222868-k3k0iqds author: Goswami, Anindya title: Data-Driven Option Pricing using Single and Multi-Asset Supervised Learning date: 2020-08-02 words: 9754 flesch: 57 summary: Model evaluation metrics for models trained and tested on BANKNIFTY options contract price data From the results shown in Table 5 and Table 4 , it is evident that Approach III ANN models perform significantly better than all other proposed models. To the best of our knowledge, option pricing models using these feature sets have not been reported in the literature so far. keywords: approach; asset; contract; data; models; option; option contract; option price; price; price data; pricing; table cache: cord-222868-k3k0iqds.txt plain text: cord-222868-k3k0iqds.txt item: #185 of 435 id: cord-225347-lnzz2chk author: Chakraborty, Tanujit title: Nowcasting of COVID-19 confirmed cases: Foundations, trends, and challenges date: 2020-10-10 words: 10219 flesch: 49 summary: As an extension of autoregressive model, Self-exciting threshold autoregressive (SE-TAR) model is used to model time series data, in order to allow for higher degree of flexibility in model parameters through a regime switching behaviour [116] . There are many approaches to test the nonlinearity in time series models, including a nonparametric kernel test and a Neural Network test [119] . keywords: accuracy; arima; cases; covid-19; data; datasets; ensemble; forecasting; forecasting models; forecasts; function; hybrid; models; series; series data; test; time; time series cache: cord-225347-lnzz2chk.txt plain text: cord-225347-lnzz2chk.txt item: #186 of 435 id: cord-225429-pz9lsaw6 author: Rodrigues, Helena Sofia title: Optimal Control and Numerical Optimization Applied to Epidemiological Models date: 2014-01-29 words: 32062 flesch: 52 summary: A vaccination program is seen as an important measure used in infectious disease control and immunization and eradication programs. The OC-ODE [57] , Optimal Control of Ordinary-Differential Equations, by Matthias Gerdts, is a collection of Fortran 77 routines for optimal control problems subject to ordinary differential equations. keywords: case; chapter; conditions; control; control problem; dengue; disease; disease control; equations; equilibrium; human; individuals; infected; insecticide; mathematical; method; model; mosquitoes; number; optimal; order; population; problem; rate; reproduction; reproduction number; state; study; system; time; transmission; vaccination; vaccine; variables; vector cache: cord-225429-pz9lsaw6.txt plain text: cord-225429-pz9lsaw6.txt item: #187 of 435 id: cord-225640-l0z56qx4 author: Ghamizi, Salah title: Data-driven Simulation and Optimization for Covid-19 Exit Strategies date: 2020-06-12 words: 4958 flesch: 51 summary: Recent research about non-pharmaceutical interventions focused on mobility data to combine epidemiological models and learning algorithms. At each iteration, the genetic algorithm builds a population of policy schedules, which the deep learning and epidemiological models allow to evaluate. keywords: approach; countries; exit; mobility; model; number; seir; strategies; time; values cache: cord-225640-l0z56qx4.txt plain text: cord-225640-l0z56qx4.txt item: #188 of 435 id: cord-229393-t3cpzmwj author: Srivastava, Ajitesh title: Learning to Forecast and Forecasting to Learn from the COVID-19 Pandemic date: 2020-04-23 words: 3673 flesch: 58 summary: In particular, we show that changes in model parameters over time can help us quantify how well a state or a country has responded to the epidemic. Applying such machine learning-based models to a finer level (from countries to states/cities) and larger scale (more 'regions' of the world) brings unique challenges in terms of unreported/noisy data and large number of model parameters, which will be explored in a future work. keywords: cases; data; epidemic; model; number; parameters; states cache: cord-229393-t3cpzmwj.txt plain text: cord-229393-t3cpzmwj.txt item: #189 of 435 id: cord-229937-fy90oebs author: Amaro, J. E. title: Global analysis of the COVID-19 pandemic using simple epidemiological models date: 2020-05-14 words: 4909 flesch: 51 summary: Discussion: the Kermack-McKendrick epidemic threshold theorem Stability analysis of SIR model with vaccination Seasonality and the effectiveness of mass vaccination Application of SIR epidemiological model: new trends Epidemic disease in England -the evidence of variability and of persistency of type Report on the Prevention of Malaria in Mauritius An application of the theory of probabilities to the study of a priori pathometry. The Death and extended SIR models are simple enough to provide fast estimations of pandemic evolution by fitting spatial-time average parameters, and present a good first-order approximation to understand secondary effects during the pandemic, such as lockdown and population migrations, which may help to control the disease. keywords: d model; data; deaths; model; pandemic; parameters; sir; time cache: cord-229937-fy90oebs.txt plain text: cord-229937-fy90oebs.txt item: #190 of 435 id: cord-230430-38fkbjq0 author: Williams, Tom title: Toward Forgetting-Sensitive Referring Expression Generationfor Integrated Robot Architectures date: 2020-07-16 words: 7627 flesch: 26 summary: In contrast, interference-based models (Waugh & Norman, 1965) argue that WM is a fixed-size buffer in which a piece of information is forgotten with respect to WM if it is removed (due to, e.g., being the least recently used representation in WM memory) to make room for some new representation. In this paper we specifically consider how the use of different models of forgetting within this architecture lead to different information being retained in working memory, which in turn leads to different referring expressions being generated by the robot, which in turn can produce interactive alignment effects purely through Working Memory dynamics. keywords: et al; forgetting; interference; memory; models; properties; referring; representations; robot cache: cord-230430-38fkbjq0.txt plain text: cord-230430-38fkbjq0.txt item: #191 of 435 id: cord-232238-aicird98 author: Ferrario, Andrea title: A Series of Unfortunate Counterfactual Events: the Role of Time in Counterfactual Explanations date: 2020-10-09 words: 6858 flesch: 37 summary: Counterfactual explanations are said to be feasible [22, 30] , if they propose a scenario that respects the causal model [14, 21] (1)) to compute counterfactual explanations does not implement feasibility constraints. Recently, the literature has identified desiderata of counterfactual explanations, such as feasibility, actionability and sparsity that should support their applicability in real-world contexts. keywords: data; explanations; learning; machine; machine learning; model; scenario; time cache: cord-232238-aicird98.txt plain text: cord-232238-aicird98.txt item: #192 of 435 id: cord-238342-ecuex64m author: Fong, Simon James title: Composite Monte Carlo Decision Making under High Uncertainty of Novel Coronavirus Epidemic Using Hybridized Deep Learning and Fuzzy Rule Induction date: 2020-03-22 words: 9525 flesch: 49 summary: Furthermore, different from other decision rule models, FRI allows some fuzzy relaxation in bracketing the upper and lower bounds, thereby a decision can be made based on the min-max values pertaining to each conditional test (attribute in the data). However, MC model allows decision makers to predict by studying the probabilities of possible outcomes on how the changes impact the effectiveness of the Polish EMS system. keywords: covid-19; data; decision; deterministic; epidemic; eqn; future; input; mc model; model; number; rule; simulation; time; variables cache: cord-238342-ecuex64m.txt plain text: cord-238342-ecuex64m.txt item: #193 of 435 id: cord-240372-39yqeux4 author: Costa, Kleyton Vieira Sales da title: Forecasting Quarterly Brazilian GDP: Univariate Models Approach date: 2020-10-26 words: 3888 flesch: 49 summary: Seasonal Autoregressive Integrated Moving Average (SARIMA) and Holt-Winters method are considered classical time series models and the class of dynamic linear models is part of the Bayesian approach. For this purpose, it is compared different classes of time series models. keywords: data; forecast; forecasting; gdp; growth; linear; models; results; series cache: cord-240372-39yqeux4.txt plain text: cord-240372-39yqeux4.txt item: #194 of 435 id: cord-241057-cq20z1jt author: Han, Jungmin title: Statistical Physics of Epidemic on Network Predictions for SARS-CoV-2 Parameters date: 2020-07-06 words: 3016 flesch: 45 summary: Early deaths are sporadic and discrete so the use of network models of epidemic spread is imperative, with the network itself a crucial random variable. These characteristics imply that simulating the epidemic must be done in the context of network models with discrete dynamics for infection spread and death. keywords: age; death; infection; model; network; parameter cache: cord-241057-cq20z1jt.txt plain text: cord-241057-cq20z1jt.txt item: #195 of 435 id: cord-241351-li476eqy author: Liu, Junhua title: CrisisBERT: a Robust Transformer for Crisis Classification and Contextual Crisis Embedding date: 2020-05-11 words: 3867 flesch: 43 summary: To the best of our knowledge, this work is the first to propose a transformer-based classifier for crisis classification tasks. In this section, we discuss the recent works that propose various machine learning approaches for crisis classification tasks. keywords: classification; crisis; detection; embeddings; models; performance; tasks; tweets; works cache: cord-241351-li476eqy.txt plain text: cord-241351-li476eqy.txt item: #196 of 435 id: cord-241596-vh90s8vi author: Libotte, Gustavo Barbosa title: Determination of an Optimal Control Strategy for Vaccine Administration in COVID-19 Pandemic Treatment date: 2020-04-15 words: 7213 flesch: 41 summary: Due to the favorable outcome of DE in solving mono-objective optimization problems, for different fields of science and engineering, Lobato and Steffen (2011) proposed the Multi-Objective Differential Evolution (MODE) algorithm to solve multi-objective optimization problems. The most common idea about multi-objective optimization found in the literature was originally proposed by Edgeworth (1881) and further generalized by Pareto (1896) . keywords: control; covid-19; individuals; model; number; objective; optimization; population; problem; time cache: cord-241596-vh90s8vi.txt plain text: cord-241596-vh90s8vi.txt item: #197 of 435 id: cord-244657-zp65561y author: Hawryluk, Iwona title: Simulating normalising constants with referenced thermodynamic integration: application to COVID-19 model selection date: 2020-09-08 words: 7262 flesch: 41 summary: A number of model selection methods are available, but those methods often come with a trade-off between accuracy and computational complexity. The ratio of two normalising constants -the Bayes factor (BF) -is popularly used for model selection method in the Bayesian setting [4] . keywords: density; evidence; log; method; model; reference cache: cord-244657-zp65561y.txt plain text: cord-244657-zp65561y.txt item: #198 of 435 id: cord-246317-wz7epr3n author: Wang, Wei-Yao title: EmotionGIF-Yankee: A Sentiment Classifier with Robust Model Based Ensemble Methods date: 2020-07-05 words: 3271 flesch: 55 summary: We preprocess original tweet data to pre-trained language model, then fine-tune to multi-label classification model. Hence, we use enhanced pretrained model to fine-tune to multi-label classification model in downstream task. keywords: categories; classification; data; label; methods; model; pre cache: cord-246317-wz7epr3n.txt plain text: cord-246317-wz7epr3n.txt item: #199 of 435 id: cord-248050-apjwnwky author: Vrugt, Michael te title: Effects of social distancing and isolation on epidemic spreading: a dynamical density functional theory model date: 2020-03-31 words: 5115 flesch: 46 summary: This is crucial here as it allows to model effects of social distancing and selfisolation via a repulsive potential between the different persons. Figure 2 shows the time evolution of the total numbers S(t), I(t), and R(t) of susceptible, infected, and recovered persons, respectively, for the cases without interactions (usual SIR model with diffusion) and with interactions (our model). keywords: ddft; density; diffusion; disease; distancing; interactions; model; persons; sir; theory cache: cord-248050-apjwnwky.txt plain text: cord-248050-apjwnwky.txt item: #200 of 435 id: cord-250288-obsl0nbf author: Yan, Bingjie title: An Improved Method for the Fitting and Prediction of the Number of COVID-19 Confirmed Cases Based on LSTM date: 2020-05-05 words: 3606 flesch: 48 summary: In addition, Machine Learning has also been commonly used in infectious disease model prediction. The common traditional mathematical differential equations and population prediction models have limitations for time series population prediction, and even have large estimation errors. keywords: cases; data; epidemic; learning; lstm; model; number; prediction; results; time cache: cord-250288-obsl0nbf.txt plain text: cord-250288-obsl0nbf.txt item: #201 of 435 id: cord-252166-qah877pk author: Ekins, S title: In silico pharmacology for drug discovery: applications to targets and beyond date: 2007-09-01 words: 12716 flesch: 32 summary: However, such pharmacological targets have been difficult for in silico methods to derive small molecule inhibitors owing to generally quite shallow binding sites. For example, the work of Fliri et al. (2005b) presented the biological spectra for a cross-section of the proteome. keywords: activity; binding; compounds; database; design; discovery; drug; et al; human; inhibitors; methods; models; molecular; molecules; novel; pharmacology; pharmacophore; protein; qsar; receptor; screening; set; silico; structure; targets cache: cord-252166-qah877pk.txt plain text: cord-252166-qah877pk.txt item: #202 of 435 id: cord-252894-c02v47jz author: Chae, Sangwon title: Predicting Infectious Disease Using Deep Learning and Big Data date: 2018-07-27 words: 10664 flesch: 54 summary: It is believed that infectious disease prediction models that employ deep learning can be used to supplement current infectious disease surveillance systems and, at the same time, predict trends in infectious disease. To ensure the amount of DNN model data was the same as that of the LSTM model, previous data from the same time period as the LSTM was inserted. keywords: analysis; arima model; data; disease; dnn; dnn model; lstm; model; performance; prediction; prediction model cache: cord-252894-c02v47jz.txt plain text: cord-252894-c02v47jz.txt item: #203 of 435 id: cord-252903-pg0l92zb author: Abueg, M. title: Modeling the combined effect of digital exposure notification and non-pharmaceutical interventions on the COVID-19 epidemic in Washington state date: 2020-09-02 words: 7328 flesch: 36 summary: In contrast, OpenABM-Covid19 ( 22 ) simulates concurrent manual contact tracing and digital exposure notification interventions over interaction networks at a large scale. key: cord-252903-pg0l92zb authors: Abueg, M.; Hinch, R.; Wu, N.; Liu, L.; Probert, W. J. M.; Wu, A.; Eastham, P.; Shafi, Y.; Rosencrantz, M.; Dikovsky, M.; Cheng, Z.; Nurtay, A.; Abeler-DoÌ�rner, L.; Bonsall, D. G.; McConnell, M. V.; O'Banion, S.; Fraser, C. title: Modeling the combined effect of digital exposure notification and non-pharmaceutical interventions on the COVID-19 epidemic in Washington state date: 2020-09-02 journal: nan DOI: 10.1101/2020.08.29.20184135 sha: doc_id: 252903 cord_uid: pg0l92zb Contact tracing is increasingly being used to combat COVID-19, and digital implementations are now being deployed, many of them based on Apple and Google's Exposure Notification System. keywords: app; contact; covid-19; data; digital; epidemic; exposure; interventions; license; manual; model; notification; preprint cache: cord-252903-pg0l92zb.txt plain text: cord-252903-pg0l92zb.txt item: #204 of 435 id: cord-254107-02bik024 author: Hillisch, Alexander title: Utility of homology models in the drug discovery process date: 2004-08-31 words: 7383 flesch: 38 summary: An Introduction The response of protein structures to amino-acid sequence changes Fold Recognition Methods Progress in protein structure prediction Assessment of homology-based predictions in CASP5 SCOP: a structural classification of proteins database for the investigation of sequences and structures Databases for protein-ligand complexes LigBase: a database of families of aligned ligand binding sites in known protein sequences and structures PDBsum: summaries and analyses of PDB structures MODBASE, a database of annotated comparative protein structure models, and associated resources Comparative protein modelling by satisfaction of spatial restraints The SWISS-MODEL Repository of annotated threedimensional protein structure homology models Supporting your pipeline with structural knowledge There are numerous examples where protein homology models have supported the discovery and the optimization of lead compounds with respect to potency and selectivity. keywords: binding; compounds; design; discovery; drug; homology; homology models; human; modeling; models; protein; receptor; sequence; structure; target cache: cord-254107-02bik024.txt plain text: cord-254107-02bik024.txt item: #205 of 435 id: cord-254339-djmibi3a author: Griette, Quentin title: Unreported Cases for Age Dependent COVID-19 Outbreak in Japan date: 2020-06-17 words: 5629 flesch: 61 summary: As a consequence, unreported cases are a majority for young age classes (for age classes less than 50 years) and become a minority for older age classes (more than 50 years), see Figure 12 . In particular, we build a new mathematical model and a new computational method to fit the data by using age classes dependent exponential growth at the early stage of the epidemic. keywords: age; data; individuals; model; number cache: cord-254339-djmibi3a.txt plain text: cord-254339-djmibi3a.txt item: #206 of 435 id: cord-254729-hoa39sx2 author: Wan, Wai-Yin title: Bayesian analysis of robust Poisson geometric process model using heavy-tailed distributions date: 2011-01-01 words: 7782 flesch: 54 summary: The vector of model parameters is θ = (θ T 1 , . . By varying a set of model parameters, the properties of the RPGP models are reported in Tables 1 and 2 and their pmfs are revealed in Figs. 1 and 2. keywords: data; distribution; group; mean; model; rmpgp cache: cord-254729-hoa39sx2.txt plain text: cord-254729-hoa39sx2.txt item: #207 of 435 id: cord-255557-k0xat0u7 author: Mao, Liang title: Modeling monthly flows of global air travel passengers: An open-access data resource date: 2015-10-31 words: 4786 flesch: 49 summary: As research interest in the WAN continues to grow, the availability and completeness of air passenger flow data have become key obstacles. For model development, we obtained monthly air passenger numbers from the US Air Carrier Statistics T-100 domestic and international segments (www.transtats.bts.gov). keywords: air; airport; data; fig; flight; model; monthly; passenger; routes; wan cache: cord-255557-k0xat0u7.txt plain text: cord-255557-k0xat0u7.txt item: #208 of 435 id: cord-256289-rls5lr27 author: Leeuwenberg, Artuur M title: Prediction models for COVID-19 clinical decision making date: 2020-09-22 words: 992 flesch: 35 summary: key: cord-256289-rls5lr27 authors: Leeuwenberg, Artuur M; Schuit, Ewoud title: Prediction models for COVID-19 clinical decision making date: 2020-09-22 journal: Lancet Digit Health DOI: 10.1016/s2589-7500(20)30226-0 sha: doc_id: 256289 cord_uid: rls5lr27 nan www.thelancet.com/digital-health Vol 2 October 2020 e496 As of Sept 2, 2020, more than 25 million cases of COVID-19 have been reported, with more than 850 000 associated deaths worldwide. Then, and with improved reporting (by adherence to TRIPOD criteria), validity, and quality (according to PROBAST), prediction models can provide the decision support that is needed when COVID-19 cases and hospital admissions will again test the limits of the health-care system. keywords: covid-19; models; prediction cache: cord-256289-rls5lr27.txt plain text: cord-256289-rls5lr27.txt item: #209 of 435 id: cord-258018-29vtxz89 author: Cooper, Ian title: A SIR model assumption for the spread of COVID-19 in different communities date: 2020-06-28 words: 5817 flesch: 52 summary: The Lancet infectious diseases Modified SEIR and AI prediction of the epidemics trend of COVID-19 in China under public health interventions Analysis and forecast of COVID-19 spreading in China, Italy and France A data-driven network model for the emerging COVID-19 epidemics in Wuhan, Toronto and Italy Estimation of COVID-19 dynamics on a back-of-envelope: Does the simplest SIR model provide quantitative parameters and predictions Modeling the impact of mass influenza vaccination and public health interventions on COVID-19 epidemics with limited detection capability Three basic epidemiological models The mathematics of infectious diseases The basic epidemiology models: models, expressions for R0, parameter estimation, and applications The SIR model and the foundations of public health Global analysis of the COVID-19 pandemic using simple epidemiological models A modified sir model for the covid-19 contagion in Italy Mathematical modeling of covid-19 transmission dynamics with a case study of wuhan Mod-370 elling the COVID-19 epidemic and implementation of population-wide interventions in Italy The effectiveness of quarantine of Wuhan city against the Corona Virus Disease 2019 (COVID19): A wellmixed SEIR model analysis ), e0230405. System (1) can be solved numerically to find how the scaled (by f ) susceptible S, infected I and removed R m populations (what we call model solutions) evolve with time, in good agreement with the recorded data. keywords: covid-19; data; model; number; population; sir; sir model; susceptible cache: cord-258018-29vtxz89.txt plain text: cord-258018-29vtxz89.txt item: #210 of 435 id: cord-258316-uiusqr59 author: Spil, Ton A.M. title: Are serious games too serious? Diffusion of wearable technologies and the creation of a diffusion of serious games model date: 2020-08-18 words: 7514 flesch: 48 summary: Research interests in serious games have increased over the last decade and we now find a few similar definitions of serious games in existing literature: Serious games are games that do not have entertainment, enjoyment or fun as their primary purpose (Michael & Chen, 2005) . More specific, we found during our interviews and validation design cycle that serious health games should improve health by having fun. keywords: adoption; diffusion; games; health; information; interviewees; model; research; study; use; users; wearables cache: cord-258316-uiusqr59.txt plain text: cord-258316-uiusqr59.txt item: #211 of 435 id: cord-258762-vabyyx01 author: Garbey, Marc title: A Systems Approach to Assess Transport and Diffusion of Hazardous Airborne Particles in a Large Surgical Suite: Potential Impacts on Viral Airborne Transmission date: 2020-07-27 words: 9883 flesch: 51 summary: We propose to construct a rigorous multi-scale computational framework to address these questions and use measurements of diffusion-transportation of surgical smoke particles with off-the-shelf portable sensors to calibrate the model. In the current study, quantification of surgical smoke concentration in the hallway, the duration of exposure along the year, and the mechanism of propagation of hazardous airborne particles from one OR to another was feasible. keywords: air; concentration; diffusion; door; figure; flow; hallway; model; particles; smoke; source; suite; table; time; transmission cache: cord-258762-vabyyx01.txt plain text: cord-258762-vabyyx01.txt item: #212 of 435 id: cord-259426-qbolo3k3 author: Tadesse, Trhas title: Predictors of Coronavirus Disease 2019 (COVID-19) Prevention Practices Using Health Belief Model Among Employees in Addis Ababa, Ethiopia, 2020 date: 2020-10-22 words: 5286 flesch: 50 summary: COVID-19 prevention practices: Practice of COVID-19 prevention was measured using eleven questions. Therefore, this study investigated the predictors of COVID-19 prevention practice using the Health Belief Model among employees in Addis Ababa, Ethiopia, 2020. keywords: covid-19; employees; health; knowledge; level; model; practice; prevention; study cache: cord-259426-qbolo3k3.txt plain text: cord-259426-qbolo3k3.txt item: #213 of 435 id: cord-259534-hpyf0uj6 author: Panda, Sumati Kumari title: Applying fixed point methods and fractional operators in the modelling of novel coronavirus 2019-nCoV/SARS-CoV-2 date: 2020-10-06 words: 3425 flesch: 52 summary: Now, it is worthy to mention that some recent developments in mathematical models pertinent to the 2019-nCoV: ❼ Altaf and Atangana Mathematical models also used for identifying/estimating various diseases growth and/or abnormal growth of tissue-resistant to a particular infection surveillance natural phenomena procedures(see for example [7] - [11] ). keywords: china; coronavirus; fractional; model; ncov; point cache: cord-259534-hpyf0uj6.txt plain text: cord-259534-hpyf0uj6.txt item: #214 of 435 id: cord-260407-jf1dnllj author: Tang, Catherine So-kum title: Factors influencing the wearing of facemasks to prevent the severe acute respiratory syndrome among adult Chinese in Hong Kong date: 2004-06-11 words: 4508 flesch: 44 summary: This study aimed to determine factors associating with individuals' practice of the target SARS preventive behavior (facemask wearing). The survey instrument included demographic data, measures on the five components of the Health Belief Model, and the practice of the target SARS preventive behavior. keywords: behaviors; facemasks; health; model; practice; sars; wearing cache: cord-260407-jf1dnllj.txt plain text: cord-260407-jf1dnllj.txt item: #215 of 435 id: cord-260797-tc3pueow author: Aleta, Alberto title: Data-driven contact structures: From homogeneous mixing to multilayer networks date: 2020-07-16 words: 6337 flesch: 46 summary: As a consequence, in these studies, superspreading events cannot occur naturally, unless the model is modified, contrary to network models in which the large connectivity of some individuals can result in the appearance of such events. This is especially relevant when going from classical mixing models to network models. keywords: age; contact; distribution; epidemic; individuals; mixing; model; network; number; population cache: cord-260797-tc3pueow.txt plain text: cord-260797-tc3pueow.txt item: #216 of 435 id: cord-260966-9n23fjnz author: Comunian, Alessandro title: Inversion of a SIR-based model: A critical analysis about the application to COVID-19 epidemic date: 2020-08-12 words: 5658 flesch: 44 summary: Together with a physical vision of the model, the present work addresses numerically the issue of parameters calibration in SIR models, it discusses the uncertainties in the data provided by international authorities, how they influence the reliability of calibrated model parameters and, ultimately, of model predictions. It is also assumed that the population under study is a closed system, thus Epidemic models rarely consider birth and death rates, because the cor-555 responding terms in the underlying equations are usually negligible. keywords: data; epidemic; ini; model; parameters; time cache: cord-260966-9n23fjnz.txt plain text: cord-260966-9n23fjnz.txt item: #217 of 435 id: cord-261530-vmsq5hhz author: Rodriguez, Jorge title: A mechanistic population balance model to evaluate the impact of interventions on infectious disease outbreaks: Case for COVID19 date: 2020-04-07 words: 8362 flesch: 37 summary: The comparison between impacts of social isolation interventions to all or selective by age on the final total number of fatalities ( Figure 13 ) shows that the isolation of the elderly can achieve equivalent impact to that of all.3. Then, data about these parameters are computed with statistical tools for the development of epidemic models (Cooper et al., 2006; Biggerstaff et al., 2014) . keywords: age; fatalities; impact; individuals; interventions; isolation; model; number; population; total; values cache: cord-261530-vmsq5hhz.txt plain text: cord-261530-vmsq5hhz.txt item: #218 of 435 id: cord-261599-ddgoxape author: Nabi, Khondoker Nazmoon title: Forecasting of COVID-19 pandemic: From integer derivatives to fractional derivatives date: 2020-09-21 words: 6636 flesch: 49 summary: PRCC is a global sensitivity analysis method, which is used to quantify the relationship between model response function (outputs) and model parameters (sampled by Latin Hypercube Sampling method) in an outbreak setting [28] . In this paper, a new compartmental COVID-19 model has been studied rigorously with the help of Caputo fractional derivatives. keywords: caputo; cases; class; covid-19; derivative; disease; fractional; model; order cache: cord-261599-ddgoxape.txt plain text: cord-261599-ddgoxape.txt item: #219 of 435 id: cord-262524-ununcin0 author: Bankhead, Armand title: A Simulation Framework to Investigate in vitro Viral Infection Dynamics date: 2011-12-31 words: 4247 flesch: 45 summary: These viral particles are released by infected cells according to a specific function based on time post infection, and move over the well with a random walk algorithm. By definition the proportion of infected cells is given by the Poisson distribution that describes the infection process keywords: cells; data; dynamics; infection; model; particles; time; titer; virus cache: cord-262524-ununcin0.txt plain text: cord-262524-ununcin0.txt item: #220 of 435 id: cord-262966-8b1esll4 author: Huang, Ganyu title: Prediction of COVID-19 Outbreak in China and Optimal Return Date for University Students Based on Propagation Dynamics date: 2020-04-07 words: 3460 flesch: 55 summary: We classify the related work into two categories: models with external floating population and those without. Existing work on prediction of the COVID-19 outbreak can be classified into models without external floating population and those with. keywords: individuals; model; number; outbreak; return; time cache: cord-262966-8b1esll4.txt plain text: cord-262966-8b1esll4.txt item: #221 of 435 id: cord-263571-6i64lee0 author: Sarkar, Rohan title: Inulin from Pachyrhizus erosus root and its production intensification using evolutionary algorithm approach and response surface methodology date: 2020-09-09 words: 6017 flesch: 44 summary: As per industrial purview, the optimisation of extraction conditions is quintessential in order to get maximum yield of desirable bioactives for any kind of extraction method. Design of extraction method using microwave is similar to ultrasound assisted extraction where power of microwave were taken as 300 W, 600 W and 900 W along with solvent-solute ratio of 3.5:1, 4.5:1 and 5.5:1 under extraction time of 120s, 150s and 180s. keywords: energy; extraction; inulin; mae; method; microwave; model; order; solvent; surface; time; uae cache: cord-263571-6i64lee0.txt plain text: cord-263571-6i64lee0.txt item: #222 of 435 id: cord-263606-aiey8nvq author: Bonate, Peter L. title: Musings on the current state of COVID-19 modeling and reporting date: 2020-05-29 words: 1599 flesch: 64 summary: Model predictions have become an everyday topic of conversation in households and among coworkers. Every day COVID-19 related models are reported in the newspapers and on the television. keywords: covid-19; modeling; models; predictions cache: cord-263606-aiey8nvq.txt plain text: cord-263606-aiey8nvq.txt item: #223 of 435 id: cord-263620-9rvlnqxk author: Li, Zhi-Chun title: Fifty years of the bottleneck model: A bibliometric review and future research directions date: 2020-09-30 words: 19070 flesch: 40 summary: To date, there have been a few reviews on the topic of bottleneck models or their variations (e.g., Arnott et al., 1998 ; Lindsey and Verhoef, 2001 ; Small, 1992 ; Small, 2015 ) . Table 6 provides a summary of bottleneck model studies involving heterogeneous users. keywords: bottleneck; bottleneck congestion; bottleneck model; capacity; choice; commuters; congestion; cost; demand; departure; departure time; effects; equilibrium; et al; model; morning; parking; pricing; scheduling; scheme; studies; system; time; toll; traffic; transit; travel; travel time; work cache: cord-263620-9rvlnqxk.txt plain text: cord-263620-9rvlnqxk.txt item: #224 of 435 id: cord-263987-ff6kor0c author: Holmes, Ian H. title: Solving the master equation for Indels date: 2017-05-12 words: 7132 flesch: 39 summary: Parameterizing sequence alignment with an explicit evolutionary model Multiple genome rearrangement and breakpoint phylogeny Analytical expression of the purine/pyrimidine codon probability after and before random mutations Analytical solutions of the dinucleotide probability after and before random mutations RNA secondary structure prediction using stochastic context-free grammars and evolutionary history Evolution probabilities and phylogenetic distance of dinucleotides Genome evolution by transformation, expansion and contraction (GETEC) An evolutionary model for maximum likelihood alignment of DNA sequences An introduction to probability theory and its applications Evolutionary HMMs: a Bayesian approach to multiple alignment Using guide trees to construct multiple-sequence evolutionary HMMs Accurate reconstruction of insertion-deletion histories by statistical phylogenetics A note on probabilistic models over strings: the linear algebra approach Statistical alignment based on fragment insertion and deletion models Evolutionary inference via the poisson indel process Inching toward reality: an improved likelihood model of sequence evolution Models of sequence evolution for DNA sequences containing gaps Evolutionary models for insertions and deletions in a probabilistic modeling framework Probabilistic phylogenetic inference with insertions and deletions A probabilistic model for the evolution of RNA structure Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures A probabilistic model for sequence alignment with context-sensitive indels Sequence alignments and pair hidden Markov models using evolutionary history Joint Bayesian estimation of alignment and phylogeny BAli-Phy: simultaneous Bayesian inference of alignment and phylogeny Incorporating indel information into phylogeny estimation for rapidly emerging pathogens Phylogenetic automata, pruning, and multiple alignment Hand Align: Bayesian multiple sequence alignment, phylogeny, and ancestral reconstruction A long indel model for evolutionary sequence alignment An improved model for statistical alignment Chain Monte Carlo Expectation Maximization algorithm for statistical analysis of DNA sequence evolution with neighbor-dependent substitution rates Accurate estimation of substitution rates with neighbor-dependent models in a phylogenetic context Patterns of insertion and deletion in mammalian genomes Exhaustive matching of the entire protein sequence database Pattern and rate of indel evolution inferred from whole chloroplast intergenic regions in sugarcane, maize and rice Patterns of nucleotide substitution, insertion and deletion in the human genome inferred from pseudogenes For indel models, this latent information must be extended to include hidden site boundaries [56] . keywords: alignment; distributions; evolution; finite; gap; indel; length; matrix; models; probability; sequence; state; time cache: cord-263987-ff6kor0c.txt plain text: cord-263987-ff6kor0c.txt item: #225 of 435 id: cord-264136-jjtsd4n3 author: Ferstad, Johannes Opsahl title: A model to forecast regional demand for COVID-19 related hospital beds date: 2020-03-30 words: 2763 flesch: 39 summary: [2, 3] Its rapid spread in China and Italy quickly overwhelmed available hospital beds. The urgency of the challenge and widespread data sharing have led to the development of numerous models of COVID-19: models designed to share the most recent data on confirmed cases and deaths [16] ; technical models intended for use by epidemiologists [17, 18, 21] ; and models presenting high-level summaries of the potential for COVID-19 associated bed demand to overwhelm hospital capacity [9, 19, 22] . keywords: beds; covid-19; hospital; model; number; time cache: cord-264136-jjtsd4n3.txt plain text: cord-264136-jjtsd4n3.txt item: #226 of 435 id: cord-264408-vk4lt83x author: Ruiz, Sara I. title: Animal Models of Human Viral Diseases date: 2017-06-23 words: 34509 flesch: 38 summary: The severe acute respiratory syndrome severe acute respiratory syndrome Bacterial sinusitis and otitis media following influenza virus infection in ferrets Neuropathology of H5N1 virus infection in ferrets The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease Immunopathogenesis of coronavirus infections: implications for sArs Hantavirus pulmonary syndrome: the new American hemorrhagic fever rift Valley fever Inbred rat strains mimic the disparate human response to rift Valley fever virus infection experimental studies of arenaviral hemorrhagic fevers experimental rift Valley fever in rhesus macaques Bovine respiratory syncytial virus protects cotton rats against human respiratory syncytial virus infection Human Hendra virus encephalitis associated with equine outbreak Molecularly engineered live-attenuated chimeric West Nile/dengue virus vaccines protect rhesus monkeys from West Nile virus structure as revealed by airway dissection. emerg Generation of a transgenic mouse model of Middle east respiratory syndrome coronavirus infection and disease Pathological changes in brain and other target organs of infant and weanling mice after infection with nonneuroadapted Western equine encephalitis virus Particle-to-PFU ratio of ebola virus influences disease course and survival in cynomolgus macaques Progress toward norovirus vaccines: considerations for further development and implementation in potential target populations Characterization of lethal Zika virus infection in AG129 mice experimental in vitro and in vivo models for the study of human hepatitis B virus infection A model of meningococcal bacteremia after respiratory superinfection in influenza A virus-infected mice Middle east respiratory syndrome coronavirus: current situation and travel-associated concerns Aerosol exposure to the Angola strain of marburg virus causes lethal viral hemorrhagic fever in cynomolgus macaques Necrotizing scleritis, conjunctivitis, and other pathologic findings in the left eye and brain of an ebola Virus-Infected rhesus macaque (Macaca mulatta) with apparent recovery and a delayed time of death American Academy of Pediatrics subcommittee on Diagnosis and Management of Bronchiolitis Identification of wild-derived inbred mouse strains highly susceptible to monkeypox virus infection for use as small animal models The gerbil, Meriones unguiculatus, a model for rift Valley fever viral encephalitis Morbidity and mortality among patients with respiratory syncytial virus infection: a 2-year retrospective review Chikungunya and the nervous system: what we do and do not know The West Nile virus outbreak of 1999 in New York: the Flushing Hospital experience Hospital outbreak of Middle east respiratory syndrome coronavirus Diagnosis of noncultivatable gastroenteritis viruses, the human caliciviruses Norovirus vaccine against experimental human Norwalk Virus illness Determination of the 50% human infectious dose for Norwalk virus An epizootic attributable to Western equine encephalitis virus infection in emus in Texas evidence for camel-to-human transmission of Mers coronavirus Integrated molecular signature of disease: analysis of influenza virus-infected macaques through functional genomics and proteomics Disseminated and sustained HIV infection in CD34+ cord blood cell-transplanted rag2 −/− gamma c keywords: acute; aerosol; animal; animal model; cells; challenge; clinical; coronavirus; cov; cynomolgus; days; dengue; disease; encephalitis; et al; experimental; exposure; ferrets; fever; fever virus; guinea; hepatitis; human; infected; infection; infection model; influenza; influenza virus; inoculation; lethal; liver; macaques; mice; model; monkeys; mouse; mouse model; nhps; pathogenesis; pigs; replication; response; rhesus; route; sars; signs; strain; studies; study; symptoms; syndrome; transmission; vaccine; viral; viremia; virus; virus infection; viruses cache: cord-264408-vk4lt83x.txt plain text: cord-264408-vk4lt83x.txt item: #227 of 435 id: cord-264994-j8iawzp8 author: Fitzpatrick, Meagan C. title: Modelling microbial infection to address global health challenges date: 2019-09-20 words: 7107 flesch: 26 summary: Projections of Ebola outbreak size and duration with and without vaccine use in Équateur Ebola vaccination in the Democratic Republic of the Congo Emergence and pandemic potential of swine-origin H1N1 influenza virus Estimated influenza illnesses, medical visits, hospitalizations, and deaths averted by vaccination in the United States Global epidemiology of avian influenza A H5N1 virus infection in humans, 1997-2015: a systematic review of individual case data The role of evolution in the emergence of infectious diseases Information technology and global surveillance of cases of 2009 H1N1 influenza Optimizing provider recruitment for influenza surveillance networks Influenza A (H7N9) and the importance of digital epidemiology Disease surveillance on complex social networks Optimizing infectious disease interventions during an emerging epidemic Optimizing influenza vaccine distribution Nine challenges in incorporating the dynamics of behaviour in infectious diseases models Evolutionary game theory and social learning can determine how vaccine scares unfold Department of Health & Human Services. By explicitly defining the nonlinear processes underlying infectious disease spread, transmission models illuminate these otherwise opaque systems. keywords: analysis; data; disease; dynamics; ebola; example; health; hiv; modelling; models; outbreak; population; resistance; risk; transmission; vaccination; vaccine cache: cord-264994-j8iawzp8.txt plain text: cord-264994-j8iawzp8.txt item: #228 of 435 id: cord-265299-oovkoiyj author: Hickman, D.L. title: Commonly Used Animal Models date: 2016-11-25 words: 14970 flesch: 49 summary: Throughout history, outbreaks of bubonic plague, typhus, and hantaviruses have had an unwitting accomplice in the rat (Zinsser, 1935; Benedictow, 2004; Firth et al., 2014) . Over the centuries, rats have also been used for food (e.g., in Imperial China), companionship, and sport (Gorn and Goldstein, 2004; Hopkins et al., 2004; Burt, 2006) . keywords: amphibians; animals; behavior; birds; body; cage; care; couto; development; disease; enrichment; et al; example; female; fig; food; glands; housing; laboratory; male; mice; model; mouse; rabbits; rats; reptiles; research; rodents; sohn; species; studies; system; water; zebrafish cache: cord-265299-oovkoiyj.txt plain text: cord-265299-oovkoiyj.txt item: #229 of 435 id: cord-266090-f40v4039 author: Gao, Wei title: New investigation of bats-hosts-reservoir-people coronavirus model and application to 2019-nCoV system date: 2020-08-03 words: 2763 flesch: 40 summary: The New York Times China virus death toll rises to 41, more than 1,300 infected worldwide New approach for the model describing the deathly disease in pregnant women using Mittag-Leffler function Mathematical analysis and computational experiments for an epidemic system with nonlocal and nonsingular derivative Modeling the mechanics of viral kinetics under immune control during primary infection of HIV-1 with treatment in fractional order New numerical simulations for some real world problems with Atangana-Baleanu fractional derivative A mathematical model for simulating the phase-based transmissibility of a novel coronavirus Reproduction numbers and sub-threshold endemic equilibria for compartmental models of disease transmission Early transmission dynamics in Wuhan, China, of novel coronavirus-infected pneumonia Mathematical analysis of dengue fever outbreak by novel fractional operators with field data Application of fractional calculus to epidemiology Modelling the spread of COVID-19 with new fractal-fractional operators: can the lockdown save mankind before vaccination? HIV and shifting epicenters for COVID-19, an alert for some countries A generalization of truncated M-fractional derivative and applications to fractional differential equations Complex surfaces to the fractional (2 + 1)-dimensional Boussinesq dynamical model with local M-derivative A review on harmonic wavelets and their fractional extension Local fractional homotopy perturbation method for solving non-homogeneous heat conduction equations in fractal domains Solitons and other solutions of (3 + 1)-dimensional space-time fractional modified KdV-Zakharov-Kuznetsov equation On the fractal geometry of DNA by the binary image analysis Application of local fractional series expansion method to solve Klein-Gordon equations on Cantor sets Fractional dynamics Complex solitons in the conformable (2 + 1)-dimensional Ablowitz-Kaup-Newell-Segur equation Approximate solutions of the time fractional Kadomtsev-Petviashvili equation with conformable derivative. China coronavirus: three cities join Wuhan in quarantine lockdown as Beijing tries to contain deadly outbreak 2020 Strategies for mitigating an influenza pandemic Effectiveness of control measures during the SARS epidemic in Beijing: a comparison of the Rt curve and the epidemic curve School closure to reduce influenza transmission Potent binding of 2019 novel coronavirus spike protein by a SARS coronavirus-specific human monoclonal antibody The 2019-new coronavirus epidemic: evidence for virus evolution Preliminary identification of potential vaccine targets for the COVID-19 coronavirus (SARS-CoV-2) based on SARS-CoV immunological studies Modeling the dynamics of novel coronavirus (2019-nCov) with fractional derivative Is the world ready for the coronavirus? keywords: coronavirus; fractional; model; ncov; people cache: cord-266090-f40v4039.txt plain text: cord-266090-f40v4039.txt item: #230 of 435 id: cord-266189-b3b36d72 author: Dignum, Frank title: Analysing the Combined Health, Social and Economic Impacts of the Corovanvirus Pandemic Using Agent-Based Social Simulation date: 2020-06-15 words: 7609 flesch: 60 summary: In this section, we describe the epidemics, economics and social science models that are needed to support decision makers on policies concerning the COVID-19 crisis and the complexity of combining these models. Also, once the pandemic has been dealt with, restarting the economy is a big challenge as many people have lost their jobs and economic activity has slowed to a minimum. keywords: agents; behavior; consequences; crisis; home; models; need; people; schools; spread; virus cache: cord-266189-b3b36d72.txt plain text: cord-266189-b3b36d72.txt item: #231 of 435 id: cord-266424-wchxkdtj author: Lofstedt, Jeanne title: Model to Predict Septicemia in Diarrheic Calves date: 2008-06-28 words: 4639 flesch: 40 summary: Because individual calves often satisfied multiple criteria for a diagnosis of septicemia, the totals for all the above criteria are greater than the total number of septicemic calves. The mean hospital stay for nonsepticemic calves that lived was 4.1 days compared with 5.0 days for septicemic calves that survived. keywords: blood; calf; calves; laboratory; models; septicemia; study; variables cache: cord-266424-wchxkdtj.txt plain text: cord-266424-wchxkdtj.txt item: #232 of 435 id: cord-266593-hmx2wy1p author: Cope, Robert C. title: Identification of the relative timing of infectiousness and symptom onset for outbreak control date: 2020-02-07 words: 5338 flesch: 40 summary: We note that selection between different transmission models (rather than observation models) for disease outbreaks has been considered in other studies, for example, assessing models of transmissibility over time for Norovirus from household data ( Zelner et al., 2013 ) . (d) Two-class accuracy of random forest model discrimination: this measures the accuracy of discrimination between models with symptoms before or coincident with infectiousness, versus models with symptoms beginning after infectiousness. keywords: accuracy; data; design; household; infectiousness; model; size cache: cord-266593-hmx2wy1p.txt plain text: cord-266593-hmx2wy1p.txt item: #233 of 435 id: cord-266626-9vn6yt8m author: Lei, Howard title: Agile Clinical Research: A Data Science Approach to Scrumban in Clinical Medicine date: 2020-10-22 words: 3454 flesch: 46 summary: Data scientists can spend significant time working in isolation to build predictive models that may not be useful in clinical environments. There is a need for agility in clinical research, and the use of data science to develop predictive models for patient treatment is a potential solution. keywords: data; development; framework; model; physicians; science; scientists cache: cord-266626-9vn6yt8m.txt plain text: cord-266626-9vn6yt8m.txt item: #234 of 435 id: cord-267150-hf0jtfmx author: Gupta, Rajan title: SEIR and Regression Model based COVID-19 outbreak predictions in India date: 2020-04-03 words: 3427 flesch: 57 summary: They have reviewed research papers based on deterministic mass action models, regression models, prediction rules, Bayesian network, SEIR model, ARIMA forecasting model etc. https://doi.org/10.1101/2020.04.01.20049825 doi: medRxiv preprint In this study, two machine learning models SEIR and Regression were used to analyse and predict the change in spread of COVID-19 disease. keywords: cases; covid-19; data; disease; model; preprint; regression cache: cord-267150-hf0jtfmx.txt plain text: cord-267150-hf0jtfmx.txt item: #235 of 435 id: cord-267180-56wqok4c author: Aliee, M. title: Predicting the impact of COVID-19 interruptions on transmission of gambiense human African trypanosomiasis in two health zones of the Democratic Republic of Congo date: 2020-10-27 words: 3781 flesch: 42 summary: The use of stochastic events in both presented model formulations enable the direct computation of EOT prediction within health zones, by calculating the probability from multiple realisations of the infection process. Furthermore, local EOT for health zones will somewhat depend on EOT in neighboroughing regions, especially if there is substantial movement of people between locations. keywords: eot; ghat; health; interruptions; license; models; preprint cache: cord-267180-56wqok4c.txt plain text: cord-267180-56wqok4c.txt item: #236 of 435 id: cord-267890-j64x6f5r author: Armstrong, E. title: Identifying the measurements required to estimate rates of COVID-19 transmission, infection, and detection, using variational data assimilation date: 2020-05-29 words: 7725 flesch: 48 summary: Rather, we intend to exemplify the power of SDA to determine what properties of measurements will yield estimates of unknown model parameters to a desired precision - all set within the complex context of the COVID-19 pandemic. [17] , SDA offers a systematic means to identify the measurements required to estimate unknown model parameters to a desired precision. keywords: cases; data; detection; license; measurements; model; parameters; population; preprint; state; time cache: cord-267890-j64x6f5r.txt plain text: cord-267890-j64x6f5r.txt item: #237 of 435 id: cord-268142-lmkfxme5 author: Schafrum Macedo, Aline title: Animal modeling in bone research—Should we follow the White Rabbit? date: 2019-09-26 words: 3709 flesch: 44 summary: Animal models have taught us much about bone disorders and have been central to developing many treatments throughout history. Animal models play a significant role in enhancing our understanding of emerging pathologies. keywords: animal; bone; laboratory; models; osteoporosis; potential; rabbit; research; studies; study; use; welfare cache: cord-268142-lmkfxme5.txt plain text: cord-268142-lmkfxme5.txt item: #238 of 435 id: cord-268298-25brblfq author: Mao, Liang title: Modeling triple-diffusions of infectious diseases, information, and preventive behaviors through a metropolitan social network—An agent-based simulation date: 2014-03-04 words: 4989 flesch: 38 summary: The simulated epidemic curve is compared to the weekly reported data to show the validity of modeling disease diffusion. First, the event of symptom manifestation will motivate individuals to discuss disease information, and prompt their social contacts to adopt preventive behavior by posing infection risks. keywords: behavior; data; diffusion; disease; epidemic; individuals; influenza; information; model; network; time cache: cord-268298-25brblfq.txt plain text: cord-268298-25brblfq.txt item: #239 of 435 id: cord-268779-qbn3i2nq author: Alrasheed, Hend title: COVID-19 Spread in Saudi Arabia: Modeling, Simulation and Analysis date: 2020-10-23 words: 10880 flesch: 48 summary: However, unlike other contact network generation models, we did not assume any network properties in advance [64, [70] Data Brief 2020, 105340 Modified SEIR and AI prediction of the epidemics trend of COVID-19 in China under public health interventions A conceptual model for the coronavirus disease 2019 (COVID-19) outbreak in Wuhan, China with individual reaction and governmental action Estimation of the transmission risk of the 2019-nCoV and its implication for public health interventions Analysis and forecast of COVID-19 spreading in China, Italy and France Transmission dynamics of the COVID19 outbreak and effectiveness of government interventions: A data-driven analysis Interrupting COVID-19 transmission by implementing enhanced traffic control bundling: Implications for global prevention and control efforts Feasibility of controlling COVID-19 outbreaks by isolation of cases and contacts Modeling the epidemic dynamics and control of COVID-19 outbreak in China Effect of delay in diagnosis on transmission of COVID-19 Outbreak dynamics of COVID-19 in China and the United States Using the contact network model and Metropolis-Hastings sampling to reconstruct the COVID-19 spread on the Diamond Princess Impact of non-pharmaceutical interventions (NPIs) to reduce COVID19 mortality and healthcare demand A contribution to the mathematical theory of epidemics Infectious Diseases of Humans: Dynamics and Control Complex Social Networks are Missing in the Dominant COVID-19 Epidemic Models Networks and epidemic models Networks and the epidemiology of infectious disease Epidemic spread in networks: Existing methods and current challenges Predicting the Epidemiological Outbreak of the Coronavirus Disease 2019 (COVID-19) in Saudi Arabia Epidemiological Modeling of COVID-19 in Saudi Arabia: Spread Projection, Awareness, and Impact of Treatment Dynamics of SARS-CoV-2 outbreak in the Kingdom of Saudi Arabia: A predictive model COVID-19 Outcomes in Saudi Arabia and the UK: A Tale of Two Kingdoms keywords: contact; control; covid-19; epidemic; measures; model; network; population; saudi; saudi arabia; social cache: cord-268779-qbn3i2nq.txt plain text: cord-268779-qbn3i2nq.txt item: #240 of 435 id: cord-268959-wh28s0ws author: Gao, Da-peng title: Optimal control analysis of a tuberculosis model()() date: 2017-12-29 words: 4629 flesch: 52 summary: The intrinsic transmission dynamics of tuberculosis epidemic Dynamical models of tuberculosis and their applications Optimal control applied to vaccination and treatment strategies for various epidemiological models The combined effects of optimal control in cancer remission Vaccination and treatment as control interventions in an infectious disease model with their cost optimization Optimal control of an influenza model with seasonal forcing and age-dependent transmission rates Keeping options open:an optimal control model with trajectories that reach a DNSS point in positive time An optimal strategy for HIV multitherapy Control strategies for tuberculosis epidemics: new models for old problems Mathematical models for the disease dynamics of tuberculosis Modeling epidemics of multidrug-resistant m. tuberculosis of heterogeneous fitness Prospects for worldwide tuberculosis control under the who dots strategy. This indicates that the basic reproduction number, R 0 , plays a crucial role in characterizing dynamics of the disease and could be used to suggest or design TB control strategies. keywords: control; cost; individuals; model; system cache: cord-268959-wh28s0ws.txt plain text: cord-268959-wh28s0ws.txt item: #241 of 435 id: cord-269212-oeu48ili author: Rodrigues, Alírio E. title: Chemical engineering and environmental challenges. Cyclic adsorption/reaction technologies: Materials and process together! date: 2020-04-07 words: 3081 flesch: 46 summary: I stress the basic concepts of adsorption processes and the need to use proper diffusion models for intraparticle mass transfer instead of pseudo first order or second order kinetic models. I also tell my students that factors governing adsorption processes can be divided in first order factors (adsorption equilibrium isotherms) and second order factors (all leading to dispersive effects: kinetics of mass transfer, axial dispersion, etc.). keywords: adsorbent; adsorption; bed; capture; chemical; engineering; equilibrium; process; processes cache: cord-269212-oeu48ili.txt plain text: cord-269212-oeu48ili.txt item: #242 of 435 id: cord-269559-gvvnvcfo author: Kergaßner, Andreas title: Memory-based meso-scale modeling of Covid-19: County-resolved timelines in Germany date: 2020-08-03 words: 4497 flesch: 48 summary: The zoom-in clearly shows that county infections are dominated by their largest cities, following the three purple areas that represent Nürnberg, Fürth and Erlangen from bottom to top, underpinning our formulation of the cross-county infection terms (cf. We further assume that patients in courses (b) to (d) will be tested positive and are thereby considered in reported infection numbers. keywords: county; covid-19; data; disease; germany; infections; model; number; state cache: cord-269559-gvvnvcfo.txt plain text: cord-269559-gvvnvcfo.txt item: #243 of 435 id: cord-269873-4hxwo5kt author: R., Mohammadi title: Transfer Learning-Based Automatic Detection of Coronavirus Disease 2019 (COVID-19) from Chest X-ray Images date: 2020-10-01 words: 3388 flesch: 49 summary: An introduction to receiver operating characteristics curves Covidxnet: A framework of deep learning classifiers to diagnose covid-19 in x-ray images COVID-Net: A Tailored Deep Convolutional Neural Network Design for Detection of COVID-19 Cases from Chest X-Ray Images Covid-19: automatic detection from X-ray images utilizing transfer learning with convolutional neural networks A deep learning algorithm using CT images to screen for Corona Virus Disease (COVID-19) Deep Learning-based Detection for COVID-19 from Chest CT using Weak Label None The radiologists consider chest X-ray images over CT-scan as primary radiography examination to detect the infection caused by COVID-19 keywords: chest; covid-19; images; learning; models; ray cache: cord-269873-4hxwo5kt.txt plain text: cord-269873-4hxwo5kt.txt item: #244 of 435 id: cord-270249-miys1fve author: Liu, Xianbo title: COVID-19: data-driven dynamics, statistical and distributed delay models, and observations date: 2020-08-06 words: 8127 flesch: 51 summary: The nonlinear distributed delay systems given by Eqs. (3), (4) provide a feasible mathematical framework to describe the evolution of COVID-19 infection dynamics as well as for modeling the control performances associated with quarantine and other measures. (ii) The improved SEIQR model with time-varying infection rate and distributed delays is found to be better suited for understanding COVID-19 infection dynamics with and without control measures. keywords: cases; covid-19; data; dynamics; fig; function; infection; measures; model; system; time cache: cord-270249-miys1fve.txt plain text: cord-270249-miys1fve.txt item: #245 of 435 id: cord-273429-dl6z8x9h author: Dandekar, R. title: A machine learning aided global diagnostic and comparative tool to assess effect of quarantine control in Covid-19 spread date: 2020-07-24 words: 5176 flesch: 46 summary: This matches the on-ground situation as indicated by a generally strong correlation is seen between the red circles in our study (states with lower quarantine efficiency) and the yellow regions seen in in the Wall Street Journal report 41 (states with reduced imposition of restrictions) and between the blue circles in our study (states with higher quarantine efficiency) and the blue regions seen in the Wall Street Journal report 41 (states with generally higher level of restrictions). [27] [28] Thus, a neural network solution is attractive to approximate quarantine effects in combination with analytical epidemiological models. keywords: countries; covid-19; data; figure; model; population; quarantine; rate; spread; states cache: cord-273429-dl6z8x9h.txt plain text: cord-273429-dl6z8x9h.txt item: #246 of 435 id: cord-273815-7ftztaqn author: Gupta, R. K. title: Systematic evaluation and external validation of 22 prognostic models among hospitalised adults with COVID-19: An observational cohort study date: 2020-07-26 words: 4920 flesch: 35 summary: Importantly, prognostic models may have additional value in patient stratification for emerging drug therapies 6, 7 . These include models aiming to predict a diagnosis of COVID-19, and prognostic models, aiming to predict disease outcomes. keywords: covid-19; holder; july; license; medrxiv; models; perpetuity; preprint; version cache: cord-273815-7ftztaqn.txt plain text: cord-273815-7ftztaqn.txt item: #247 of 435 id: cord-274209-n0aast22 author: Yaro, David title: Analysis and Optimal Control of Fractional-Order Transmission of a Respiratory Epidemic Model date: 2019-07-15 words: 4678 flesch: 48 summary: However, modeling the transmission of a respiratory epidemic by fractional order model might provide a feasible alternative in controlling or probably eradicating the disease. For the equilibrium states of the system of fractional order model (5), let Then the equilibrium states are The diseases free equilibrium state K 0 , is where the infectives equal to zero (I = 0) and the endemic equilibrium state K 1 , is where the infectives is nonzero (I = 0). keywords: control; disease; fractional; model; order; system cache: cord-274209-n0aast22.txt plain text: cord-274209-n0aast22.txt item: #248 of 435 id: cord-274513-0biyfhab author: Baumgartner, M. T. title: Assessing the relative contributions of healthcare protocols for epidemic control: an example with network transmission model for COVID-19 date: 2020-07-22 words: 5079 flesch: 37 summary: Radiology The effect of control strategies to reduce social mixing on outcomes of the COVID-19 epidemic in Wuhan, China: a modelling study R: A language and environment for statistical computing Critical Supply Shortages -The Need for Ventilators and Personal Protective Equipment during the Covid-19 Pandemic The epidemiology and pathogenesis of coronavirus disease (COVID-19) outbreak GEMFsim: A stochastic simulator for the generalized epidemic modeling framework Individual-based network model for Rift Valley fever in Kabale District Social distancing during the COVID-19 pandemic: Staying home save lives COVID-19 infection: the perspectives on immune responses Projecting demand for critical care beds during COVID-19 outbreaks in Canada Estimates of the severity of coronavirus disease 2019: a model-based analysis Urban mobility and neighborhood isolation in America's 50 largest cities Rational use of personal protective equipment for coronavirus disease ( COVID-19) and considerations during severe shortages Can we contain the COVID-19 outbreak with the same measures as for SARS? The increasing number of COVID-19 cases threatens human life and requires retainment actions that control the spread of the virus in the absence of effective medical therapy or a reliable vaccine. keywords: covid-19; distancing; et al; individual; infection; model; number; people; rate cache: cord-274513-0biyfhab.txt plain text: cord-274513-0biyfhab.txt item: #249 of 435 id: cord-274732-mh0xixzh author: Faizal, W.M. title: Computational fluid dynamics modelling of human upper airway: a review date: 2020-06-26 words: 8822 flesch: 39 summary: The effect of inlet velocity profile on the bifurcation COPD airway flow Topological analysis of particle transport in lung airways: Predicting particle source and destination CFD modeling and image analysis of exhaled aerosols due to a growing bronchial tumor: Towards non-invasive diagnosis and treatment of respiratory obstructive diseases Structural and functional alterations of the tracheobronchial tree after left upper pulmonary lobectomy for lung cancer Characterization of air flow and lung function in the pulmonary acinus by fluid-structure interaction in idiopathic interstitial pneumonias Airway evaluation in obstructive sleep apnea Upper airway imaging in pediatric obstructive sleep apnea syndrome Correlation between severity of sleep apnea and upper airway morphology based on advanced anatomical and functional imaging Experimental methods for flow and aerosol measurements in human airways and their replicas Computed Tomography Characterization and Comparison With Polysomnography for Obstructive Sleep Apnea Evaluation Sleep-Related Breathing Disorders and Quality of Life Effect of airway surface liquid on the forces on the pharyngeal wall: Experimental fluid-structure interaction study Numerical investigation of airflow, heat transfer and particle deposition for oral breathing in a realistic human upper airway model Use of computational fluid dynamics to compare upper airway pressures and airflow resistance in brachycephalic, mesocephalic, and dolichocephalic dogs Computational analysis of airflow dynamics for predicting collapsible sites in the upper airways: Machine learning approach Computational fluid dynamics simulation of full breathing cycle for aerosol deposition in trachea: Effect of breathing frequency An efficient computational fluid-particle dynamics method to predict deposition in a simplified approximation of the deep lung Modeling congenital nasal pyriform aperture stenosis using computational fluid dynamics Coupling CFD-DEM with dynamic meshing: A new approach for fluid-structure interaction in particle-fluid flows Modelling nasal high flow therapy effects on upper airway resistance and resistive work of breathing Computational fluid-structure interaction simulation of airflow in the human upper airway Simulation of pharyngeal airway interaction with air flow using low-re turbulence model Numerical simulation of stent deployment within patient-specific artery and its validation against clinical data Clinical Data Are Essential to Validate Lung Ultrasound Modelling the human pharyngeal airway: Validation of numerical simulations using in vitro experiments Steady inspiratory flow in a model symmetric bifurcation Large Eddy simulation and Reynolds-Averaged Navier-Stokes modeling of flow in a realistic pharyngeal airway model: An investigation of obstructive sleep apnea Validation of computational fluid dynamics methodology used for human upper airway flow simulations Validation of airway resistance models for predicting pressure loss through anatomically realistic conducting airway replicas of adults and children Large Eddy Simulation of the pharyngeal airflow associated with Obstructive Sleep Apnea Syndrome at pre and postsurgical treatment A review of CFD methodology used in literature for predicting thermo-hydraulic performance of a roughened solar air heater Assessment of upper airway mechanics during sleep Experimental and numerical investigation on inspiration and expiration flows in a three-generation human lung airway model at two flow rates Numerical investigation on the flow characteristics and aerodynamic force of the upper airway of patient with obstructive sleep apnea using computational fluid dynamics Interaction between a simplified soft palate and compressible viscous flow A CFD (computational fluid dynamics) based heat transfer and fluid flow analysis of a solar air heater provided with circular transverse wire rib roughness on the absorber plate Development of a realistic human airway model Novel imaging techniques using computer methods for the evaluation of the upper airway in patients with sleepdisordered breathing: Therefore, the knowledge and understanding of the flow properties of upper airway are practically important for medical practitioners and surgeons to accurately locate the obstruction in OSA patients [14] , [15] . keywords: airflow; airway; airway model; analysis; apnea; breathing; cfd; dynamics; flow; fluid; human; model; pressure; simulation; sleep; sleep apnea; surgery cache: cord-274732-mh0xixzh.txt plain text: cord-274732-mh0xixzh.txt item: #250 of 435 id: cord-275258-azpg5yrh author: Mead, Dylan J.T. title: Visualization of protein sequence space with force-directed graphs, and their application to the choice of target-template pairs for homology modelling date: 2019-07-26 words: 6335 flesch: 48 summary: As the taxonomical distance increases, production of high quality homology models becomes more difficult. Human-infective virus Importance to human health NCBI RefSeq annotated genome Easy retrieval of high quality RdRP sequence RdRP located at the 3 0 end of polyprotein or on its own segment Eliminates unconventional RdRPs keywords: genus; homology; modelling; models; quality; rdrp; sequence; structure; table; target; template cache: cord-275258-azpg5yrh.txt plain text: cord-275258-azpg5yrh.txt item: #251 of 435 id: cord-275395-w2u7fq1g author: Romero-Severson, Ethan Obie title: Change in global transmission rates of COVID-19 through May 6 2020 date: 2020-08-06 words: 4024 flesch: 52 summary: Most countries showed large decreases in transmission rates over time, and more than half of studied countries have transmission rates below the epidemic threshold. The model is then simulated forward for 21 days, assuming exponential growth with transmission rate χ 0 , which is taken at the initial state of the model at time zero. keywords: countries; data; deaths; model; rate; time; transmission cache: cord-275395-w2u7fq1g.txt plain text: cord-275395-w2u7fq1g.txt item: #252 of 435 id: cord-276218-dcg9oq6y author: Kim, Jihoon title: Human organoids: model systems for human biology and medicine date: 2020-07-07 words: 10691 flesch: 28 summary: We emphasize the differences between the mouse and human systems, evaluating the advantages and disadvantages of animal models and human organoid models. Human organoid systems fundamentally mimic a part of the human body, not the entire body. keywords: animal; brain; cancer; cell; culture; development; differentiation; disease; drug; human; model; mouse; organoids; patient; research; sars; stem; stem cells; studies; systems; technology; vitro cache: cord-276218-dcg9oq6y.txt plain text: cord-276218-dcg9oq6y.txt item: #253 of 435 id: cord-276782-3fpmatkb author: Garbey, M. title: A Model of Workflow in the Hospital During a Pandemic to Assist Management date: 2020-05-02 words: 5720 flesch: 56 summary: The hospital system needs to recruit resources quickly 349 enough to deliver quality patient care while keeping the staff safe from infection. On the hospital workflow side, while there is a large amount of work on this 27 topic [23] , one of the difficulties is to asses the death rate of patients hospitalized at the 28 beginning of the pandemic because the Length of stay (LOS) is rather long and the 29 disease is still not well understood [2, 16, 26] . keywords: care; hospital; license; model; number; patients; preprint; unit cache: cord-276782-3fpmatkb.txt plain text: cord-276782-3fpmatkb.txt item: #254 of 435 id: cord-277128-g90hp8j7 author: Rajendran, Sukumar title: Accessing Covid19 Epidemic Outbreak in Tamilnadu and the Impact of Lockdown through Epidemiological Models and Dynamic systems date: 2020-09-17 words: 2785 flesch: 43 summary: To determine the impact of lockdown and social distancing in Tamilnadu through epidemiological models in forecasting the “effective reproductive number” (R(0)) determining the significance in transmission rate in Tamilnadu after first Covid19 case confirmation on March 07, 2020. ≈ ( ) ∑ ∈ ( ) ( ) = ( ) SI model SIS model SIR model SEIR model The figure below shows Indian state/UT wise details of Active cases of covid19 Pandemic in India till June 04. keywords: covid19; model; population; rate; spread; tamilnadu; transmission cache: cord-277128-g90hp8j7.txt plain text: cord-277128-g90hp8j7.txt item: #255 of 435 id: cord-277237-tjsw205c author: Hernandez Vargas, Esteban Abelardo title: In-host Modelling of COVID-19 Kinetics in Humans date: 2020-03-30 words: 3610 flesch: 53 summary: A quantitative comprehension of COVID-19 dynamics and the estimation of standard parameters of viral infections is the key contribution of this pioneering work. For parameter fitting purposes, we explore three different scenarios of initial infection day 96 (t i ), that is, -14, -7, -3 days before the onset of symptoms for patients A and B, see Fig. 3 . . keywords: covid-19; host; infection; license; medrxiv; model; preprint; virus cache: cord-277237-tjsw205c.txt plain text: cord-277237-tjsw205c.txt item: #256 of 435 id: cord-278693-r55g26qw author: Wang, Lianwen title: New global dynamical results and application of several SVEIS epidemic models with temporary immunity date: 2021-02-01 words: 4960 flesch: 55 summary: The nonlinear epidemic dynamical models incorporating both temporary immunity and latency such as SEIRS, SVEIS models in [16] [3, 30] where susceptible class are vaccinated with certain vaccine at constant rate α, different from model (1.1) with a fraction of vaccinated newborns (denoted by p ). keywords: immunity; incidence; influenza; model; pandemic; stability; vaccination cache: cord-278693-r55g26qw.txt plain text: cord-278693-r55g26qw.txt item: #257 of 435 id: cord-280064-rz8cglyt author: Gwizdałła, Tomasz title: Viral disease spreading in grouped population date: 2020-08-27 words: 6858 flesch: 52 summary: Indeed, there are different models in which some external force, either a periodic, e.g., seasonality [2] , or purely stochastic [3] , here for the SIS model, force, assuming the susceptibility of an individual recovering from a disease, is used. A contribution to the mathematical theory of epidemics Seasonality and period-doubling bifurcations in an epidemic model Hamiltonian dynamics of the sis epidemic model with stochastic fluctuations A cellular automaton model for the effects of population movement and vaccination on epidemic propagation Strategies for containing an emerging influenza pandemic in southeast asia Strategies for mitigating an influenza pandemic Cooley, Modeling targeted layered containment of an influenza pandemic in the united states Impact of non-pharmaceutical interventions (npis) to reduce covid19 mortality and healthcare demand Modeling epidemics using cellular automata Epidemiological modeling with a population density map-based cellular automata simulation system Size effect in cellular automata based disease spreading model Emergence of scaling in random networks Statistical mechanics of complex networks On random graphs i The largescale organization of metabolic networks The metabolic world of escherichia coli is not small Network structure and the biology of populations Complex networks: Structure and dynamics On analytical approaches to epidemics on networks Simulation of the spread of infectious diseases in a geographical environment Disease spreading on populations structured by groups Seasonal transmission potential and activity peaks of the new influenza A(H1N1): a Monte Carlo likelihood analysis based on human mobility for the Mathematical Modelling of Infectious Diseases COVID-19 Working Group, Feasibility of controlling covid-19 outbreaks by isolation of cases and contacts Estimate the incubation period of coronavirus 2019 (covid-19) Incubation period and other epidemiological characteristics of 2019 novel coronavirus infections with right truncation: A statistical analysis of publicly available case data The incubation period of 2019-ncov from publicly reported confirmed cases: estimation and application Risk assessment of novel coronavirus covid-19 outbreaks outside china Modelling the epidemic trend of the 2019 novel coronavirus outbreak in china map of districts in lodz Relationship between the abo blood group and the covid-19 susceptibility Disease spreading in complex networks: A numerical study with Principal Component Analysis Realistic distributions of infectious periods in epidemic models: Changing patterns of persistence and dynamics Estimate the incubation period of coronavirus 2019 (covid-19), medRxiv Transmission dynamics and control of severe acute respiratory syndrome Managing epidemics: key facts about major deadly diseases, World Health Organization keywords: disease; effect; epidemic; groups; individuals; intervention; model; number; results cache: cord-280064-rz8cglyt.txt plain text: cord-280064-rz8cglyt.txt item: #258 of 435 id: cord-280640-0h3yv2m4 author: Phillips, Christopher J. title: Screening For Colorectal Cancer in the Age of Simulation Models:A Historical Lens date: 2020-07-16 words: 2247 flesch: 37 summary: 9 As recently as 1996, however, simulation models were not used at all in screening recommendations. The rapid rise in their importance over the following two decades, and their central role in shaping current screening recommendations, should occasion reflection about how and why simulation models have become an influential tool for medical decision making. keywords: cancer; evidence; models; screening; simulation; years cache: cord-280640-0h3yv2m4.txt plain text: cord-280640-0h3yv2m4.txt item: #259 of 435 id: cord-280683-5572l6bo author: Liu, Laura title: Panel forecasts of country-level Covid-19 infections() date: 2020-10-16 words: 7198 flesch: 56 summary: Our model could be generalized by adding additional knots in the deterministic trend component of infection growth rates, but the extension is not pursued in this paper. We specify a panel data model for infection growth rates y keywords: data; density; distribution; forecasts; growth; infections; locations; model; panel; time cache: cord-280683-5572l6bo.txt plain text: cord-280683-5572l6bo.txt item: #260 of 435 id: cord-280722-glcifqyp author: Rios, V. title: Is there a link between temperatures and COVID-19 contagions? Evidence from Italy date: 2020-05-19 words: 17652 flesch: 45 summary: The marginal likelihood of a model k is calculated as: where p y, X|η k , σ 2 , M k is the likelihood of model k and p η k , σ 2 |g is the prior distribution of the parameters in model M k conditional to g, the Zellgner's g-prior. In addition, the BMA framework can be extended to generate probabilistic on the relevance of the various regressors, using the Posterior Inclusion Probability (PIP) for a variable h: and the Conditional Posterior Positivity of h: where values of conditional positivity close to 1 indicate that the parameter is positive in the vast majority of considered models and values close to 0 indicate the effect on the dependent variable is negative. keywords: analysis; author; cases; contagions; covid-19; data; display; et al; factors; funder; importance; license; medrxiv; model; perpetuity; preprint; regional; results; temperatures; variables cache: cord-280722-glcifqyp.txt plain text: cord-280722-glcifqyp.txt item: #261 of 435 id: cord-281122-dtgmn9e0 author: Ribeiro, Matheus Henrique Dal Molin title: Multi-step ahead meningitis case forecasting based on decomposition and multi-objective optimization methods date: 2020-09-22 words: 4958 flesch: 51 summary: Machine learning models, an AI sub-field, becomes the kernel of data 25 analysis, once dealing with classification [12] , data clustering [13] , and regression tasks [14] . 26 Nonetheless, when it comes to matters of diseases that plague the Brazilian public health 27 system, such as dengue, malaria, and others, there are limited discussions as regards the 28 effectiveness of machine learning models to develop predictive models. keywords: ahead; approach; data; ensemble; forecasting; learning; machine; meningitis; models cache: cord-281122-dtgmn9e0.txt plain text: cord-281122-dtgmn9e0.txt item: #262 of 435 id: cord-281543-ivhr2no3 author: Richardson, Eugene T title: Pandemicity, COVID-19 and the limits of public health ‘science’ date: 2020-04-17 words: 1882 flesch: 44 summary: The symbolic violence of 'outbreak': A mixed methods, quasi-experimental impact evaluation of social protection on Ebola survivor wellbeing Metrics: what counts in global health COVID-19 gives the lie to global health expertise Mathematical modeling of the West Africa Ebola epidemic Estimating the future number of cases in the Ebola epidemic -Liberia and Sierra Leone CDC's top modeler courts controversy with disease estimate Ebola: a big data disaster Robustness in the strategy of scientific model building Covid-19: experts question analysis suggesting half UK population has been infected Mathematics of life and death: how disease models shape national shutdowns and other pandemic policies. When it comes to forecasting epidemic trends, however, their contributions-from specious metrics 4 like the 2019 Global Health Security Index 5 to kaleidoscopic computational models of communicable disease transmission-have limited predictive power (as experience in global health has repeatedly shown). keywords: covid-19; disease; ebola; global; health; models cache: cord-281543-ivhr2no3.txt plain text: cord-281543-ivhr2no3.txt item: #263 of 435 id: cord-283092-t3yqsac3 author: Shah, Kamal title: Qualitative Analysis of a Mathematical Model in the Time of COVID-19 date: 2020-05-25 words: 3348 flesch: 51 summary: From Figure 3 , when we involve immigration of infected class and cease the immigration for the healthy class, we see that the population density of infected class is going up with different rates due to fractional order derivative during in first 250 days. In this article, we have examined a population model of the novel COVID-19 under ABC fractional order derivatives. keywords: derivative; fractional; model; order; results; solution cache: cord-283092-t3yqsac3.txt plain text: cord-283092-t3yqsac3.txt item: #264 of 435 id: cord-283678-xdma6vyo author: Séférian, Roland title: Tracking Improvement in Simulated Marine Biogeochemistry Between CMIP5 and CMIP6 date: 2020-08-18 words: 10729 flesch: 37 summary: In this context, ocean biogeochemical models are acknowledged as powerful tools to study the ocean carbon cycle and its response to past and future climate and chemical changes [2] . [20] , ocean biogeochemical models have been successfully integrated in many Earth system models (e.g. [21] keywords: biogeochemical; biogeochemical models; biogeochemistry; carbon; climate; cmip6; cycle; data; earth; earth system; et al; generation; global; iron; marine; models; ocean; representation; system; table cache: cord-283678-xdma6vyo.txt plain text: cord-283678-xdma6vyo.txt item: #265 of 435 id: cord-283907-ev1ghlwl author: Cao, Lingyan title: Electrical load prediction of healthcare buildings through single and ensemble learning date: 2020-11-30 words: 8759 flesch: 38 summary: Similar to the research conducted in general buildings, electrical load prediction models for healthcare buildings can also be classified into physical and data-driven models. In the ensemble machine learning category, XG-Boost and Random Forest, are popular energy prediction models which builds a decision tree in a sequential and parallel way, respectively. keywords: buildings; consumption; data; energy; ensemble; et al; healthcare; hospital; learning; load; machine; models; performance; prediction cache: cord-283907-ev1ghlwl.txt plain text: cord-283907-ev1ghlwl.txt item: #266 of 435 id: cord-284617-uwby8r3y author: Area, Iván title: Determination in Galicia of the required beds at Intensive Care Units date: 2020-10-06 words: 2598 flesch: 50 summary: The novel coronavirus (SARS-CoV-2) infections in China: prevention, control and challenges Projecting hospital utilization during the COVID-19 outbreaks in the United States Surge capacity of intensive care units in case of acute A mathematical model for simulating the phase-based transmissibility of a novel coronavirus Effective containment explains subexponential growth in recent confirmed COVID-19 cases in China On a fractional order Ebola epidemic model Mathematical modeling of Zika disease in pregnant women and newborns with microcephaly in Brazil Ebola model and optimal control with vaccination constraints Mathematical modeling of COVID-19 transmission dynamics with a case study of wuhan Reproduction numbers and sub-threshold endemic equilibria for compartmental models of disease transmission The Theory of Matrices One world, one health: the novel coronavirus COVID-19 epidemic The Role of Super-Spreaders in Infectious Disease Cell Host & Microbe Modelling the spread of COVID-19 with new fractal-fractional operators: can the lockdown save mankind before vaccination? Abdon Atangana, Modeling the dynamics of novel coronavirus (2019-nCov) with fractional derivative Modelling the COVID-19 epidemic and implementation of population-wide interventions in Italy Mathematical model of COVID-19 spread in Turkey and South Africa: One option is to consider compartmental models, dividing the population into different classes and determining the rate of change among the different classes. keywords: beds; care; data; model; number cache: cord-284617-uwby8r3y.txt plain text: cord-284617-uwby8r3y.txt item: #267 of 435 id: cord-285435-fu90vb2z author: Björklund, Tua A. title: Expanding entrepreneurial solution spaces in times of crisis: Business model experimentation amongst packaged food and beverage ventures date: 2020-11-30 words: 6819 flesch: 27 summary: Both the social media analysis and founder interviews showcased an abundance of new business model experiments in response to the Covid-19 pandemic amongst Finnish packaged food and beverage ventures. key: cord-285435-fu90vb2z authors: Björklund, Tua A.; Mikkonen, Maria; Mattila, Pauliina; van der Marel, Floris title: Expanding entrepreneurial solution spaces in times of crisis: Business model experimentation amongst packaged food and beverage ventures date: 2020-11-30 journal: Journal of Business Venturing Insights DOI: 10.1016/j.jbvi.2020.e00197 sha: doc_id: 285435 cord_uid: fu90vb2z Research summary Times of crisis require entrepreneurial responses to mitigate adverse effects and address new opportunities. keywords: action; business; capabilities; creation; crisis; entrepreneurs; et al; experimentation; experiments; model; solution; value; ventures cache: cord-285435-fu90vb2z.txt plain text: cord-285435-fu90vb2z.txt item: #268 of 435 id: cord-285774-hvuzxlna author: Danion, J. title: Bariatric Surgical Simulation: Evaluation in a Pilot Study of SimLife, a New Dynamic Simulated Body Model date: 2020-07-03 words: 3354 flesch: 37 summary: Prevalence of obesity among adults and youth: United States Clinical indications, utilization, and funding of bariatric surgery in Europe Estimates of bariatric surgery numbers Training in bariatric surgery: a national survey of German bariatric surgeons Simulation in surgery: a review Systematic review of the current status of cadaveric simulation for surgical training The changing face of surgical education: simulation as the new paradigm Patient safety and simulation-based medical education SimLife a new model of simulation using a pulsated revascularized and reventilated cadaver for surgical education Life: a new surgical simulation device using a human perfused cadaver SimLife: face validation of a new dynamic simulated body model for surgical simulation The learning curve of one anastomosis gastric bypass and its impact as a preceding procedure to Roux-en Y gastric bypass: initial experience of one hundred and five consecutive cases Experiential learning: experience as the source of learning and development High case volumes and surgical fellowships are associated with improved outcomes for bariatric surgery patients: a justification of current credentialing initiatives for practice and training Presence of a fellowship improves perioperative outcomes following hepatopancreatobiliary procedures Bariatric outcomes are significantly improved in hospitals with fellowship council-accredited bariatric fellowships Systematic review with meta-analysis of the impact of surgical fellowship training on patient outcomes See one, do one, teach one: Inadequacies of current methods to train surgeons in hernia repair See one, do one, teach one: education and training in surgery and the correlation between surgical exposures with patients outcomes Michigan Bariatric Surgery Collaborative. It is necessary to adapt simulation models to anatomical and/or physiological variations that cannot be perfectly programmed in a computerized scenario [42] keywords: body; cadaveric; learning; model; simlife; simulation; surgery; training cache: cord-285774-hvuzxlna.txt plain text: cord-285774-hvuzxlna.txt item: #269 of 435 id: cord-285897-ahysay2l author: Wu, Guangyao title: Development of a Clinical Decision Support System for Severity Risk Prediction and Triage of COVID-19 Patients at Hospital Admission: an International Multicenter Study date: 2020-07-02 words: 3809 flesch: 38 summary: General quarantine and symptomatic treatment at home or mobile hospital can be used for most non-severe patients, while a higher level of care and fast track to the intensive care unit (ICU) is needed for severe patients. There were significant difference for the proportion of severe patients among low, medium, and high-risk groups in the five test datasets (Figure 5 ). keywords: admission; covid-19; features; hospital; illness; laboratory; model; patients; risk cache: cord-285897-ahysay2l.txt plain text: cord-285897-ahysay2l.txt item: #270 of 435 id: cord-287145-w518a0wa author: Habib, Nahida title: Ensemble of CheXNet and VGG-19 Feature Extractor with Random Forest Classifier for Pediatric Pneumonia Detection date: 2020-10-30 words: 3929 flesch: 50 summary: This section justifies each of the steps of the proposed methodology by discussing the experimental results of each method and showing related comparison with other pneumonia detection models. Both of the models are fine-tuned for the detection and classification of pneumonia images. keywords: chest; classification; dataset; diagnosis; images; model; pneumonia; ray cache: cord-287145-w518a0wa.txt plain text: cord-287145-w518a0wa.txt item: #271 of 435 id: cord-288183-pz3t29a7 author: McKibbin, Warwick J. title: Chapter 15 A Global Approach to Energy and the Environment The G-Cubed Model date: 2013-12-31 words: 20685 flesch: 48 summary: There is, therefore, much less carbon leakage in G-Cubed than in other trade models because of the impact of capital flows and adjustment costs in developing countries. Overall, the model is designed to provide a bridge between computable general equilibrium models, international trade models and macroeconomic models by combining key features of each approach. keywords: capital; change; countries; cubed; economies; economy; effects; energy; exchange; financial; global; goods; growth; international; investment; mckibbin; model; nafta; policy; rate; risk; run; trade; value cache: cord-288183-pz3t29a7.txt plain text: cord-288183-pz3t29a7.txt item: #272 of 435 id: cord-288303-88c6qsek author: Paul, S. K. title: On nonlinear incidence rate of Covid-19 date: 2020-10-21 words: 7368 flesch: 50 summary: No specific functional form of transmission rate has been assumed. A single Convolutional LSTM model is created and trained to map multiple spatiotemporal features to transmission rate. keywords: cases; features; infection; influence; model; pixel; population; rate; time; transmission; transmission rate cache: cord-288303-88c6qsek.txt plain text: cord-288303-88c6qsek.txt item: #273 of 435 id: cord-288342-i37v602u author: Wang, Zhen title: Coupled disease–behavior dynamics on complex networks: A review date: 2015-07-08 words: 15811 flesch: 34 summary: Behavior changes in SIS STD models with selective mixing Infection-age structured epidemic models with behavior change or treatment Coupled contagion dynamics of fear and disease: mathematical and computational explorations On the existence of a threshold for preventive behavioral responses to suppress epidemic spreading Towards a characterization of behavior-disease models The impact of information transmission on epidemic outbreaks Modeling and analysis of effects of awareness programs by media on the spread of infectious diseases Coevolution of pathogens and cultural practices: a new look at behavioral heterogeneity in epidemics Spontaneous behavioural changes in response to epidemics Risk perception and effectiveness of uncoordinated behavioral responses in an emerging epidemic A generalization of the Kermack-McKendrick deterministic model The spread of awareness and its impact on epidemic outbreaks Social contact networks and disease eradicability under voluntary vaccination The impact of awareness on epidemic spreading in networks Suppression of epidemic spreading in complex networks by local information based behavioral responses Epidemic spreading with information-driven vaccination Intermittent social distancing strategy for epidemic control Peer pressure is a double-edged sword in vaccination dynamics Imitation dynamics of vaccination behaviour on social networks Insight into the so-called spatial reciprocity Impact of committed individuals on vaccination behavior Wisdom of groups promotes cooperation in evolutionary social dilemmas Braess's paradox in epidemic game: better condition results in less payoff Price of anarchy in transportation networks: efficiency and optimality control Effects of behavioral response and vaccination policy on epidemic spreading-an approach based on evolutionary-game dynamics Modeling the interplay between human behavior and the spread of infectious diseases The impact of imitation on vaccination behavior in social contact networks A computational approach to characterizing the impact of social influence on individuals' vaccination decision making Risk assessment for infectious disease and its impact on voluntary vaccination behavior in social networks Vaccination and public trust: a model for the dissemination of vaccination behavior with external intervention Assessing vaccination sentiments with online social media: implications for infectious disease dynamics and control Erratic flu vaccination emerges from short-sighted behavior in contact networks The dynamics of risk perceptions and precautionary behavior in response to 2009 (H1N1) pandemic influenza Optimal interdependence between networks for the evolution of cooperation Social factors in epidemiology Catastrophic cascade of failures in interdependent networks Globally networked risks and how to respond Eigenvector centrality of nodes in multiplex networks Synchronization of interconnected networks: the role of connector nodes Epidemic spreading on interconnected networks Effects of interconnections on epidemics in network of networks The robustness and restoration of a network of ecological networks Diffusion dynamics on multiplex networks Dynamical interplay between awareness and epidemic spreading in multiplex networks Competing spreading processes on multiplex networks: awareness and epidemics Two-stage effects of awareness cascade on epidemic spreading in multiplex networks Effects of awareness diffusion and self-initiated awareness behavior on epidemic spreading-an approach based on multiplex networks Spontaneous behavioural changes in response to epidemics Coupling infectious diseases, human preventive behavior, and networks-a conceptual framework for epidemic modeling Modeling triple-diffusions of infectious diseases, information, and preventive behaviors through a metropolitan social networkan agent-based simulation Influence of breaking the symmetry between disease transmission and information propagation networks on stepwise decisions concerning vaccination Asymmetrically interacting spreading dynamics on complex layered networks Modelling the influence of human behaviour on the spread of infectious diseases: a review Adaptive coevolutionary networks: a review Exact solution for the time evolution of network rewiring models Epidemic reemergence in adaptive complex networks Temporal networks: slowing down diffusion by long lasting interactions Epidemic dynamics on an adaptive network Robust oscillations in sis epidemics on adaptive networks: coarse graining by automated moment closure Fluctuating epidemics on adaptive networks Adaptive networks: coevolution of disease and topology Infection spreading in a population with evolving contacts Contact switching as a control strategy for epidemic outbreaks Susceptible-infected-recovered epidemics in dynamic contact networks Absence of epidemic thresholds in a growing adaptive network Epidemic spreading in evolving networks Enhanced vaccine control of epidemics in adaptive networks Efficient community-based control strategies in adaptive networks Evolutionary dynamics of time-resolved social interactions Random walks on temporal networks Outcome inelasticity and outcome variability in behavior-incidence models: an example from an SIR infection on a dynamic network Exploiting temporal network structures of human interaction to effectively immunize populations Pastor-Satorras R. Immunization strategies for epidemic processes in time-varying contact networks The effect of opinion clustering on disease outbreaks Network theory and SARS: predicting outbreak diversity Positive network assortativity of influenza vaccination at a high school: implications for outbreak risk and herd immunity An ongoing multi-state outbreak of measles linked to non-immune anthroposophic communities in Austria Measles outbreak in Switzerland-an update relevant for the European football championship Dynamics and control of diseases in networks with community structure Spreading of sexually transmitted diseases in heterosexual populations Particle swarm optimization with scale-free interactions Modelling dynamical processes in complex socio-technical systems Modelling disease outbreaks in realistic urban social networks Complex social contagion makes networks more vulnerable to disease outbreaks Traffic-driven epidemic spreading in finite-size scale-free networks Impact of rotavirus vaccination on epidemiological dynamics in England and Wales Epidemiological effects of seasonal oscillations in birth rates Dynamic modeling of vaccinating behavior as a function of individual beliefs Social contacts and mixing patterns relevant to the spread of infectious diseases Location-specific patterns of exposure to recent pre-pandemic strains of influenza a in Southern China Social contacts and the locations in which they occur as risk factors for influenza infection The social brain hypothesis Modeling users' activity on Twitter networks: validation of Dunbar's number Reality mining: sensing complex social systems Inferring friendship network structure by using mobile phone data A high-resolution human contact network for infectious disease transmission Dynamics of person-to-person interactions from distributed RFID sensor networks What's in a crowd? Moreover, social contact networks also display small-world properties (i.e., short average path length between any two individuals and strong local clustering tendency), which cannot be well described by regular lattices or random graphs [23] . keywords: adaptive; awareness; behavior; contact; disease; dynamics; epidemic; impact; individuals; infection; information; models; networks; number; population; self; social; spreading; structure; threshold; time; transmission; vaccination cache: cord-288342-i37v602u.txt plain text: cord-288342-i37v602u.txt item: #274 of 435 id: cord-289325-jhokn5bu author: Lachiany, Menachem title: Effects of distribution of infection rate on epidemic models date: 2016-08-11 words: 6824 flesch: 53 summary: We propose here that the estimate of the change in the relative infection rate defined as I /I can be a good way to estimate the steady-state number of infected individuals in SIS models, and the total number of removed individuals in SIR models. key: cord-289325-jhokn5bu authors: Lachiany, Menachem; Louzoun, Yoram title: Effects of distribution of infection rate on epidemic models date: 2016-08-11 journal: Phys Rev E DOI: 10.1103/physreve.94.022409 sha: doc_id: 289325 cord_uid: jhokn5bu A goal of many epidemic models is to compute the outcome of the epidemics from the observed infected early dynamics. keywords: distribution; dynamics; epidemics; individuals; model; number; sir cache: cord-289325-jhokn5bu.txt plain text: cord-289325-jhokn5bu.txt item: #275 of 435 id: cord-289447-d93qwjui author: Helmy, Mohamed title: Systems biology approaches integrated with artificial intelligence for optimized food-focused metabolic engineering date: 2020-10-09 words: 7407 flesch: 31 summary: The availability of such data is necessary for more holistic studying of the organism and helps in discovering new pathways or proteins, simpler, shorter directed pathways or new enzymes with better production rate [12] . Design of an in vitro biocatalytic cascade for the manufacture of islatravir Machine Learning Methods for Analysis of Metabolic Data and Metabolic Pathway Modeling Can complex cellular processes be governed by simple linear rules? Constructing kinetic models of metabolism at genome-scales: A review Silico Approach to Characterization and Reduction of Uncertainty in the Kinetic Models of Genome-scale Metabolic Networks Macroscopic law of conservation revealed in the population dynamics of Toll-like receptor signaling Comparative protein modelling by satisfaction of spatial restraints High-resolution comparative modeling with RosettaCM A Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core The I-TASSER suite: Protein structure and function prediction The KEGG resource for deciphering the genome Update: integration, analysis and exploration of pathway data The MetaCyc database of metabolic pathways and enzymes-a 2019 update Siri, in my hand: Who's the fairest in the land? keywords: annotation; data; engineering; food; gene; genome; learning; machine; metabolic; methods; modeling; models; pathways; protein cache: cord-289447-d93qwjui.txt plain text: cord-289447-d93qwjui.txt item: #276 of 435 id: cord-289496-d8ac6l6o author: Chen, Min title: The introduction of population migration to SEIAR for COVID-19 epidemic modelling with an efficient intervention strategy date: 2020-08-06 words: 4224 flesch: 49 summary: the validity of SEIAR model by experimentation. Quarantine can keep people at a social distance,and then change contact rate. keywords: covid-19; epidemic; model; number; people; rate cache: cord-289496-d8ac6l6o.txt plain text: cord-289496-d8ac6l6o.txt item: #277 of 435 id: cord-289542-u86ujtur author: Razavian, Narges title: A validated, real-time prediction model for favorable outcomes in hospitalized COVID-19 patients date: 2020-10-06 words: 8075 flesch: 41 summary: To be effective, solutions involving machine learning must 4, 5 (1) address a clearly defined use case that clinical leaders will champion and (2) motivate changes in clinical management based on model predictions. These expected differences in model variables and outcomes challenge the generalizability of any predictive model, which emphasized the importance of prospective validation. keywords: care; covid-19; data; green; model; patients; performance; prediction; rate; risk; score; set; time; validation; variables cache: cord-289542-u86ujtur.txt plain text: cord-289542-u86ujtur.txt item: #278 of 435 id: cord-289917-2mxd7zxf author: Singh, Brijesh P. title: Modeling tempo of COVID‐19 pandemic in India and significance of lockdown date: 2020-08-04 words: 2756 flesch: 52 summary: In order to support the prevention of the disease and aid to the healthcare professionals, an attempt has been made to develop a simple model for the prediction of confirmed COVID-19 cases and to utilize that model for forecasting future COVID-19 cases in India. Further, time series models have been employed for predicting the incidence of COVID-19 disease. keywords: cases; covid-19; disease; india; lockdown; model; pandemic cache: cord-289917-2mxd7zxf.txt plain text: cord-289917-2mxd7zxf.txt item: #279 of 435 id: cord-290421-9v841ose author: Weston, Dale title: Examining the application of behaviour change theories in the context of infectious disease outbreaks and emergency response: a review of reviews date: 2020-10-01 words: 9917 flesch: 31 summary: key: cord-290421-9v841ose authors: Weston, Dale; Ip, Athena; Amlôt, Richard title: Examining the application of behaviour change theories in the context of infectious disease outbreaks and emergency response: a review of reviews date: 2020-10-01 journal: BMC Public Health DOI: 10.1186/s12889-020-09519-2 sha: doc_id: 290421 cord_uid: 9v841ose BACKGROUND: Behavioural science can play a critical role in combatting the effects of an infectious disease outbreak or public health emergency, such as the COVID-19 pandemic. The current paper presents a synthesis of review literature discussing the application of behaviour change theories within an infectious disease and emergency response context, with a view to informing infectious disease modelling, research and public health practice. keywords: behaviour; behaviour change; change; context; disease; emergency; health; model; papers; review; search; theories; theory cache: cord-290421-9v841ose.txt plain text: cord-290421-9v841ose.txt item: #280 of 435 id: cord-290952-tbsccwgx author: Ullah, Saif title: Modeling the impact of non-pharmaceutical interventions on the dynamics of novel coronavirus with optimal control analysis with a case study date: 2020-07-03 words: 6466 flesch: 47 summary: The simulation results of without optimal control model are shown in section 5. Therefore, the largest compact invariant set in ∆ is the singleton set W 0 and using the LaSalle's invariant principle [17] , W 0 is globally asymptotically stable in ∆. The present section investigates the data fitting using model (3) to the confirmed reported COVID-19 infected cases in Pakistan. keywords: cases; control; covid-19; covid-19 model; disease; individuals; model; optimal; pakistan cache: cord-290952-tbsccwgx.txt plain text: cord-290952-tbsccwgx.txt item: #281 of 435 id: cord-291180-xurmzmwj author: Lin, Xiaoqian title: A Review on Applications of Computational Methods in Drug Screening and Design date: 2020-03-18 words: 7739 flesch: 35 summary: With the assembly of reasonable molecular fragments, the objective of drug design method is to produce a certain novel molecule that display highest biological activity, absorption, metabolism, elimination (ADME) and lowest toxicity properties at different environments, which belong to the application range of QSAR models. Different drug design methods and virtual screening will be very useful to design and find rational drug molecules based on the target macromolecule that interacts with the drug and thus speed up the whole drug discovery process. keywords: activity; data; design; development; discovery; drug; learning; methods; model; modeling; molecules; multiscale; protein; qsar; screening; structure; target cache: cord-291180-xurmzmwj.txt plain text: cord-291180-xurmzmwj.txt item: #282 of 435 id: cord-292699-855am0mv author: Engbert, Ralf title: Sequential data assimilation of the stochastic SEIR epidemic model for regional COVID-19 dynamics date: 2020-04-17 words: 5372 flesch: 51 summary: Standard epidemic models provide a theoretically well-founded description of dynamics of disease incidence. [15] used a similar approach of sequential data assimilation for dynamic epidemic models. keywords: contact; data; license; model; parameter; preprint; q q; time cache: cord-292699-855am0mv.txt plain text: cord-292699-855am0mv.txt item: #283 of 435 id: cord-293333-mqoml9o5 author: Scharbarg, Emeric title: From the hospital scale to nationwide: observability and identification of models for the COVID-19 epidemic waves date: 2020-10-03 words: 5786 flesch: 55 summary: The subsystem (2) will be strongly observable if and only if the matrix has full rank, which happens if and only if The different notions of observability are peculiar of time delay systems. Since the health status is far from being homogeneous over a full country and since the health system consists in a network of major regional hospitals, it is worth to take advantage of the availability and agility of local hospital data rather than just merging them in some centralized information system. keywords: covid-19; dynamics; hospital; model; number; patients; time cache: cord-293333-mqoml9o5.txt plain text: cord-293333-mqoml9o5.txt item: #284 of 435 id: cord-293562-69nnyq8p author: Imran, Mudassar title: Mathematical analysis of the role of hospitalization/isolation in controlling the spread of Zika fever date: 2018-08-15 words: 5874 flesch: 51 summary: The dynamics of Zika fever epidemic model have been considered. Susceptible individuals get infected with Zika fever virus (due to contact with infected vectors) at a rate λ h and thus enter the exposed class E h . keywords: control; disease; model; number; population; transmission; virus; zika cache: cord-293562-69nnyq8p.txt plain text: cord-293562-69nnyq8p.txt item: #285 of 435 id: cord-293893-ibca88xu author: Xie, Tian title: Parallel Evolution and Response Decision Method for Public Sentiment based on System Dynamics date: 2020-05-23 words: 9846 flesch: 38 summary: Thus, in this paper, we use PCM theory to cultivate the SD simulation models dynamically and to keep the models parallel with real public sentiment systems in order to obtain accurate simulation results and reliable response solutions (F. Wang, 2010) . The rationality and consistency between the models and real public sentiment systems should be discussed by (Wooldridge, 2006) . keywords: data; decision; degree; government; model; nuclear; public; response; sentiment; simulation; strategies; system; variables cache: cord-293893-ibca88xu.txt plain text: cord-293893-ibca88xu.txt item: #286 of 435 id: cord-294586-95iwcocn author: Kwuimy, C. A. K. title: Nonlinear dynamic analysis of an epidemiological model for COVID-19 including public behavior and government action date: 2020-07-16 words: 6087 flesch: 49 summary: As can be seen in this table, the values of model parameters changed significantly with transition from uncontrolled to controlled time span owing to strong actions which were imposed to control the disease transmission in South Korea. Also, a p ¼ 10 means that the square error of model infection and removed rates at each end point has ten times more effect on the cost function than the mean square error of all 40 days and this enforces the model to be close to the real data at the end points. keywords: action; analysis; covid-19; data; disease; government; individuals; model cache: cord-294586-95iwcocn.txt plain text: cord-294586-95iwcocn.txt item: #287 of 435 id: cord-295116-eo887olu author: Chimmula, Vinay Kumar Reddy title: Time Series Forecasting of COVID-19 transmission in Canada Using LSTM Networks() date: 2020-05-08 words: 4711 flesch: 46 summary: The rest of this paper is structured as follows: section II describes methods, datasets and LSTM models used in this paper. The predictions of LSTM model are shown in 4 with solid red line. keywords: authors; canada; cases; covid-19; data; lstm; model; networks; time; transmission cache: cord-295116-eo887olu.txt plain text: cord-295116-eo887olu.txt item: #288 of 435 id: cord-295786-cpuz08vl author: Castillo-Sánchez, Gema title: Suicide Risk Assessment Using Machine Learning and Social Networks: a Scoping Review date: 2020-11-09 words: 7126 flesch: 52 summary: key: cord-295786-cpuz08vl authors: Castillo-Sánchez, Gema; Marques, Gonçalo; Dorronzoro, Enrique; Rivera-Romero, Octavio; Franco-Martín, Manuel; De la Torre-Díez, Isabel title: Suicide Risk Assessment Using Machine Learning and Social Networks: a Scoping Review date: 2020-11-09 journal: J Med Syst DOI: 10.1007/s10916-020-01669-5 sha: doc_id: 295786 cord_uid: cpuz08vl According to the World Health Organization (WHO) report in 2016, around 800,000 of individuals have committed suicide. The authors have performed a systematic review to identify relevant papers that use suicide risk assessment models in social networks. keywords: authors; data; information; models; networks; risk; studies; study; suicide; techniques cache: cord-295786-cpuz08vl.txt plain text: cord-295786-cpuz08vl.txt item: #289 of 435 id: cord-296388-ayfdsn07 author: Maziarz, Mariusz title: Agent‐based modelling for SARS‐CoV‐2 epidemic prediction and intervention assessment: A methodological appraisal date: 2020-08-21 words: 4567 flesch: 33 summary: Exploratory modeling for policy analysis Sensitivity analysis of infectious disease models: methods, advances and their application Robustness analysis Thinking about mechanisms How models are used to represent reality An agent-based conception of models and scientific representation Modeling mechanisms The Philosophy of Causality in Economics: Causal Inferences and Policy Proposals Impact of non-pharmaceutical interventions (NPIs) to reduce COVID-19 mortality and healthcare demand Australia restricts travelers from mainland China as virus impact spreads Australia blocks arrival of all non-citizens, non-residents in expanded coronavirus travel ban Update on coronavirus measures PM Announces Pubs, Clubs and Cinemas to Close, Schools Stay Open in Stage One Measures-as it Happened. Unfortunately, such models have been left out from methodological discussions and are not explicitly listed by evidence hierarchies. keywords: abms; acemod; agent; assumptions; epidemic; evidence; mechanism; model; modelling; sars cache: cord-296388-ayfdsn07.txt plain text: cord-296388-ayfdsn07.txt item: #290 of 435 id: cord-296560-ehrww6uu author: Bender, Andreas title: Chapter 9 Molecular Similarity: Advances in Methods, Applications and Validations in Virtual Screening and QSAR date: 2006-11-07 words: 10160 flesch: 33 summary: Since molecular descriptors and the methods used to analyze the data they represent cannot be separated easily, the second part of this section also covers novel data analysis methods. We will now describe some of the recent developments in the calculation of molecular descriptors. keywords: activity; compounds; data; datasets; descriptors; docking; ligand; methods; model; novel; number; performance; qsar; scoring; screening; selection; set; similarity; structure cache: cord-296560-ehrww6uu.txt plain text: cord-296560-ehrww6uu.txt item: #291 of 435 id: cord-296565-apqm0i58 author: Togati, Teodoro Dario title: General Theorizing and Historical Specificity in the ‘Keynes Versus the Classics’ Dispute’ date: 2020-10-06 words: 10627 flesch: 39 summary: Now analysis of such anchors in real-world contexts suggests that standard theory only makes sense under very special institutional conditions, such as those needed to grant the 'communism of models', underlying Lucas' rational expectations hypothesis. section discusses the limitations of standard theory concerning 'absolute' generality. keywords: agents; approach; economy; equilibrium; example; factors; generality; keynes; models; standard; theory cache: cord-296565-apqm0i58.txt plain text: cord-296565-apqm0i58.txt item: #292 of 435 id: cord-296826-870mxd1t author: Taghikhah, Firouzeh title: Integrated modeling of extended agro-food supply chains: A systems approach date: 2020-06-27 words: 10522 flesch: 37 summary: The results from the simulation model can estimate the number of organic wine consumers with high accuracy, translating to an error between 3% and 18%, depending on the willingness-to-pay settings. Thus, (1) Social performance accounts for organic product consumption and is defined as: ; (6) Where, is the number of organic consumers in year . keywords: behavior; chain; consumers; decisions; demand; dynamics; et al; farmers; farming; food; model; modeling; organic; performance; price; production; study; supply; wine cache: cord-296826-870mxd1t.txt plain text: cord-296826-870mxd1t.txt item: #293 of 435 id: cord-297161-ziwfr9dv author: Sauter, T. title: TESTING INFORMED SIR BASED EPIDEMIOLOGICAL MODEL FOR COVID-19 IN LUXEMBOURG date: 2020-07-25 words: 2247 flesch: 43 summary: Notably, SIR models captured a link between the transmission rate β and the case-infection ratio that was missed by SEIR models. The underestimation of the Infected, Deaths, and Removed, due to not considering country specific testing information, causes SIR models to predict IFR and effective reproduction number (Rt_eff ) values that vary drastically across countries with different testing and might often be overestimated. keywords: cases; lockdown; model; number cache: cord-297161-ziwfr9dv.txt plain text: cord-297161-ziwfr9dv.txt item: #294 of 435 id: cord-297517-w8cvq0m5 author: Toğaçar, Mesut title: COVID-19 detection using deep learning models to exploit Social Mimic Optimization and structured chest X-ray images using fuzzy color and stacking approaches date: 2020-05-06 words: 4683 flesch: 54 summary: We evaluate the various stages for dataset images and determine that these values are the most efficient of the dataset. For this study, we combined two publicly accessible databases consisting of COVID-19 images. keywords: approach; classification; covid-19; dataset; images; learning; model; pneumonia; step; technique cache: cord-297517-w8cvq0m5.txt plain text: cord-297517-w8cvq0m5.txt item: #295 of 435 id: cord-297530-7zbvgvk8 author: Kühnert, Denise title: Phylogenetic and epidemic modeling of rapidly evolving infectious diseases date: 2011-08-31 words: 12828 flesch: 33 summary: Recent population genetic models account for population dynamics e.g., in order to enhance the understanding of allele fixation processes and the importance of demographic stochasticity (Parsons and Quince, 2007; Champagnat and Lambert, 2007; Non-parametric coalescent methods provide greater flexibility by estimating the population size as a function of time directly from the sequence data and can be used for data exploration to guide the choice of parametric population models for further analysis. keywords: analysis; bayesian; coalescent; data; dynamics; epidemic; et al; evolution; history; host; inference; influenza; methods; model; population; rate; sampling; size; time; transmission; tree; virus cache: cord-297530-7zbvgvk8.txt plain text: cord-297530-7zbvgvk8.txt item: #296 of 435 id: cord-298646-wurzy88k author: van der Merwe, René title: Challenge models to assess new therapies in chronic obstructive pulmonary disease date: 2012-09-13 words: 4781 flesch: 34 summary: No effect of inhaled budesonide on the response to inhaled ozone in normal subjects Effects of cyclo-oxygenase inhibition on ozone-induced respiratory inflammation and lung function changes SCH527123, a novel treatment option for severe neutrophilic asthma SB-656933, a novel CXCR2 selective antagonist, inhibits ex-vivo neutrophil activation and ozone-induced airway inflammation in humans Short-term respiratory effects of 0.12 ppm ozone exposure in volunteers with chronic obstructive pulmonary disease The acute effects of 0.2 ppm ozone in patients with chronic obstructive pulmonary disease Response to ozone in volunteers with chronic obstructive pulmonary disease Responses of older men with and without chronic obstructive pulmonary disease to prolonged ozone exposure Detection of rhinovirus RNA in lower airway cells during experimentally induced infection The major human rhinovirus receptor is ICAM-1 Members of the low density lipoprotein receptor family mediate cell entry of a minor-group common cold virus Role of p38 mitogen-activated protein kinase in rhinovirus-induced cytokine production by bronchial epithelial cells Rhinovirus induction of the CXC chemokine epithelial-neutrophil activating peptide-78 in bronchial epithelium Low grade rhinovirus infection induces a prolonged release of IL-8 in pulmonary epithelium Quantitative and qualitative analysis of rhinovirus infection in bronchial tissues Rhinoviruses infect the lower airways Lower airways inflammation during rhinovirus colds in normal and in asthmatic subjects Respiratory viruses in exacerbations of chronic obstructive pulmonary disease requiring hospitalisation: a case-control study Infections and airway inflammation in chronic obstructive pulmonary disease severe exacerbations A 1-year prospective study of the infectious etiology in patients hospitalized with acute exacerbations of COPD Effect of interactions between lower airway bacterial and rhinoviral infection in exacerbations of COPD Viral pathogens in acute exacerbations of chronic obstructive pulmonary disease A one-year prospective study of infectious etiology in patients hospitalized with acute exacerbations of COPD and concomitant pneumonia Rhinovirus infections in chronic bronchitis: isolation of eight possibly new rhinovirus serotypes Role of infection in chronic bronchitis Infectious agents associated with exacerbations of chronic obstructive bronchopneumopathies and asthma attacks Respiratory viruses, symptoms, and inflammatory markers in acute exacerbations and stable chronic obstructive pulmonary disease Respiratory viral infections in adults with and without chronic obstructive pulmonary disease An experimental model of rhinovirus induced chronic obstructive pulmonary disease exacerbations: a pilot study An experimental model of virus induced chronic obstructive pulmonary disease exacerbation Experimental rhinovirus infection as a human model of chronic obstructive pulmonary disease exacerbation Comparative antirhinoviral activities of soluble intercellular adhesion molecule-1 (sICAM-1) and chimeric ICAM-1/immunoglobulin A molecule Efficacy of tremacamra, a soluble intercellular adhesion molecule 1, for experimental rhinovirus infection: a randomized clinical trial Genetic clustering of all 102 human rhinovirus prototype strains: serotype 87 is close to human enterovirus 70 Regulation of innate antiviral defenses through a shared repressor domain in RIG-I and LGP2 for Pleconaril Respiratory Infection Study Group. The Global Initiative for Chronic Obstructive Lung Disease defines chronic obstructive pulmonary disease (COPD) as a … common preventable and treatable disease characterized by persistent airflow limitation that is usually progressive and associated with an enhanced chronic inflammatory response in the airways and the lung to noxious particles or gases. keywords: challenge; copd; disease; exacerbations; inflammation; lps; lung; model; rhinovirus; sputum; study; subjects cache: cord-298646-wurzy88k.txt plain text: cord-298646-wurzy88k.txt item: #297 of 435 id: cord-299312-asc120pn author: Khoshnaw, Sarbaz H.A. title: A Quantitative and Qualitative Analysis of the COVID–19 Pandemic Model date: 2020-05-25 words: 2087 flesch: 29 summary: We have applied the idea of local sensitivity to calculate the sensitivity 525 of each model state concerning model parameters for the updated model of the COVID-19. Results based on the computational simulations show that the model dynamics are significantly changed for different key model parameters. keywords: coronavirus; covid-19; model; parameters cache: cord-299312-asc120pn.txt plain text: cord-299312-asc120pn.txt item: #298 of 435 id: cord-299439-xvfab24g author: Fokas, A. S. title: COVID-19: Predictive Mathematical Models for the Number of Deaths in South Korea, Italy, Spain, France, UK, Germany, and USA date: 2020-05-12 words: 2079 flesch: 50 summary: Clearly, this requires the 63 development of predictive mathematical models. https://doi.org/10.1101/2020.05.08.20095489 doi: medRxiv preprint keywords: funder; medrxiv; preprint; review cache: cord-299439-xvfab24g.txt plain text: cord-299439-xvfab24g.txt item: #299 of 435 id: cord-299852-t0mqe7yy author: Janssen, Loes H. C. title: Does the COVID-19 pandemic impact parents’ and adolescents’ well-being? An EMA-study on daily affect and parenting date: 2020-10-16 words: 8586 flesch: 46 summary: We tested whether adding parent level (Level 2) to Model 1 for adolescents improved the model fit based on the likelihood ratio tests. Parents and adolescents who agreed to participate were sent an online questionnaire on demographic characteristics and general mental well-being. keywords: adolescents; affect; baseline; covid-19; covid-19 pandemic; model; pandemic; parenting; parents cache: cord-299852-t0mqe7yy.txt plain text: cord-299852-t0mqe7yy.txt item: #300 of 435 id: cord-299932-c079r94n author: He, X. title: Benchmarking Deep Learning Models and Automated Model Design for COVID-19 Detection with Chest CT Scans date: 2020-06-09 words: 6210 flesch: 58 summary: Our experimental results show that DL models are promising solutions, and 3D models outperform 2D models. The models are trained with the training set and evaluated on the test set. 1) Exp 1: Comparing different CNN models: In this study, we evaluate 17 CNN classification models shown in Table III , including 3D models and 2D models. keywords: covid-19; dataset; images; models; number; performance; scan; slices cache: cord-299932-c079r94n.txt plain text: cord-299932-c079r94n.txt item: #301 of 435 id: cord-300570-xes201g7 author: Patwardhan, J. title: PREDICTIONS FOR EUROPE FOR THE COVID-19 PANDEMICAFTER LOCKDOWN WAS LIFTED USING AN SIR MODEL date: 2020-10-06 words: 5300 flesch: 61 summary: The model fails around 15 days after cases plateau, because we expect cases and deaths to decrease continually until they reach 0, but instead we get a stagnation of the virus. Each stagnation occurs during a period of increased cases. keywords: cases; data; day; license; medrxiv; model; preprint cache: cord-300570-xes201g7.txt plain text: cord-300570-xes201g7.txt item: #302 of 435 id: cord-301117-egd1gxby author: Barh, Debmalya title: In Silico Models: From Simple Networks to Complex Diseases date: 2013-11-15 words: 13767 flesch: 33 summary: Now that we have an idea on what in silico modeling of infectious diseases are generally based on, we will outline a better understanding of the parameters that are considered in most in silico disease models. These in silico models encode and test hypotheses about mechanisms underlying the function of cells, the pathogenesis and pathophysiology of disease, and contribute to identification of new drug targets and drug design. keywords: agent; analysis; bioinformatics; biology; cancer; cell; data; disease; equations; gene; genome; growth; host; interactions; modeling; models; networks; parameters; silico; silico modeling; systems; tools; tumor; understanding cache: cord-301117-egd1gxby.txt plain text: cord-301117-egd1gxby.txt item: #303 of 435 id: cord-301505-np4nr7gg author: Lin, Xin title: Two types of transmembrane homomeric interactions in the integrin receptor family are evolutionarily conserved date: 2006-01-27 words: 5269 flesch: 40 summary: [7] [8] [9] For example, electron cryomicroscopy and single particle analysis, 10 cysteine scanning mutagenesis in the transmembrane domain 11 and activation by disruption of transmembrane interactions of integrin ␣IIb␤3. 12 Overall, for the ␣/␤ interaction, there seems to exist a general consensus on the type of interaction present in the inactive, low-affinity form. Our results for the ␣ homodimer are in contrast with a recent study 33 that studied ␣ homodimeric interactions using a computational method similar to the one used here, and where two models, with a left-and right-handed configuration were proposed. keywords: helix; integrin; interaction; model; sequences; transmembrane cache: cord-301505-np4nr7gg.txt plain text: cord-301505-np4nr7gg.txt item: #304 of 435 id: cord-302277-c66xm2n4 author: Bakaletz, Lauren O. title: Developing animal models for polymicrobial diseases date: 2004 words: 10914 flesch: 22 summary: After inoculation with influenza virus, the rate of RDC migration to the draining peribronchial lymph nodes increased, but this only occurred during the first 24 hours after virus infection. Ontario group A streptococcal study group Risk factors for invasive group A streptococcal infections in children with varicella: a casecontrol study Invasive group A streptococcal infections in children with varicella in Southern California Presence of specific viruses in the middle ear fluids and respiratory secretions of young children with acute otitis media Adenovirus infection enhances in vitro adherence of Streptococcus pneumoniae Effect of adenovirus type 1 and influenza A virus on Streptococcus pneumoniae nasopharyngeal colonization and otitis media in the chinchilla Reviews the evidence in support of the crucial role of a viral virulence factor in predisposing both the upper and lower respiratory tract to bacterial secondary infections Adenovirus serotype 1 does not act synergistically with Moraxella (Branhamella) catarrhalis to induce otitis media in the chinchilla Comparison of alteration of cell surface carbohydrates of the chinchilla tubotympanum and colonial opacity phenotype of Streptococcus pneumoniae during experimental pneumococcal otitis media with or without an antecedent influenza A virus infection Effect of experimental influenza A virus infection on isolation of Streptococcus pneumoniae and other aerobic bacteria from the oropharynges of allergic and nonallergic adult subjects Prevalence of various respiratory viruses in the middle ear during acute otitis media Infectious exacerbations of chronic obstructive pulmonary disease associated with respiratory viruses and non-typeable Haemophilus influenzae Impaired innate host defense causes susceptibility to respiratory virus infections in cystic fibrosis Modulation of Pseudomonas aeruginosa gene expression by host microflora through interspecies communication The herpesvirus-Porphyromonas gingivalis-periodontitis axis Herpesviral-bacterial interactions in aggressive periodontitis A mouse model of dual infection with influenza virus and Streptococcus pneumoniae Lethal synergism between influenza virus and Streptococcus pneumoniae: characterization of a mouse model and the role of plateletactivating factor receptor Role of neuraminidase in lethal synergism between influenza virus and Streptococcus pneumoniae A model of meningococcal bacteremia after respiratory superinfection in influenza A virus-infected mice The chinchilla superinfection model developed in this study was the first animal model to demonstrate conclusively the important role of the upper respiratory tract viruses Eustachian tube histopathology during experimental influenza keywords: animal; bacterial; candida; disease; host; human; infection; mice; model; pathogenesis; pathogens; patients; periodontitis; polymicrobial; role; species; strains; study; virulence; virus; viruses cache: cord-302277-c66xm2n4.txt plain text: cord-302277-c66xm2n4.txt item: #305 of 435 id: cord-302336-zj3oixvk author: Clift, Ash K title: Living risk prediction algorithm (QCOVID) for risk of hospital admission and mortality from coronavirus 19 in adults: national derivation and validation cohort study date: 2020-10-21 words: 7354 flesch: 38 summary: Such linked datasets have an established track record for the development and evaluation of established clinical risk models, including those for cardiovascular disease, diabetes, and mortality. 10 Although QCOVID has been specifically designed to inform UK health policy and interventions to manage covid-19 related risks, it also has international potential, subject to local validation. keywords: cohort; covid-19; data; death; derivation; hospital; model; outcome; period; prediction; risk; study; time; validation cache: cord-302336-zj3oixvk.txt plain text: cord-302336-zj3oixvk.txt item: #306 of 435 id: cord-303187-ny4qr2a2 author: Belo, Vinícius Silva title: Abundance, survival, recruitment and effectiveness of sterilization of free-roaming dogs: A capture and recapture study in Brazil date: 2017-11-01 words: 7692 flesch: 39 summary: Editora Ministério da Saúde A general methodology for the analysis of capture-recapture experiments in open populations U-CARE: utilities for performing goodness of fit tests and manipulating capture-recapture data Estimability and likelihood inference for generalized linear mixed models using data cloning Model Selection and Multi-Model Inference: A Practical Information-Theoretic Approach Information-theoretic model selection and model averaging for closed-population capture-recapture studies Studies on dog population and its implication for rabies control Assessing demographic and epidemiologic parameters of rural dog populations in India during mass vaccination campaigns A survey of the dog population in rural Bangladesh Free-roaming dog population estimation and status of the dog population management and rabies control program in Dhaka City Demography of domestic dogs in rural and urban areas of the Coquimbo region of Chile and implications for disease transmission Spacing and social organization: Urban stray dogs revisited Is survivorship a better fitness surrogate than fecundity? Fecundity and longevity of roaming dogs in Jaipur Population ecology of free-ranging urban dogs in West Bengal Age, sex, density, winter weather, and population crashes in Soay sheep Sex-and age-dependent effects of population density on life history traits of red deer Cervus elaphus in a temperate forest The Evolution of Parental Care Effects of maternal care on the lifetime reproductive success of females in a neotropical harvestman A seroepidemiologic survey of canine visceral leishmaniosis among apparently healthy dogs in Croatia Persistent Instability and Population Regulation in Soay Sheep Temporal changes in key factors and key age groups influencing the population dynamics of female red deer Assessing the impact of climate variation on survival in vertebrate populations Complex interplay between intrinsic and extrinsic drivers of long-term survival trends in southern elephant seals Loss of density-dependence and incomplete control by dominant breeders in a territorial species with density outbreaks Stochasticity and Determinism: How Density-Independent and Density-Dependent Processes Affect Population Variability Bayesian Inference on the Effect of Density Dependence and Weather on a Guanaco Population from Chile Density-Dependent Spacing Behaviour and Activity Budget in Pregnant, Domestic Goats (Capra hircus) Such information on the dynamics of free-ranging dogs are useful for informing control interventions of unrestricted dog populations and against canine visceral leishmaniasis and rabies, both neglected tropical diseases endemic to various countries. keywords: animals; areas; capture; control; dogs; dynamics; estimates; model; parameters; population; probability; recruitment; sterilization; study; survival cache: cord-303187-ny4qr2a2.txt plain text: cord-303187-ny4qr2a2.txt item: #307 of 435 id: cord-303651-fkdep6cp author: Thompson, Robin N. title: Key questions for modelling COVID-19 exit strategies date: 2020-08-12 words: 11573 flesch: 35 summary: Adjusting COVID-19 deaths to account for reporting delay Using mobility to estimate the transmission intensity of COVID-19 in Italy: a subnational analysis with future scenarios A note on generation times in epidemic models Serial interval of SARS-CoV-2 was shortened over time by nonpharmaceutical interventions Using information theory to optimise epidemic models for real-time prediction and estimation An exact method for quantifying the reliability of end-of-epidemic declarations in real time. The effects of local spatial structure on epidemiological invasions Pair approximations for spatial structures? Management of invading pathogens should be informed by epidemiology rather than administrative boundaries UK Government Office for National Statistics Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study SARS-CoV-2 infection among travelers returning from Wuhan 2020 The probability of detection of SARS-CoV-2 in saliva Mathematics of epidemics on networks: from exact to approximate models Epidemic processes in complex networks A novel field-based approach to validate the use of network models for disease spread between dairy herds Analysis of a stochastic SIR epidemic on a random network incorporating household structure Reproduction numbers for epidemic models with households and other social structures II: comparisons and implications for vaccination Reproductive numbers, epidemic spread and control in a community of households Reproduction numbers for epidemic models with households and other social structures. keywords: countries; cov-2; covid-19; data; disease; epidemic; exit; health; immunity; individuals; interventions; modelling; models; pandemic; population; r(t; sars; social; strategies; time; transmission cache: cord-303651-fkdep6cp.txt plain text: cord-303651-fkdep6cp.txt item: #308 of 435 id: cord-305318-cont592g author: Lancaster, Madeline A. title: Disease modelling in human organoids date: 2019-07-01 words: 10874 flesch: 27 summary: CRISPR/Cas 9 genome editing and its applications in organoids Sequential cancer mutations in cultured human intestinal stem cells Use of Crisprmodified human stem cell organoids to study the origin of mutational signatures in cancer Disease modeling in stem cell-derived 3D organoid systems In vitro generation of human pluripotent stem cell derived lung organoids A bioengineered niche promotes in vivo engraftment and maturation of pluripotent stem cell derived human lung organoids Self-organized formation of polarized cortical tissues from ESCs and its active manipulation by extrinsic signals Self-organizing optic-cup morphogenesis in three-dimensional culture Replication of human noroviruses in stem cell-derived human enteroids Organoid cultures derived from patients with advanced prostate cancer Zika virus impairs growth in human neurospheres and brain organoids Systematic identification of genomic markers of drug sensitivity in cancer cells Artificial three-dimensional niches deconstruct pancreas development in vitro Isolation, immortalization, and characterization of a human breast epithelial cell line with stem cell properties Lumen formation by epithelial cell lines in response to collagen overlay: a morphogenetic model in culture The limited in vitro lifetime of human diploid cell strains Modelling Cryptosporidium infection in human small intestinal and lung organoids Patient-derived xenograft models: an emerging platform for translational cancer research Flowenhanced vascularization and maturation of kidney organoids in vitro Long-term expansion of functional mouse and human hepatocytes as 3D organoids A threedimensional organoid culture system derived from human glioblastomas recapitulates the hypoxic gradients and cancer stem cell heterogeneity of tumors found in vivo Modeling mouse and human development using organoid cultures Unlimited in vitro expansion of adult bi-potent pancreas progenitors through the Lgr5/Rspondin axis In vitro expansion of single Lgr5+ liver stem cells induced by Wnt-driven regeneration Long-term culture of genome-stable bipotent stem cells from adult human liver From 3D cell culture to organson-chips The secret lives of cancer cell lines An organoid-based model of cortical development identifies non-cell-autonomous defects in Wnt signaling contributing to Miller-Dieker syndrome Midbrain-like organoids from human pluripotent stem cells contain functional dopaminergic and neuromelaninproducing neurons Isolation and in vitro expansion of human colonic stem cells Self-organization of axial polarity, inside-out layer pattern, and species-specific progenitor dynamics in human ES cell-derived neocortex Three-dimensional cellular development is essential for ex vivo formation of human bone Identification of multipotent luminal progenitor cells in human prostate organoid cultures Human brain organoids on a chip reveal the physics of folding The Notch and Wnt pathways regulate stemness and differentiation in human fallopian tube organoids Organ/body-on-a-chip based on microfluidic technology for drug discovery Engineering induction of singular neural rosette emergence within HPSC-derived tissues Generation of inner ear organoids containing functional hair cells from human pluripotent stem cells Long-term adult feline liver organoid cultures for disease modeling of hepatic steatosis Development of definitive endoderm from embryonic stem cells in culture Generation and characterization of rat liver stem cell lines and their engraftment in a rat model of liver failure Regeneration of thyroid function by transplantation of differentiated pluripotent stem cells Organogenesis in a dish: modeling development and disease using organoid technologies Cerebral organoids model human brain development and microcephaly Guided selforganization and cortical plate formation in human brain organoids Stem cellderived models of viral infections in the gastrointestinal tract Recruited monocytes and type 2 immunity promote lung regeneration following pneumonectomy Lung stem cell differentiation in mice directed by endothelial cells via a BMP4-NFATc1-thrombospondin-1 axis Tumor evolution and drug response in patient-derived organoid models of bladder cancer Influence of a reconstituted basement membrane and its components on casein gene expression and secretion in mouse mammary epithelial cells Oncogenic transformation of diverse gastrointestinal tissues in primary organoid culture 25-hydroxycholesterol protects host against Zika virus infection and its associated microcephaly in a mouse model Organoid cultures recapitulate esophageal adenocarcinoma heterogeneity providing a model for clonality studies and precision therapeutics Quantification of regenerative potential in primary human mammary epithelial cells Understanding kidney morphogenesis to guide renal tissue regeneration Expansion of adult human pancreatic tissue yields organoids harboring progenitor cells with endocrine differentiation potential Long-term in vitro expansion of salivary gland stem cells driven by Wnt signals Growth in culture of trypsin dissociated thyroid cells from adult rats An in vivo model of functional and vascularized human brain organoids Modeling human cortical development in vitro using induced pluripotent stem cells FOXG1-dependent dysregulation of GABA/glutamate neuron differentiation in autism spectrum disorders Modeling colorectal cancer using Crispr-Cas9-mediated engineering of human intestinal organoids Modelling human development and disease in pluripotent stem-cellderived gastric organoids Wnt/betacatenin promotes gastric fundus specification in mice and humans Histological organization in hepatocyte organoid cultures Dual SMAD signaling inhibition enables long-term expansion of diverse epithelial basal cells Self-organization of polarized cerebellar tissue in 3D culture of human pluripotent stem cells Mouse and human urothelial cancer organoids: a tool for bladder cancer research Self-formation of optic cups and storable stratified neural retina from human ESCs Disease modeling and gene therapy of copper storage disease in canine hepatic organoids Human embryonic lung epithelial tips are multipotent progenitors that can be expanded in vitro as longterm self-renewing organoids Generation of stomach tissue from mouse embryonic stem cells Organoid models of human liver cancers derived from tumor needle biopsies Sustained in vitro intestinal epithelial culture within a Wnt-dependent stem cell niche Functional anterior pituitary generated in selforganizing culture of human embryonic stem cells Identification and correction of mechanisms underlying inherited blindness in human IPSCderived optic cups Functional cortical neurons and astrocytes from human pluripotent stem cells in 3D culture Salivary gland development: a template for regeneration Personalized in vitro and in vivo cancer models to guide precision medicine Inflammatory cytokine TNFalpha promotes the long-term expansion of primary hepatocytes in 3D culture Human salivary gland stem cells functionally restore radiation damaged salivary glands Lgr5(+) stem and progenitor cells reside at the apex of a heterogeneous embryonic hepatoblast pool Brain-regionspecific organoids using mini-bioreactors for modeling ZIKV exposure Cell diversity and network dynamics in photosensitive human brain organoids Basal cells as stem cells of the mouse trachea and human airway epithelium Lineage tracing of the endoderm during oral development A living biobank of breast cancer organoids captures disease heterogeneity Long-term expanding human airway organoids for disease modeling The clinically approved antiviral drug sofosbuvir inhibits Zika virus replication Development of a functional thyroid model based on an organoid culture system Generation of functional hippocampal neurons from self-organizing human embryonic stem cell-derived dorsomedial telencephalic tissue Cholangiocytes derived from human induced pluripotent stem cells for disease modeling and drug validation Directed differentiation of human induced pluripotent stem cells into functional cholangiocyte-like cells Reconstruction of the mouse extrahepatic biliary tree using primary human extrahepatic cholangiocyte organoids Crispr-Cas systems for editing, regulating and targeting genomes Cytosystems dynamics in self-organization of tissue architecture Next-generation regenerative medicine: organogenesis from stem cells in 3D culture Single Lgr5 stem cells build crypt-villus structures in vitro without a mesenchymal niche Long-term expansion of epithelial organoids from human colon, adenoma, adenocarcinoma, and Barrett's epithelium Neural crest cell implantation restores enteric nervous system function and alters the gastrointestinal transcriptome in human tissue-engineered small intestine Functional repair of CFTR by CRISPR/Cas9 in intestinal stem cell organoids of cystic fibrosis patients Human gastric cancer modelling using organoids Human pancreatic tumor organoids reveal loss of stem cell niche factor dependence during disease progression Cystic organoid teratoma: (Report of a Case) Directed differentiation of human pluripotent stem cells into intestinal tissue in vitro Differentiated Troy+ chief cells act as reserve stem cells to generate all lineages of the stomach epithelium Self-formation of functional adenohypophysis in three-dimensional culture Redefining the in vivo origin of metanephric nephron progenitors enables generation of complex kidney structures from pluripotent stem cells Directing human embryonic stem cell differentiation towards a renal lineage generates a self-organizing kidney Kidney organoids from human iPS cells contain multiple lineages and model human nephrogenesis FGF7 is a functional niche signal required for stimulation of adult liver progenitor cells that support liver regeneration Vascularized and functional human liver from an IPSC-derived organ bud transplant Vascularized and complex organ buds from diverse tissues via mesenchymal cell-driven condensation Massive and reproducible production of liver buds entirely from human pluripotent stem cells Successful creation of pancreatic cancer organoids by means of Eus-guided fine-needle biopsy sampling for personalized cancer treatment Long-term, hormone-responsive organoid cultures of human endometrium in a chemically defined medium Trophoblast organoids as a model for maternal-fetal interactions during human placentation Prospective derivation of a living organoid biobank of colorectal cancer patients Patient-derived organoids model treatment response of metastatic gastrointestinal cancers photoreceptor outer segment-like structures in long-term 3D retinas from human pluripotent stem cells A method to recapitulate early embryonic spatial patterning in human embryonic stem cells Directed differentiation of telencephalic precursors from embryonic stem cells Self-organized cerebral organoids with human-specific features predict effective drugs to combat Zika virus infection Tumor organoids as a pre-clinical cancer model for drug discovery Chromosomal abnormalities in hepatic cysts point to novel polycystic liver disease genes Directed differentiation of human pluripotent stem cells into mature airway epithelia expressing functional CFTR protein Engineered human pluripotent-stem-cell-derived intestinal tissues with a functional enteric nervous system Directed differentiation of human pluripotent cells to ureteric bud kidney progenitor-like cells Fusion of regionally specified HPSC-derived organoids models human brain development and interneuron migration Selfrenewal and multilineage differentiation in vitro from murine prostate stem cells Identification of small-molecule inhibitors of Zika virus infection and induced neural cell death via a drug repurposing screen A comprehensive human gastric cancer organoid biobank captures tumor subtype heterogeneity and enables therapeutic screening From pluripotency to differentiation: laying foundations for the body pattern in the mouse embryo In vitro differentiation of transplantable neural precursors from human embryonic stem cells Human intestinal tract serves as an alternative infection route for Middle East respiratory syndrome coronavirus High-content screening in HPSC-neural progenitors identifies drug candidates that inhibit Zika virus infection in fetal-like organoids and adult brain Differentiated human airway organoids to assess infectivity of emerging influenza virus Vertebrate endoderm development and organ formation keywords: adult; brain; cancer; cells; culture; development; disease; drug; embryonic; et al; formation; human; liver; model; mouse; organoids; self; stem; stem cells; structures; term; tissue; vitro cache: cord-305318-cont592g.txt plain text: cord-305318-cont592g.txt item: #309 of 435 id: cord-307133-bm9z8gss author: Kong, Lingcai title: Modeling Heterogeneity in Direct Infectious Disease Transmission in a Compartmental Model date: 2016-02-24 words: 4612 flesch: 44 summary: The mathematics of infectious diseases Mathematical models of infectious disease transmission Modeling Infectious Diseases in Humans and Animals Models of infectious diseases in spatially heterogeneous environments When individual behaviour matters: Homogeneous and network models in epidemiology Dynamical behavior of epidemiological models with nonlinear incidence rates Nonlinear transmission rates and the dynamics of infectious-disease Semi-empirical power-law scaling of new infection rate to model epidemic dynamics with inhomogeneous mixing The transmission dynamics of human immunodeficiency virus (HIV) Predicting the impact of measles vaccination in England and Wales: Model validation and analysis of policy options An age-structured model of pre-and post-vaccination measles transmission Networks and epidemic models Networks and the epidemiology of infectious disease An agent-based model to study the epidemiological and evolutionary dynamics of influenza viruses Modeling and simulation for the spread of H1N1 influenza in school using artificial societies An agent-based spatially explicit epidemiological model in MASON [21, 22] ) with infectious individuals of the i-th susceptible person per unit time. keywords: contact; disease; function; heterogeneity; individuals; model; transmission cache: cord-307133-bm9z8gss.txt plain text: cord-307133-bm9z8gss.txt item: #310 of 435 id: cord-307340-00m2g55u author: Gerasimov, A. title: Reaching collective immunity for COVID-19: an estimate with a heterogeneous model based on the data for Italy date: 2020-05-25 words: 2252 flesch: 41 summary: Coronavirus disease 2019 (COVID-19): situation report Immune responses in COVID-19 and potential vaccines: Lessons learned from SARS and MERS epidemic Preliminary identification of potential vaccine targets for the COVID-19 coronavirus (SARS-CoV-2) based on SARS-CoV immunological studies The COVID-19 vaccine development landscape Developing Covid-19 vaccines at pandemic speed Global dynamics of an SEIR epidemic model with vertical transmission Global dynamics of an SEIR epidemic model with saturating contact rate Herd immunity-estimating the level required to halt the COVID-19 epidemics in affected countries Herd immunity: a rough guide Herd immunity and herd effect: new insights and definitions Predicting the ultimate outcome of the COVID-19 outbreak in Italy A phased lift of control: a practical strategy to achieve herd immunity against Covid-19 at the country level Clinical features of COVID-19 in elderly patients: A comparison with young and middle-aged patients Are children less susceptible to COVID-19 A contribution to the mathematical theory of epidemics Sequential Lifting of COVID-19 Interventions with Population Heterogeneity Restarting the economy while saving lives under Covid-19 Comparison of different exit scenarios from the lock-down for COVID-19 epidemic in the UK and assessing uncertainty of the predictions Heterogeneous social interactions and the COVID-19 lockdown outcome in a multi-group SEIR model Early dynamics of transmission and control of COVID-19: a mathematical modelling study. Because of the high heterogeneity of COVID-19 infection risk across the different age groups, with a higher susceptibility for the elderly, homogeneous models overestimate the level of collective immunity needed for the disease to stop spreading. keywords: covid-19; epidemic; immunity; model cache: cord-307340-00m2g55u.txt plain text: cord-307340-00m2g55u.txt item: #311 of 435 id: cord-308115-bjyr6ehq author: Baba, Isa Abdullah title: Fractional Order Model for the Role of Mild Cases in the Transmission of COVID-19 date: 2020-10-20 words: 2395 flesch: 32 summary: Cantor's Paradise A survey on existence result for boundary value problem of nonlinear fractional differential equations The Analysis of fractional differential equations: an application-oriented exposition using differential operators of Caputo type stability and dynamics of a fractional order Leslie-Gower model Fractional Differential Equations Stability analysis of fractional differential system with Rieman-Liouville derivative Differential Equations: An Introduction to Differential Equations, creative commons, 94105 Differential Equation of Fractional Order: Methods, Results and Problems stability result for fractional differential equations with application to control processing Stability analysis of Caputo fractional-order nonlinear systems revisited Lyapunov function for fractional; order systems Volterra type Lyapunov function for fractional order epidemic model Analysis of Caputo fractional-order model for COVID-19 with lockdown Analysis of meningitis model: A case study of northern Nigeria Mathematical modeling for adsorption process of dye removal nonlinear equation using power law and exponentially decaying kernels Modeling chickenpox disease with fractional derivatives: From Caputo to Atangana-Baleanu A new study on the mathematical modelling of human liver with Caputo-Fabrizio fractional derivative A mathematical model for COVID-19 transmission by using the Caputo fractional derivative Epidemiological and clinical characteristics of the COVID-19 epidemic in Brazil A fractional differential equation model for the COVID-19 transmission by using the Caputo-Fabrizio derivative On the mathematical model of Rabies by using the fractional Caputo-Fabrizio derivative A mathematical theoretical study of a particular system of Caputo-Fabrizio fractional differential equations for the Rubella disease model Analysis of the model of HIV-1 infection of CD4^{+} T-cell with a new approach of fractional derivative We write to declare our interest in publishing our work titled Fractional Order Model for the Role of Mild Cases in the Transmission of COVID-19 with the journal Chaos, Solitons and Fractals. Preprints (www.preprints.org) Stability behavior of mathematical model of MERS Corona virus spread in population a mathematical model for simulating the phased-based transmissibility of a novel coronavirus Estimating the reproductive number and the outbreak size of novel coronavirus (COVID-19) using mathematical model republic of Korea A conceptual model for the Coronavirus disease 2019 (COVID-19) outbreak in Wuhan, China with individual reaction and governmental action A mathematical for the novel Coronavirus epidemic in Wuhan What is fractional Calculus. keywords: cases; disease; infection; model; system; transmission cache: cord-308115-bjyr6ehq.txt plain text: cord-308115-bjyr6ehq.txt item: #312 of 435 id: cord-308219-97gor71p author: Elzeiny, Sami title: Stress Classification Using Photoplethysmogram-Based Spatial and Frequency Domain Images date: 2020-09-17 words: 5699 flesch: 45 summary: After that, spatial images were generated from the extracted matrices and converted to frequency domain images for stress classification models using deep convolutional neural networks. Images processing using frequency domain images can perform better than spatial domain images, provide more features, and reduce the computation time. keywords: classification; domain; domain images; frequency; frequency domain; images; models; spatial; stress cache: cord-308219-97gor71p.txt plain text: cord-308219-97gor71p.txt item: #313 of 435 id: cord-308302-5yns1hg9 author: Wu, Gang title: A prediction model of outcome of SARS-CoV-2 pneumonia based on laboratory findings date: 2020-08-20 words: 2969 flesch: 45 summary: The maximum relevance minimum redundancy (mRMR) algorithm and the least absolute shrinkage and selection operator logistic regression model were used for selection of laboratory features. There were 16 patients who did not have the entire group of laboratory features, thus their data were deleted from the dataset. keywords: features; laboratory; model; non; patients; pneumonia; sars cache: cord-308302-5yns1hg9.txt plain text: cord-308302-5yns1hg9.txt item: #314 of 435 id: cord-308652-i6q23olv author: Cobos-Sanchiz, David title: The Importance of Work-Related Events and Changes in Psychological Distress and Life Satisfaction amongst Young Workers in Spain: A Gender Analysis date: 2020-06-30 words: 7154 flesch: 41 summary: Although job satisfaction was independent from the men and women’s psychological distress when self-esteem and social support was included in the regression equation, greater job satisfaction was associated with greater life satisfaction for both men and women. Including the number of work-related events and changes that had taken place in the last year and job satisfaction in Model 2 produced a statistically significant increase in R 2 for men and women, with the Beta weights being statistically significant for both variables, and showing that greater life satisfaction was associated to greater job satisfaction and a lower number of work-related events and changes in the previous year. keywords: changes; distress; esteem; events; job; life; satisfaction; self; social; support; women; work cache: cord-308652-i6q23olv.txt plain text: cord-308652-i6q23olv.txt item: #315 of 435 id: cord-309010-tmfm5u5h author: Dietert, Kristina title: Spectrum of pathogen- and model-specific histopathologies in mouse models of acute pneumonia date: 2017-11-20 words: 7851 flesch: 26 summary: https://doi.org/10.1371/journal.pone.0188251.g010 Comparative histopathology of mouse models of acute pneumonia semiquantification of mouse pneumonia is inconceivable. Murine acute lung infection models mirror human pathologies in many aspects and contribute to our understanding of the disease and the development of novel treatment strategies. keywords: + +; acute; alveolar; cov; fig; iav; infection; lesions; lung; mers; mice; model; mouse; pathogen; pneumonia cache: cord-309010-tmfm5u5h.txt plain text: cord-309010-tmfm5u5h.txt item: #316 of 435 id: cord-309096-vwbpkpxd author: Magdon-Ismail, Malik title: Machine Learning the Phenomenology of COVID-19 From Early Infection Dynamics date: 2020-03-20 words: 4884 flesch: 63 summary: By optimizing over k, M 0 , we obtain an optimal fit to the training data ( Figure 2 ) using model parameters: Again, the deep-blue is an equivalence class of optimal models. keywords: data; infection; license; model; preprint cache: cord-309096-vwbpkpxd.txt plain text: cord-309096-vwbpkpxd.txt item: #317 of 435 id: cord-309301-ai84el0j author: Li, Yaqi title: Organoid based personalized medicine: from bench to bedside date: 2020-11-02 words: 17488 flesch: 31 summary: The cytosolic bacterial peptidoglycan sensor Nod2 affords stem cell protection and links microbes to gut epithelial regeneration Organoid Models of Human Liver Cancers Derived from Tumor Needle Biopsies Clevers H Wnt/β-Catenin Signaling, Disease, and Emerging Therapeutic Modalities TP53 mutations in human cancers: origins, consequences, and clinical use Patient-derived organoids can predict response to chemotherapy in metastatic colorectal cancer patients Sustained in vitro intestinal epithelial culture within a Wnt-dependent stem cell niche In VitroPersonalized and Cancer Models to Guide Precision Medicine Personalized In Vitro and In Vivo Cancer Models to Guide Precision Medicine Inflammatory Cytokine TNFα Promotes the Long-Term Expansion of Primary Hepatocytes in 3D Respiratory syncytial virus can infect basal cells and alter human airway epithelial differentiation Brain-Region-Specific Organoids Using Mini-bioreactors for Modeling ZIKV Exposure Sliced human cortical organoids for modeling distinct cortical layer formation Estes MK Epidemiology of human noroviruses and updates on vaccine development Jiang P Single Lgr5-or Lgr6-expressing taste stem/progenitor cells generate taste bud cells ex vivo Genome-Scale CRISPR screening in human intestinal organoids identifies drivers of TGF-β Resistance Enhancer reprogramming promotes pancreatic cancer metastasis Development and application of human adult stem or progenitor cell organoids In vivo genome editing and organoid transplantation models of colorectal cancer and metastasis Restifo NP Adoptive cell transfer as personalized immunotherapy for human cancer Organoid cultures for the analysis of cancer phenotypes A living biobank of breast cancer organoids captures disease heterogeneity Long-term expanding human airway organoids for disease modeling Establishment of patient-derived organoids and drug screening for biliary tract carcinoma Development of a functional thyroid model based on an organoid culture system Müller A Life in the human stomach: persistence strategies of the bacterial pathogen Helicobacter pylori Cholangiocytes derived from human induced pluripotent stem cells for disease modeling and drug validation Long-term expansion of epithelial organoids from human colon, adenoma, adenocarcinoma, and Barrett's epithelium Single Lgr5 stem cells build crypt-villus structures in vitro without a mesenchymal niche Salmonella manipulation of host signaling pathways provokes cellular transformation associated with gallbladder carcinoma A novel human gastric primary cell culture system for modelling Helicobacter pylori infection in vitro Farin HF 3D model for CAR-mediated cytotoxicity using patientderived colorectal cancer organoids Tubuloids derived from human adult kidney and urine for personalized disease modeling Molecular dissection of colorectal cancer in pre-clinical models identifies biomarkers predicting sensitivity to EGFR inhibitors Functional repair of CFTR by CRISPR/Cas9 in intestinal stem cell organoids of cystic fibrosis patients Human gastric cancer modelling using organoids Human pancreatic tumor organoids reveal loss of stem cell niche factor dependence during disease progression Recurrent R-spondin fusions in colon cancer Functional differentiation of alveolar type II epithelial cells in vitro: effects of cell shape, cell-matrix interactions and cellcell interactions Sato T Visualization and targeting of LGR5(+) human colon cancer stem cells Carcinoma of the gallbladder--is it a sequel of typhoid? For example, tumor organoids from colorectal cancer (CRC) can be selectively expanded upon withdrawal of Wnt3a and R-Spondin1. keywords: biobank; cancer; cas9; cells; cftr; colleagues; colon; crispr; culture; development; disease; drug; epithelial; et al; gastric; gene; human; infection; liver; method; model; modeling; mutations; organoids; patients; pdos; research; response; stem; stem cells; study; transplantation; tumor; types; virus; vitro; vivo cache: cord-309301-ai84el0j.txt plain text: cord-309301-ai84el0j.txt item: #318 of 435 id: cord-310406-5pvln91x author: Asbury, Thomas M title: Genome3D: A viewer-model framework for integrating and visualizing multi-scale epigenomic information within a three-dimensional genome date: 2010-09-02 words: 3016 flesch: 39 summary: Background A significant portion of genomic data that is currently being generated extends beyond traditional primary sequence information. To meet these challenges, Genome3D manipulates and displays genomic data at multiple resolutions. keywords: data; genome; genome3d; genomic; histone; information; model; resolution; structure cache: cord-310406-5pvln91x.txt plain text: cord-310406-5pvln91x.txt item: #319 of 435 id: cord-310844-7i92mk4x author: Hryhorowicz, Magdalena title: Application of Genetically Engineered Pigs in Biomedical Research date: 2020-06-19 words: 9041 flesch: 32 summary: Moreover, other carbohydrate xenoantigens present on pig cells but absent in humans have been identified and include Neu5Gc antigen (N-glycolylneuraminic acid) catalyzed by cytidine monophosphate-N-acetylneuraminic acid hydroxylase (CMAH) and the SDa antigen produced by beta-1,4-N-acetyl-galactosaminyltransferase 2 (β4GALNT2). In addition, it was demonstrated that the introduction of the HLA-E gene into the porcine genome may also protect pig cells from macrophage-mediated cytotoxicity [85] . keywords: animal; blood; cas9; cells; crispr; disease; expression; gene; genome; human; knock; model; mutations; pigs; porcine; production; protein; research; survival; system; transgenic; xenotransplantation cache: cord-310844-7i92mk4x.txt plain text: cord-310844-7i92mk4x.txt item: #320 of 435 id: cord-310863-jxbw8wl2 author: PRASAD, J. title: A data first approach to modelling Covid-19 date: 2020-05-26 words: 7181 flesch: 59 summary: In figure (9) we show the reconstruction for β(t), γ(t) and R(t)for Italy with SIR model and in figure (10) the same is shown for β(t), γ(t) and δ(t) in case of SIRD model. From Figure (5) we can conclude that different models can lead to the same amounts of flattening of the curve with a different choice of parameters so there is no preferred model for the suppression. keywords: author; covid-19; data; medrxiv; model; perpetuity; preprint; time cache: cord-310863-jxbw8wl2.txt plain text: cord-310863-jxbw8wl2.txt item: #321 of 435 id: cord-311086-i4e0rdxp author: Adekola, Hafeez Aderinsayo title: Mathematical modeling for infectious viral disease: The COVID‐19 perspective date: 2020-08-17 words: 3283 flesch: 31 summary: key: cord-311086-i4e0rdxp authors: Adekola, Hafeez Aderinsayo; Adekunle, Ibrahim Ayoade; Egberongbe, Haneefat Olabimpe; Onitilo, Sefiu Adekunle; Abdullahi, Idris Nasir title: Mathematical modeling for infectious viral disease: The COVID‐19 perspective date: 2020-08-17 journal: J Public Aff DOI: 10.1002/pa.2306 sha: doc_id: 311086 cord_uid: i4e0rdxp In this study, we examined various forms of mathematical models that are relevant for the containment, risk analysis, and features of COVID‐19. Mathematical models address the need for understanding the transmission dynamics and other significant factors of the disease that would aid policymakers to make accurate decisions and reduce the rate of transmission of the disease. keywords: covid-19; disease; model; population; transmission cache: cord-311086-i4e0rdxp.txt plain text: cord-311086-i4e0rdxp.txt item: #322 of 435 id: cord-311432-js84ruve author: Hossein Rashidi, T. title: Real-time time-series modelling for prediction of COVID-19 spread and intervention assessment date: 2020-04-29 words: 4239 flesch: 45 summary: The platform is backed up by advanced time series models to capture any possible non-linearity in the data which is enhanced by the capability of measuring the expected impact of preventive interventions such as social distancing and lockdowns. Yet, such models are often offline/static, require assumptions for the parametric formulation of the model and rely on multitude of initial parameters. keywords: cases; covid-19; data; interventions; model; time; transformation cache: cord-311432-js84ruve.txt plain text: cord-311432-js84ruve.txt item: #323 of 435 id: cord-311868-40bri19f author: Fattahi, A. title: A systemic approach to analyze integrated energy system modeling tools: A review of national models date: 2020-11-30 words: 12191 flesch: 36 summary: The revised Renewable energy Directive: Clean energy for all Europeans A review of computer tools for analysing the integration of renewable energy into various energy systems A review of energy system models A review of energy systems models in the UK: prevalent usage and categorisation A review of current challenges and trends in energy systems modeling Energy systems modeling for twenty-first century energy challenges Are decisions well supported for the energy transition? Only a limited number of energy system models was presented in this review, which is mainly due to limited time, resources, and access to modeling databases. keywords: capabilities; carbon; challenges; criteria; demand; electricity; energy; energy system; esms; flexibility; linking; modeling; models; options; policy; power; resolution; score; storage; system; technologies; transition cache: cord-311868-40bri19f.txt plain text: cord-311868-40bri19f.txt item: #324 of 435 id: cord-312366-8qg1fn8f author: Adiga, Aniruddha title: Mathematical Models for COVID-19 Pandemic: A Comparative Analysis date: 2020-10-30 words: 8804 flesch: 45 summary: Since the surveillance systems have relatively stabilized in recent weeks, the development of forecasting models has gained traction and several models are available in the literature. The mobility network is derived by combining commuter and airline networks, to model time spent per day by individuals of region (patch) keywords: covid-19; data; disease; epidemic; forecasting; forecasts; health; individual; interventions; mobility; models; number; pandemic; population; spread; time cache: cord-312366-8qg1fn8f.txt plain text: cord-312366-8qg1fn8f.txt item: #325 of 435 id: cord-312911-nqq87d0m author: Zou, D. title: Epidemic Model Guided Machine Learning for COVID-19 Forecasts in the United States date: 2020-05-25 words: 5038 flesch: 57 summary: Such epidemic models are quite useful in describing the dynamics of transmission and are well-suited for predicting the peak of active cases on the virus. One widely used method for modeling the spread of infectious disease is to use epidemic models such as Susceptible-Infected-Resistant (SIR) (Kermack and McKendrick, 1927) and Susceptible-Exposed-Infected-Removed (SEIR) (Hethcote, 2000) . keywords: cases; covid-19; data; epidemic; model; number cache: cord-312911-nqq87d0m.txt plain text: cord-312911-nqq87d0m.txt item: #326 of 435 id: cord-313046-3g2us5zh author: Taghizadeh, L. title: Uncertainty Quantification in Epidemiological Models for COVID-19 Pandemic date: 2020-06-03 words: 5186 flesch: 49 summary: https://doi.org/10.1101/2020.05.30.20117754 doi: medRxiv preprint Here, we aim to evaluate the logistic and SIR models for forecasting the COVID-19 outbreak by comparing the simulation results and the reported data. This paper is organized as follows: Section 2 presents the logistic and SIR epidemiological models and introduces their unknown parameters. keywords: austria; bayesian; data; measures; model; number; preprint; proposal cache: cord-313046-3g2us5zh.txt plain text: cord-313046-3g2us5zh.txt item: #327 of 435 id: cord-313279-15wii9nn author: Trevijano-Contador, Nuria title: Expanding the use of alternative models to investigate novel aspects of immunity to microbial pathogens date: 2014-05-15 words: 2122 flesch: 31 summary: The avian chorioallantoic membrane in ovo-a useful model for bacterial invasion assays Amoeba provide insight into the origin of virulence in pathogenic fungi Mycobacterium tuberculosis complex mycobacteria as amoeba-resistant organisms Microorganisms resistant to freeliving amoebae Caenorhabditis elegans, a model organism for investigating immunity Evolution of host innate defence: insights from Caenorhabditis elegans and primitive invertebrates elegans: model host and tool for antimicrobial drug discovery Of model hosts and man: using Caenorhabditis elegans, Drosophila melanogaster and Galleria mellonella as model hosts for infectious disease research Drosophila as a model system to unravel the layers of innate immunity to infection The dorsoventral regulatory gene cassette spätzle/Toll/cactus controls the potent antifungal response in Drosophila adults Genetics of immune recognition and response in Drosophila host defense Development of an insect model for the in vivo pathogenicity testing of yeasts Galleria mellonella as a model system for studying Listeria pathogenesis Galleria mellonella larvae as an infection model for group A streptococcus Brain infection and activation of neuronal repair mechanisms by the human pathogen Listeria monocytogenes in the lepidopteran model host Galleria mellonella Among vertebrates, two alternative different models are being used as infection models: zebra fish embryos and embryonated chicken eggs. keywords: eggs; immunity; infection; model; pathogens; virulence cache: cord-313279-15wii9nn.txt plain text: cord-313279-15wii9nn.txt item: #328 of 435 id: cord-315462-u2dj79yw author: Hewitt, Judith A. title: ACTIVating Resources for the COVID-19 Pandemic: In vivo Models for Vaccines and Therapeutics date: 2020-10-01 words: 8974 flesch: 35 summary: Ferrets are considered good models for respiratory diseases as the physiology of their lung and airways are close to humans and they have been used extensively to model disease caused by many respiratory viruses including influenza (Thangavel and Bouvier, 2014) , RSV (Stittelaar et al., 2016) and SARS-CoV (van den Brand et al., 2008) . It bears emphasizing that mouse models that are not available from public repositories or commercial vendors cannot be scaled effectively to meet the high demand for animals and supply the high throughput needs of the community. keywords: ace2; animal; biorxiv; cov-2; covid-19; disease; et al; hamsters; human; infection; macaques; mice; models; mouse; sars; studies; vaccines; virus cache: cord-315462-u2dj79yw.txt plain text: cord-315462-u2dj79yw.txt item: #329 of 435 id: cord-315685-ute3dxwu author: Ehaideb, Salleh N. title: Evidence of a wide gap between COVID-19 in humans and animal models: a systematic review date: 2020-10-06 words: 5553 flesch: 45 summary: key: cord-315685-ute3dxwu authors: Ehaideb, Salleh N.; Abdullah, Mashan L.; Abuyassin, Bisher; Bouchama, Abderrezak title: Evidence of a wide gap between COVID-19 in humans and animal models: a systematic review date: 2020-10-06 journal: Crit Care DOI: 10.1186/s13054-020-03304-8 sha: doc_id: 315685 cord_uid: ute3dxwu BACKGROUND: Animal models of COVID-19 have been rapidly reported after the start of the pandemic. Inclusion criteria were the establishment of animal models of COVID-19 as an endpoint. keywords: animal; cov-2; covid-19; human; lung; mice; models; response; sars; studies; virus cache: cord-315685-ute3dxwu.txt plain text: cord-315685-ute3dxwu.txt item: #330 of 435 id: cord-316393-ozl28ztz author: Enrique Amaro, José title: Global analysis of the COVID-19 pandemic using simple epidemiological models date: 2020-10-22 words: 5299 flesch: 51 summary: Discussion: the Kermack-McKendrick epidemic threshold theorem Stability analysis of SIR model with vaccination Seasonality and the effectiveness of mass vaccination Application of SIR epidemiological model: new trends Epidemic disease in England -the evidence of variability and of persistency of type Report on the Prevention of Malaria in Mauritius An application of the theory of probabilities to the study of a priori pathometry. Similar models are available keywords: d model; data; deaths; model; pandemic; parameters; sir; time cache: cord-316393-ozl28ztz.txt plain text: cord-316393-ozl28ztz.txt item: #331 of 435 id: cord-317643-pk8cabxj author: Masud, Mehedi title: Convolutional neural network-based models for diagnosis of breast cancer date: 2020-10-09 words: 4152 flesch: 49 summary: Hence, researchers are now focusing on leveraging the transfer learning approach using pre-trained models as feature extractors that are trained over millions of different images. Transfer learning techniques using pre-trained models have shown promising results in different medical diagnosis, such as chest X-ray image analysis for pneumonia and COVID-19 patients' identification keywords: breast; custom; dataset; images; learning; malignant; model; neural; pre cache: cord-317643-pk8cabxj.txt plain text: cord-317643-pk8cabxj.txt item: #332 of 435 id: cord-317993-012hx4kc author: Movia, Dania title: Preclinical Development of Orally Inhaled Drugs (OIDs)—Are Animal Models Predictive or Shall We Move Towards In Vitro Non-Animal Models? date: 2020-07-24 words: 6888 flesch: 35 summary: The so-called lung-on-chip is a microfluidic-based in vitro system in which lung epithelial cells are grown on one side of a membrane, and stromal cells on the other surface. Semin Heuze-Vourc'h, N. Innovative preclinical models for pulmonary drug delivery research Options for modeling the respiratory system: Inserts, scaffolds and microfluidic chips A biphasic chamber system for maintaining polarity of differentiation of cultured respiratory tract epithelial cells Adapting the Electrospinning Process to Provide Three Unique Environments for a Tri-layered In Vitro Model of the Airway Wall Use of porous membranes in tissue barrier and co-culture models A novel electrospun biphasic scaffold provides optimal three-dimensional topography for in vitro co-culture of airway epithelial and fibroblast cells Intermittent exposure to whole cigarette smoke alters the differentiation of primary small airway epithelial cells in the air-liquid interface culture ALI multilayered co-cultures mimic biochemical mechanisms of the cancer cell-fibroblast cross-talk involved in NSCLC MultiDrug Resistance Multilayered Cultures of NSCLC cells grown at the Air-Liquid Interface allow the efficacy testing of inhaled anti-cancer drugs Antibacterial Defense of Human Airway Epithelial Cells from Chronic Obstructive Pulmonary Disease Patients Induced by Acute Exposure to Nontypeable Haemophilus influenzae: Modulation by Cigarette Smoke Altered generation of ciliated cells in chronic obstructive pulmonary disease Primary epithelial cell models for cystic fibrosis research Asthmatic bronchial epithelial cells have a deficient innate immune response to infection with rhinovirus Regeneration of the lung: Lung stem cells and the development of lung mimicking devices In vitro generation of human pluripotent stem cell derived lung organoids A three-dimensional model of human lung development and disease from pluripotent stem cells Modelling Cryptosporidium infection in human small intestinal and lung organoids Use of three-dimensional organoids and lung-on-a-chip methods to study lung development, regeneration and disease Organoids as a Powerful Model for Respiratory Diseases Lung-On-A-Chip Technologies for Disease Modeling and Drug Development Reconstituting organ-level lung functions on a chip A human breathing lung-on-a-chip A human disease model of drug toxicity-induced pulmonary edema in a lung-on-a-chip microdevice A lung/liver-on-a-chip platform for acute and chronic toxicity studies A 3D human lung-on-a-chip model for nanotoxicity testing Multiorgan microfluidic platform with breathable lung chamber for inhalation or intravenous drug screening and development Microphysiological lung models to evaluate the safety of new pharmaceutical modalities: A biopharmaceutical perspective Impaired Wound Healing of Alveolar Lung Epithelial Cells in a Breathing Lung-On-A-Chip Human organs-on-chips as tools for repurposing approved drugs as potential influenza and COVID19 therapeutics in viral pandemics Biomimetic human lung-on-a-chip for modeling disease investigation Small airway-on-a-chip enables analysis of human lung inflammation and drug responses in vitro Human Organ Chip Models Recapitulate Orthotopic Lung Cancer Growth, Therapeutic Responses, and Tumor Dormancy In Vitro Microengineered cancer-on-a-chip platforms to study the metastatic microenvironment Bridging the Gap Between Science and Clinical Efficacy: Physiology, Imaging, and Modeling of Aerosols in the Lung Modeling the lung: keywords: animal; cell; chip; delivery; development; disease; drug; human; inhalation; lung; models; oid; oids; studies; vitro cache: cord-317993-012hx4kc.txt plain text: cord-317993-012hx4kc.txt item: #333 of 435 id: cord-318079-jvx1rh7g author: Hinch, R. title: OpenABM-Covid19 - an agent-based model for non-pharmaceutical interventions against COVID-19 including contact tracing date: 2020-09-22 words: 5365 flesch: 43 summary: We therefore took the decision to model interactions using three social networks (household/occupational/random) with non-pharmaceutical interventions affecting each network differently. Modelling contact tracing requires the model to keep a record of previous interventions for a set number of days. keywords: age; contact; household; individuals; interactions; model; networks; number; symptoms cache: cord-318079-jvx1rh7g.txt plain text: cord-318079-jvx1rh7g.txt item: #334 of 435 id: cord-318187-c59c9vi3 author: Basu, Saikat title: Numerical evaluation of spray position for improved nasal drug delivery date: 2020-06-29 words: 7860 flesch: 37 summary: This project has generated both simulated and experimental, quantitative, de-identified data on the regional deposition of aerosolized nasal medication in the form of nasal spray droplets in the sinonasal passages. In this study, we have identified a new usage strategy for nasal sprays available over-the-counter, that registers an average 8-fold improvement in topical delivery of drugs at diseased sites, when compared to prevalent spray techniques. keywords: airflow; airway; data; delivery; deposition; droplet; drug; los; models; nasal; numerical; spray; study; test; transport; use cache: cord-318187-c59c9vi3.txt plain text: cord-318187-c59c9vi3.txt item: #335 of 435 id: cord-318562-jif88gof author: Jiménez-Liso, Maria Rut title: Changing How We Teach Acid-Base Chemistry: A Proposal Grounded in Studies of the History and Nature of Science Education date: 2020-08-15 words: 9896 flesch: 37 summary: (Taton 1964) To link with chemical change models expressed by students and with school science models such as parts model described by Acher et al. (2007) and their pivotal ideas like transformations and conservation of parts To distinguish dilution (colour fading) and neutralization (Erduran 2007 These general arguments about teaching models can be exemplified in the case of acid/base models. keywords: acid; arrhenius; base; bronsted; chemistry; knowledge; learning; lowry; models; nos; science; students; teachers; teaching; theories; understanding cache: cord-318562-jif88gof.txt plain text: cord-318562-jif88gof.txt item: #336 of 435 id: cord-318900-dovu6kha author: Pitschel, T. title: SARS-Cov-2 proliferation: an analytical aggregate-level model date: 2020-08-22 words: 3844 flesch: 46 summary: It is maintained that (compared to elementary SIR models) the model is more faithfully representing real proliferation at the instantaneous level, leading to overall more plausible association of model parameters to physical transmission and recovery parameters. Though models for tracing the trajectory of infectious diseases exist, for example the intuitive SIR model [Ken56] which is formulated as a system of scalar differential equations, we believe that physically more realistic descriptions are possible, which, moreover, lead to increased accuracy of estimated parameters. keywords: individuals; infections; infectiousness; model; number; time cache: cord-318900-dovu6kha.txt plain text: cord-318900-dovu6kha.txt item: #337 of 435 id: cord-319291-6l688krc author: Hung, Chun-Min title: Alignment using genetic programming with causal trees for identification of protein functions date: 2006-09-01 words: 8947 flesch: 47 summary: Nonlinear Anal Theory Methods Appl DOI: 10.1016/j.na.2005.09.048 sha: doc_id: 319291 cord_uid: 6l688krc A hybrid evolutionary model is used to propose a hierarchical homology of protein sequences to identify protein functions systematically. Because some novel proteins might align without meaningful conserved domains, maximizing the score of sequence alignment is not the best criterion for predicting protein functions. keywords: causal; feature; function; genetic; model; moment; node; programming; protein; sequence; tree cache: cord-319291-6l688krc.txt plain text: cord-319291-6l688krc.txt item: #338 of 435 id: cord-319378-li77za5e author: Schroeder, Wheaton L. title: Protocol for Genome-Scale Reconstruction and Melanogenesis Analysis of Exophiala dermatitidis date: 2020-09-11 words: 15117 flesch: 53 summary: This step results in a list of reactions with stoichiometries in the same format used by model files such as iEde2091's model file. One database file -the database of reactions representing metabolic functionalities to use in the filling of metabolic gaps of the model using the OptFill method (the '3of4DB.txt' file is marked as this is what was used with the second draft Exophiala dermatitidis model). keywords: analysis; code; database; dermatitidis; dermatitidis model; draft; exophiala; exophiala dermatitidis; figure; file; genome; iede2091 model; metabolic; model; model file; optfill; protocol; reactions; solution; step cache: cord-319378-li77za5e.txt plain text: cord-319378-li77za5e.txt item: #339 of 435 id: cord-319436-mlitd45q author: Brinati, D. title: Detection of COVID-19 Infection from Routine Blood Exams with Machine Learning: a Feasibility Study date: 2020-04-25 words: 4607 flesch: 44 summary: This study demonstrated the feasibility and clinical soundness of using blood tests analysis and machine learning as an alternative to rRT-PCR for identifying COVID-19 positive patients. Moreover, we want to investigate the interpretability of our models further, by both having more clinicians validate the current Decision Tree, and possibly construct a more accurate one, so that clinicians can use it as a convenient decision aid to interpret blood tests in regard to COVID-19 suspect cases (even off-line). keywords: accuracy; blood; cases; covid-19; medrxiv; models; patients; preprint; sensitivity; test cache: cord-319436-mlitd45q.txt plain text: cord-319436-mlitd45q.txt item: #340 of 435 id: cord-319885-8qyavs7m author: Chan, Stephen title: Count regression models for COVID-19 date: 2021-02-01 words: 3366 flesch: 47 summary: The best fitting count regression model for modelling the number of new daily COVID-19 cases of all countries analysed was shown to be a negative binomial distribution with log link function. In particular, the UK and Vietnam have the largest and smallest slope estimates, respectively, hence the rate of increase in new daily COVID-19 cases with time is the highest for the UK and lowest for Vietnam. . keywords: cases; china; countries; covid-19; data; models; number cache: cord-319885-8qyavs7m.txt plain text: cord-319885-8qyavs7m.txt item: #341 of 435 id: cord-319933-yp9ofhi8 author: Ruiz, Sara I. title: Chapter 38 Animal Models of Human Viral Diseases date: 2013-12-31 words: 28862 flesch: 41 summary: Wild-type C57BL/6 adult mice are not permissive to chikungunya virus infection by intradermal inoculation. [Comparative Study Research Support Characterization of clinical and immune response in a rotavirus diarrhea model in suckling Lewis rats Development of a heterologous model in germfree suckling rats for studies of rotavirus diarrhea Studies of oral rehydration solutions in animal models Induction of mucosal immune responses and protection against enteric viruses: rotavirus infection of gnotobiotic pigs as a model Developmental immunity in the piglet Swine in biomedical research Neonatal calf diarrhea induced by rotavirus Characterisation of the primary local and systemic immune response in gnotobiotic lambs against rotavirus infection Experimental infection of non-human primates with a human rotavirus isolate Development of a rotavirus-shedding model in rhesus macaques, using a homologous wild-type rotavirus of a new P genotype Reflections on 30 years of AIDS HIVs and their replication The utility of the new generation of humanized mice to study HIV-1 infection: transmission, prevention, pathogenesis, and treatment Antiretroviral pre-exposure prophylaxis prevents vaginal transmission of HIV-1 in humanized BLT mice Hematopoietic stem cell-engrafted NOD/ SCID/IL2Rgamma null mice develop human lymphoid systems and induce long-lasting HIV-1 infection with specific humoral immune responses HIV-1 infection and CD4 T cell depletion in the humanized Rag2Ã�/Ã� gamma cÃ�/Ã� (RAG-hu) mouse model HIV-1 infection and pathogenesis in a novel humanized mouse model Induction of robust cellular and humoral virusspecific adaptive immune responses in human immunodeficiency virus-infected humanized BLT mice An aptamer-siRNA chimera suppresses HIV-1 viral loads and protects from helper CD4(þ) T cell decline in humanized mice Mucosal immunity and vaccines Low-dose rectal inoculation of rhesus macaques by SIVsmE660 or SIVmac251 recapitulates human mucosal infection by HIV-1 Propagation and dissemination of infection after vaginal transmission of simian immunodeficiency virus Limited dissemination of pathogenic SIV after vaginal challenge of rhesus monkeys immunized with a live Virulence and reduced fitness of simian immunodeficiency virus with the M184V mutation in reverse transcriptase SIV-induced impairment of neurovascular repair: a potential role for VEGF Therapeutic DNA vaccine induces broad T cell responses in the gut and sustained protection from viral rebound and AIDS in SIV-infected rhesus macaques A Nonfucosylated variant of the anti-HIV-1 monoclonal antibody b12 has enhanced FcgammaRIIIamediated antiviral activity in vitro but does not improve protection against mucosal SHIV challenge in macaques A trivalent recombinant Ad5 gag/pol/nef vaccine fails to protect rhesus macaques from infection or control virus replication after a limiting-dose heterologous SIV challenge Animal model for the therapy of acquired immunodeficiency syndrome with reverse transcriptase inhibitors Susceptibility of HIV-2, SIV and SHIV to various anti-HIV-1 compounds: implications for treatment and postexposure prophylaxis Use of a small molecule CCR5 inhibitor in macaques to treat simian immunodeficiency virus infection or prevent simian-human immunodeficiency virus infection SHIV-1157i and passaged progeny viruses encoding R5 HIV-1 clade C env cause AIDS in rhesus monkeys Update on animal models for HIV research Limited or no protection by weakly or nonneutralizing antibodies against vaginal SHIV challenge of macaques compared with a strongly neutralizing antibody Macaque studies of vaccine and microbicide combinations for preventing HIV-1 sexual transmission Vpx is Critical for SIVmne infection of pigtail macaques Impact of short-term HAART initiated during the chronic stage or shortly post-exposure on SIV infection of male genital organs The rhesus macaque pediatric SIV infection modeld a valuable tool in understanding infant HIV-1 pathogenesis and for designing pediatric HIV-1 prevention strategies Perinatal transmission of SHIV-SF162P3 in Macaca nemestrina Immune and genetic correlates of vaccine protection against mucosal infection by SIV in monkeys Chronic administration of tenofovir to rhesus macaques from infancy through adulthood and pregnancy: summary of pharmacokinetics and biological and virological effects Efficacy assessment of a cell-mediated immunity HIV-1 vaccine (the step study): a double-blind, randomised, placebo-controlled, test-of-concept trial Human papillomavirus in cervical cancer Human papillomavirus research: do we still need animal models? Animal models of papillomavirus pathogenesis Evidence of human papillomavirus vaccine effectiveness in reducing genital warts: an analysis of California public family planning administrative claims data The rabbit viral skin papillomas and carcinomas: a model for the immunogenetics of HPV-associated carcinogenesis Protection of beagle dogs from mucosal challenge with canine oral papillomavirus by immunization with recombinant adenoviruses expressing codon-optimized early genes Naturally occurring, nonregressing canine oral papillomavirus infection: host immunity, virus characterization, and experimental infection Regression of canine oral papillomas is associated with infiltration of CD4þ and CD8þ lymphocytes Characterization and experimental transmission of an oncogenic papillomavirus in female macaques A multimeric L2 vaccine for prevention of animal papillomavirus infections Preclinical development of highly effective and safe DNA vaccines directed against HPV 16 E6 and E7 US doctors investigate more than 50 possible cases of monkeypox Isolation of monkeypox virus from wild squirrel infected in nature Reemergence of monkeypox: prevalence, diagnostics, and countermeasures Human monkeypox infection: a family cluster in the midwestern United States Human monkeypox and other poxvirus infections of man The confirmation and maintenance of smallpox eradication Human monkeypox Identification of wild-derived inbred mouse strains highly susceptible to monkeypox virus infection for use as small animal models A prairie dog animal model of systemic orthopoxvirus disease using west African and Congo Basin strains of monkeypox virus Comparison of monkeypox viruses pathogenesis in mice by in vivo imaging Comparative pathology of North American and central African strains of monkeypox virus in a ground squirrel model of the disease Experimental infection of an African dormouse (Graphiurus kelleni) with monkeypox virus A mouse model of lethal infection for evaluating prophylactics and therapeutics against monkeypox virus Experimental infection of ground squirrels (Spermophilus tridecemlineatus) with monkeypox virus Experimental infection of prairie dogs with monkeypox virus Experimental infection of cynomolgus macaques (Macaca fascicularis) with aerosolized monkeypox virus The pathology of experimental aerosolized monkeypox virus infection in cynomolgus monkeys (Macaca fascicularis) Immunogenicity of a highly attenuated MVA smallpox vaccine and protection against monkeypox Smallpox vaccine does not protect macaques with AIDS from a lethal monkeypox virus challenge Smallpox vaccine-induced antibodies are necessary and sufficient for protection against monkeypox virus Virulence and pathophysiology of the Congo Basin and west African strains of monkeypox virus in non-human primates keywords: acute; animal; animal models; challenge; cynomolgus; days; dengue; develop; disease; encephalitis; encephalitis virus; experimental; fever; hepatitis; human; infected; infection; influenza; inoculation; liver; macaques; mice; model; monkeys; mortality; mouse; nhps; pathogenesis; pigs; rhesus; route; sars; signs; strains; studies; study; symptoms; transmission; vaccine; viral; viremia; virus; virus infection; viruses cache: cord-319933-yp9ofhi8.txt plain text: cord-319933-yp9ofhi8.txt item: #342 of 435 id: cord-320141-892v3b7m author: Boshra, Mina title: 3D printing in critical care: a narrative review date: 2020-09-30 words: 4538 flesch: 41 summary: The relative difference in critical care papers found between the three topics supports this theory with 52% of Med-Ed papers involving critical care versus 25% and 0% in CEM and patient care respectively. This modification was performed to include articles pertaining to the field of critical care but not necessarily by critical care physicians. keywords: 3dp; care; field; models; papers; patient; printing; simulation; studies; training cache: cord-320141-892v3b7m.txt plain text: cord-320141-892v3b7m.txt item: #343 of 435 id: cord-320666-cmqj8get author: Walach, H. title: What association do political interventions, environmental and health variables have with the number of Covid-19 cases and deaths? A linear modeling approach date: 2020-06-22 words: 7125 flesch: 52 summary: Method: We modelled the relationship of various predictors (health systems variables, population and population health indicators) together with variables indicating public health measures (school closures, border closures, country lockdown) in 40 European and other countries, using Generalized Linear Models and minimized information criteria to select the best fitting and most parsimonious models. The major findings of this modeling study using population data for 40 countries are clear, if surprising: Life-expectancy emerges as a stable positive predictor both for standardized cases of CoV2 infections, as well as for Covid-19 related deaths. keywords: cases; countries; data; deaths; health; license; model; number; population; predictor; preprint; variables cache: cord-320666-cmqj8get.txt plain text: cord-320666-cmqj8get.txt item: #344 of 435 id: cord-320914-zf54jfol author: Parrish, Rebecca title: A Critical Analysis of the Drivers of Human Migration Patterns in the Presence of Climate Change: A New Conceptual Model date: 2020-08-19 words: 9938 flesch: 40 summary: Existing conceptual models are useful in understanding the complexities of climate migration, but provide varying degrees of applicability to quantitative studies, resulting in non-homogenous transferability of knowledge in this important area. The field of climate migration has been gaining global scientific and popular attention since roughly the 1970s keywords: change; climate; climate change; drivers; factors; future; health; impacts; level; malawi; migration; model; studies; study; time; vulnerability cache: cord-320914-zf54jfol.txt plain text: cord-320914-zf54jfol.txt item: #345 of 435 id: cord-320953-1st77mvh author: Overton, ChristopherE. title: Using statistics and mathematical modelling to understand infectious disease outbreaks: COVID-19 as an example date: 2020-07-04 words: 15723 flesch: 44 summary: We also develop household models to investigate the impact of different intervention/control strategies. Although there is now a rich theoretical literature on households models [7, 8, 9] , the mainstream methodological tools in this research area present important limitations that make them not directly applicable to studying these control policies. keywords: adherence; care; cases; contact; data; epidemic; household; individual; infection; isolation; model; number; outbreak; period; rate; time cache: cord-320953-1st77mvh.txt plain text: cord-320953-1st77mvh.txt item: #346 of 435 id: cord-321715-bkfkmtld author: Redelings, Benjamin D title: Incorporating indel information into phylogeny estimation for rapidly emerging pathogens date: 2007-03-14 words: 9797 flesch: 50 summary: The order of sequence alignment can bias the selection of tree topology An evolutionary model for maximum likelihood alignment of DNA sequences Inching towards reality: an improved likelihood model of sequence evolution Joint Bayesian Estimation of Alignment and Phylogeny A codon-based model of nucleotide substitution for protein-coding DNA sequences Mathematical and Statistical Methods for Genetic Analysis Subtree Transfer Operations and their Induced Metrics on Evolutionary Trees Monte Carlo Strategies in Scientific Computing A Novel Use of Equilibrium Frequencies in Models of Sequence Evolution Dating of the human-ape splitting by a molecular clock of mitochondrial DNA Wain-Hobson S: Antigenic Stimulation by BGC vaccine as an in vivo driving force for SIV replication and dissemination Evolution of a Noncoding Region of the Chloroplast Genome Gaps as characters in sequencebased phylogenetic analyses Incorporating information from length-mutational events into phylogenetic analysis The evolution of the non-coding Chloroplast DNA and its application in Plant Systematics Indel patterns of the plastid DNA trnL-trnF region within the genus Poa (Poaceae) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice MUSCLE: multiple sequence alignment with high accuracy and high throughput We would like to thank Vladimir Minin for many helpful discussions. A major advantage of this symmetry is that it is clear how to construct alignment models on an unrooted tree and leads to greater simplicity in model implementation and, arguably, decreased computation time. keywords: alignment; branch; codon; data; distribution; indel; information; joint; length; model; number; sequence; set; tree cache: cord-321715-bkfkmtld.txt plain text: cord-321715-bkfkmtld.txt item: #347 of 435 id: cord-321735-c40m2o5l author: Manca, Davide title: A simplified math approach to predict ICU beds and mortality rate for hospital emergency planning under Covid-19 pandemic date: 2020-06-04 words: 7174 flesch: 46 summary: Finally, the first derivatives of the reverse logistic and Gompertz models are respectively: The models reported in Section 2.3 can be selected and used critically according to their performance and consistency with real data published daily in most countries. Last available real data on 30-Apr. Equally, the reverse logistic and reverse Gompertz models predict that for Italy the descent below the 10% threshold of ICU patients will occur on 25-May and 28-May respectively (i.e. 52 and 55 days after the maximum plateau, which is also at days 94 and 97 respectively). keywords: beds; data; icu; icu beds; maximum; models; number; pandemic; patients; phenomenon; plateau cache: cord-321735-c40m2o5l.txt plain text: cord-321735-c40m2o5l.txt item: #348 of 435 id: cord-321852-e7369brf author: Wang, Bo title: AI-assisted CT imaging analysis for COVID-19 screening: Building and deploying a medical AI system date: 2020-11-10 words: 6473 flesch: 48 summary: COVID-19 CT segmentation dataset [17] is also a publicly available dataset. In addition, training AI models requires a lot of samples. keywords: classification; covid-19; data; diagnosis; images; lung; model; net; patients; segmentation; system cache: cord-321852-e7369brf.txt plain text: cord-321852-e7369brf.txt item: #349 of 435 id: cord-321984-qjfkvu6n author: Tang, Lu title: A Review of Multi‐Compartment Infectious Disease Models date: 2020-08-03 words: 21860 flesch: 43 summary: Building sampling variations in infectious disease models makes a statistical modelling approach different from a mathematical modelling approach. Hence, statistical extensions are necessary to incorporate sampling uncertainty in estimation and inference for infectious disease models. keywords: .t/; analysis; compartment; covid-19; data; disease; dynamics; e.g.; epidemic; estimation; example; function; individuals; infection; model; modelling; number; population; prediction; rate; section; sir model; state; surveillance; system; time; time t; transmission cache: cord-321984-qjfkvu6n.txt plain text: cord-321984-qjfkvu6n.txt item: #350 of 435 id: cord-322577-5bboc1z0 author: Parola, Anna title: Mental Health Through the COVID-19 Quarantine: A Growth Curve Analysis on Italian Young Adults date: 2020-10-02 words: 6610 flesch: 38 summary: If, broadly, the results obtained confirmed the general detrimental effects of social isolation due to epidemics on young adults' mental health (Hawryluck et al., 2004; Tucci et al., 2017; Qiu et al., 2020; Wang et al., 2020) , some brief reflections need to be outlined about the specificities of young adults' condition. On the basis of recent literature on the general population, an increase in mental health problems among young adults during quarantine was hypothesized. keywords: adults; covid-19; et al; health; lockdown; model; participants; problems; psychological; scales; study cache: cord-322577-5bboc1z0.txt plain text: cord-322577-5bboc1z0.txt item: #351 of 435 id: cord-322806-g01wmmbx author: Sturniolo, S. title: Testing, tracing and isolation in compartmental models date: 2020-05-19 words: 9751 flesch: 49 summary: In addition, we store a contact matrix keeping track of which individuals have been in contact with which infectious members of the population, and an array of all those individuals for whom one past infectious contact has been identified, and thus they can be traced as potentially exposed individuals. Lecture Notes on Mathematical Modelling in the Life Sciences Some epidemiological models with delays Mathematical approaches for emerging and reemerging infectious diseases: an introduction Time delays in epidemic models The effect of integral conditions in certain equations modelling epidemics and population growth Solution of delay differential equations via a homotopy perturbation method Global stability of an SIR epidemic model with time delays Global asymptotic stability of an SIR epidemic model with distributed time delay Global behavior of an SEIRS epidemic model with time delays Global behavior and permanence of SIRS epidemic model with time delay Estimation for Discrete Time Branching Processes with Application to Epidemics Mathematical Modeling in Epidemiology A primer on stochastic epidemic models: Formulation, numerical simulation, and analysis. keywords: contact; disease; individuals; license; model; population; preprint; rate; seir; testing; tracing cache: cord-322806-g01wmmbx.txt plain text: cord-322806-g01wmmbx.txt item: #352 of 435 id: cord-323743-hr23ux58 author: Chen, Xiaofeng title: A diagnostic model for coronavirus disease 2019 (COVID-19) based on radiological semantic and clinical features: a multi-center study date: 2020-04-16 words: 4077 flesch: 42 summary: Comparison of clinical features between the two groups of patients with and without COVID-19 is reported in Table 2 . The prediction models based on (i) clinical features (C model), (ii) radiological features (R model), and (iii) the combination of clinical features and radiological features (CR model) were developed. keywords: clinical; covid-19; features; imaging; model; patients; pneumonia cache: cord-323743-hr23ux58.txt plain text: cord-323743-hr23ux58.txt item: #353 of 435 id: cord-324230-nu0pn2q8 author: Ardabili, S. F. title: COVID-19 Outbreak Prediction with Machine Learning date: 2020-04-22 words: 7339 flesch: 49 summary: Access to accurate outbreak prediction models is essential to obtain insights into the likely spread and consequences of infectious diseases. Governments and other legislative bodies rely on insights from prediction models to suggest new policies and to assess the effectiveness of the enforced policies [1] . keywords: algorithm; covid-19; data; learning; license; models; neural; number; outbreak; particle; prediction; preprint; time cache: cord-324230-nu0pn2q8.txt plain text: cord-324230-nu0pn2q8.txt item: #354 of 435 id: cord-324254-qikr9ryf author: Lyócsa, Štefan title: FX Market Volatility Modelling: Can we use low-frequency data? date: 2020-09-30 words: 5774 flesch: 51 summary: Among the individual range-based estimators, the Garman and Klass (1980) estimator leads to lower forecast errors compared to the forecast errors generated from volatility models based on the equally weighted average of the range-based estimators. In this paper, we compare the forecasting performance of several volatility models that use either low-or high-frequency volatility estimates or both. keywords: data; estimators; forecasts; frequency; frequency volatility; garch; models; volatility cache: cord-324254-qikr9ryf.txt plain text: cord-324254-qikr9ryf.txt item: #355 of 435 id: cord-324924-5f7b02yq author: Agarwal, A. title: A TRANSPARENT, OPEN-SOURCE SIRD MODEL FOR COVID19DEATH PROJECTIONS IN INDIA date: 2020-06-04 words: 4426 flesch: 60 summary: Simplicity: The model implements a four compartment SIRD based model where we vary reproduction number (R 0 ) with respect to the social distancing measures. Further, we assume that the data y t ∼ h(t; m) + N (0, σ 2 ), where h is the hypothesis (SIRD model), y t is the observed deaths on day t and y is the vector of observed deaths. keywords: data; death; distancing; model; number; preprint; time cache: cord-324924-5f7b02yq.txt plain text: cord-324924-5f7b02yq.txt item: #356 of 435 id: cord-325321-37kyd8ak author: Iftikhar, H. title: Forecasting daily COVID-19 confirmed, deaths and recovered cases using univariate time series models: A case of Pakistan study date: 2020-09-22 words: 2618 flesch: 49 summary: key: cord-325321-37kyd8ak authors: Iftikhar, H.; Iftikhar, M. title: Forecasting daily COVID-19 confirmed, deaths and recovered cases using univariate time series models: A case of Pakistan study date: 2020-09-22 journal: nan DOI: 10.1101/2020.09.20.20198150 sha: doc_id: 325321 cord_uid: 37kyd8ak The increasing confirmed cases and death counts of Coronavirus disease 2019 (COVID-19) in Pakistan has disturbed not only the health sector, but also all other sectors of the country. Furthermore, MA model outperformed the rest of all models for confirmed and deaths counts prediction, while ARMA is second best model. keywords: cases; covid-19; license; models; preprint; series cache: cord-325321-37kyd8ak.txt plain text: cord-325321-37kyd8ak.txt item: #357 of 435 id: cord-325738-c800ynvc author: Shi, Pengpeng title: SEIR Transmission dynamics model of 2019 nCoV coronavirus with considering the weak infectious ability and changes in latency duration date: 2020-02-20 words: 2701 flesch: 49 summary: Next, we can analyze the effect of different infectious ability of patients in latent period on model estimation. Therefore, the premise of carrying out dynamic model research on infectious disease transmission is sufficient. keywords: epidemic; infected; model; ncov; period cache: cord-325738-c800ynvc.txt plain text: cord-325738-c800ynvc.txt item: #358 of 435 id: cord-325862-rohhvq4h author: Zhang, Yong title: Applicability of time fractional derivative models for simulating the dynamics and mitigation scenarios of COVID-19 date: 2020-06-04 words: 5904 flesch: 41 summary: Other complex SEIR models were also applied to model COVID-19 spread, such as the one proposed by Tang et al. key: cord-325862-rohhvq4h authors: Zhang, Yong; Yu, Xiangnan; Sun, HongGuang; Tick, Geoffrey R.; Wei, Wei; Jin, Bin title: Applicability of time fractional derivative models for simulating the dynamics and mitigation scenarios of COVID-19 date: 2020-06-04 journal: Chaos Solitons Fractals DOI: 10.1016/j.chaos.2020.109959 sha: doc_id: 325862 cord_uid: rohhvq4h Fractional calculus provides a promising tool for modeling fractional dynamics in computational biology, and this study tests the applicability of fractional-derivative equations (FDEs) for modeling the dynamics and mitigation scenarios of the novel coronavirus for the first time. keywords: china; coronavirus; covid-19; fractional; model; number; people; rate; spread; time cache: cord-325862-rohhvq4h.txt plain text: cord-325862-rohhvq4h.txt item: #359 of 435 id: cord-326280-kjjljbl5 author: Abdo, Mohammed S. title: Existence theory and numerical analysis of three species prey–predator model under Mittag-Leffler power law date: 2020-05-27 words: 3523 flesch: 54 summary: The dynamical analysis of a prey-predator model with a refuge-stage structure prey population A fractional calculus approach to Rosenzweig-MacArthur predator-prey model and its solution An impulsively controlled three-species prey-predator model with stage structure and birth pulse for predator A hybrid predator-prey model with general functional responses under seasonal succession alternating between Gompertz and logistic growth Fractional Derivatives with Mittag-Leffler Kernel A study of behaviour for immune and tumor cells in immunogenetic tumour model with non-singular fractional derivative On a class of ordinary differential equations in the frame of Atangana-Baleanu fractional derivative Solution for fractional generalized Zakharov equations with Mittag-Leffler function Analysis of lakes pollution model with Mittag-Leffler kernel Modelling the spread of Ebola virus with Atangana-Baleanu fractional operators On a nonlinear fractional order model of dengue fever disease under Caputo-Fabrizio derivative Semi-analytical study of pine wilt disease model with convex rate under Caputo-Fabrizio fractional order derivative Study on Krasnoselskii's fixed point theorem for Caputo-Fabrizio fractional differential equations Hyers-Ulam stability and existence criteria for coupled fractional differential equations involving p-Laplacian operator On the existence of positive solutions for a non-autonomous fractional differential equation with integral boundary conditions Analysis of some generalized ABC-fractional logistic models Fractional logistic models in the frame of fractional operators generated by conformable derivatives A fractional-order epidemic model with time-delay and nonlinear incidence rate Discrete fractional differences with nonsingular discrete Mittag-Leffler kernels Basic Theory of Fractional Differential Equations Problems in Modern Mathematics A Collection of Mathematical Problems. Fractional calculus deals with differentiation and integration involving fractional order, which is advantageous over the ordinary integer order in the explanation of real-world problems, as also in the modeling of real phenomena due to characterization of memory and hereditary properties [10, 11] . keywords: derivative; fractional; model; predator; prey cache: cord-326280-kjjljbl5.txt plain text: cord-326280-kjjljbl5.txt item: #360 of 435 id: cord-326314-9ycht8gi author: Armstrong, Eve title: Identifying the measurements required to estimate rates of COVID-19 transmission, infection, and detection, using variational data assimilation date: 2020-11-02 words: 5091 flesch: 42 summary: We have endeavoured to illustrate the potential of SDA to systematically identify the specific measurements, temporal baseline of measurements, and degree of measurement accuracy, required to estimate unknown model parameters in a high-dimensional model designed to examine the complex problems that COVID-19 presents to hospitals. Other avenues for expansion are as follows: 1) define additional model parameters as unknowns to be estimated, including the fraction of patients hospitalized, the fraction who enter critical care, and the various timescales governing the reaction equations; 2) impose various constraints regarding the unknown time-varying quantities, particularly transmission rate K i (t), and identifying which forms permit a solution consistent with measurements; 3) examine model sensitivity to the initial numbers within each population; 4) examine model sensitivity to the temporal frequency of data sampling. keywords: cases; data; measurements; model; noise; parameter; state; time cache: cord-326314-9ycht8gi.txt plain text: cord-326314-9ycht8gi.txt item: #361 of 435 id: cord-326409-m3rgspxc author: Lai, Alvin C.K. title: Comparison of a new Eulerian model with a modified Lagrangian approach for particle distribution and deposition indoors date: 2007-03-24 words: 3569 flesch: 46 summary: Turbulent Flow: Analysis, Measurement and Prediction Methodology for determining the susceptibility of airborne microorganisms to irradiation by an upper-room UVGI system Using large eddy simulation to study particle motions in a room Effect of ventilation strategies on particle decay rates indoors: an experimental and modelling study Modeling particle distribution and deposition in indoor environments with a new drift-flux model Three-dimensional analysis of airflow and contaminant particle transport in a partitioned enclosure Characterization of infectious aerosols in health care facilities: an aid to effective engineering controls and preventive strategies Indoor pollutant mixing time in an isothermal closed room: an investigation using CFD Particle deposition with thermophoresis in laminar and turbulent duct flows Modelling of indoor environment-particle dispersion and deposition Modeling particle deposition and distribution in a chamber with a two-equation Reynoldsaveraged Navier-Stokes model Modeling indoor particle deposition from turbulent flow onto smooth surfaces Dispersion and deposition of spherical particles from point sources in a turbulent channel flow Role of air distribution in SARS transmission during the largest nosocomial outbreak in Hong Kong Modelling and measurement of airflow and aerosol particle distribution in a ventilated two-zone chamber A preliminary parametric study on performance of SARS virus cleaner using CFD simulation Accounting for nonuniform mixing and human exposure in indoor environments Transmission of infectious diseases during commercial air travel Improved numerical simulation of aerosol deposition in an idealized mouth-throat Diffusion characteristics of airborne particles with gravitational settling in a convection-dominant indoor flow field Toward understanding the risk of secondary airborne infection: emission of respirable pathogens Development of a numerical model to simulate the biological inactivation of airborne microorganisms in the presence of ultraviolet light Effects of room furnishings and air speed on particle deposition rates indoors Comparison of indoor aerosol particle concentration and deposition in different ventilated rooms by numerical method As observed in Fig. 4 , the original EIM without correction overpredicts particle deposition rate noticeably, particularly for 0.3 and 1 mm particles at the high ventilation rate. keywords: deposition; eulerian; lagrangian; model; particle; results; velocity cache: cord-326409-m3rgspxc.txt plain text: cord-326409-m3rgspxc.txt item: #362 of 435 id: cord-326540-1r4gm2d4 author: Liu, Yuliang title: Deep Learning-Based Method of Diagnosing Hyperlipidemia and Providing Diagnostic Markers Automatically date: 2020-03-11 words: 7093 flesch: 39 summary: Further, the above studies on the auxiliary diagnostic system show good performance in the test set, but do not provide the basis for model classification data. In this paper, we not only demonstrated the ability of the proposed model to automatically diagnose diseases using text-based medical data, such as physiological parameters, but also demonstrated its ability to forecast disease diagnostic markers. keywords: attention; data; deep; diagnosis; disease; hyperlipidemia; learning; markers; medical; model; parameters; performance cache: cord-326540-1r4gm2d4.txt plain text: cord-326540-1r4gm2d4.txt item: #363 of 435 id: cord-326831-dvg0isgt author: Muhammad, L. J. title: Predictive Data Mining Models for Novel Coronavirus (COVID-19) Infected Patients’ Recovery date: 2020-06-21 words: 2717 flesch: 44 summary: In this study, data mining models were developed for the prediction of COVID-19 infected patients’ recovery using epidemiological dataset of COVID-19 patients of South Korea. Data mining models are evaluated using evaluation techniques to determine their accuracy keywords: covid-19; data; dataset; mining; models; pandemic; patients cache: cord-326831-dvg0isgt.txt plain text: cord-326831-dvg0isgt.txt item: #364 of 435 id: cord-326908-l9wrrapv author: Duchêne, David A. title: Evaluating the Adequacy of Molecular Clock Models Using Posterior Predictive Simulations date: 2015-07-10 words: 7597 flesch: 42 summary: We describe a method that uses posterior predictive simulations to assess the adequacy of clock models. We also compare the performance of the multinomial test statistic, originally developed to assess the adequacy of substitution models, but find that it has low power in identifying the adequacy of clock models. keywords: branch; clock; clock model; data; model; posterior; predictive; substitution cache: cord-326908-l9wrrapv.txt plain text: cord-326908-l9wrrapv.txt item: #365 of 435 id: cord-327784-xet20fcw author: Rieke, Nicola title: The future of digital health with federated learning date: 2020-09-14 words: 5659 flesch: 34 summary: key: cord-327784-xet20fcw authors: Rieke, Nicola; Hancox, Jonny; Li, Wenqi; Milletarì, Fausto; Roth, Holger R.; Albarqouni, Shadi; Bakas, Spyridon; Galtier, Mathieu N.; Landman, Bennett A.; Maier-Hein, Klaus; Ourselin, Sébastien; Sheller, Micah; Summers, Ronald M.; Trask, Andrew; Xu, Daguang; Baust, Maximilian; Cardoso, M. Jorge title: The future of digital health with federated learning date: 2020-09-14 journal: NPJ Digit Med DOI: 10.1038/s41746-020-00323-1 sha: doc_id: 327784 cord_uid: xet20fcw Data-driven machine learning (ML) has emerged as a promising approach for building accurate and robust statistical models from medical data, which is collected in huge volumes by modern healthcare systems. Medical data is particularly diverse-not only because of the variety of modalities, dimensionality and characteristics in general, but even within a specific protocol due to factors such as acquisition differences, brand of the medical device or local demographics. keywords: access; data; deep; healthcare; information; institutions; learning; model; peer; privacy; research; training cache: cord-327784-xet20fcw.txt plain text: cord-327784-xet20fcw.txt item: #366 of 435 id: cord-328181-b2o05j3j author: Nunez-Corrales, S. title: The Epidemiology Workbench: a Tool for Communities to Strategize in Response to COVID-19 and other Infectious Diseases date: 2020-07-25 words: 11460 flesch: 42 summary: 3 Building a multi-objective model for COVID-19: the agent-based route Based on the discussion above, our current research efforts have focused on the development of an integrated simulation model capable of a) accurately reflecting known dynamics of the current pandemic and the qualitative results of other models, b) simulating data-driven stochastic heterogeneity across agent populations to more realistically reflect the variability of underlying human populations when the model is applied, c) integrating economic considerations in association with observable features of the pandemic, d) allowing detailed simulation of known public policy measures at different times, intensities and dates, and e) providing a simple interface for non-expert users to configure and interpret. an agent-based simulation model towards the definition of strategies for covid-19 second phase Demographic science aids in understanding the spread and fatality rates of covid-19 Model transparency and validation: a report of the ISPOR-SMDM Modeling Good Research Practices Task Force-7 Fair allocation of scarce medical resources in the time of covid-19 The effectiveness of moral messages on public health behavioral intentions during the covid-19 pandemic Impact of non-pharmaceutical interventions (npis) to reduce covid19 mortality and healthcare demand The global community needs to swiftly ramp up the response to contain covid-19 Asymptomatic transmission, the achilles' heel of current strategies to control covid-19 Social protection and jobs responses to covid-19: a real-time review of country measures Us city-size distribution and space Ethics, information technology, and public health: duties and challenges in computational epidemiology Face masks for the public during the covid-19 crisis Optimal quarantine strategies for covid-19 control models Spread of sars-cov-2 in the icelandic population Variation in government responses to covid-19 Modeling targeted layered containment of an influenza pandemic in the united states Ecological pricing and economic efficiency Combining behavioral economics and infectious disease epidemiology to mitigate the covid-19 outbreak Temporal dynamics in viral shedding and transmissibility of covid-19 Wicked problems in public policy keywords: agents; asymptomatic; covid-19; disease; health; impact; july; license; measures; medrxiv; model; perpetuity; population; preprint; public; simulation; sir; testing; time; value cache: cord-328181-b2o05j3j.txt plain text: cord-328181-b2o05j3j.txt item: #367 of 435 id: cord-329256-7njgmdd1 author: Leecaster, Molly title: Modeling the variations in pediatric respiratory syncytial virus seasonal epidemics date: 2011-04-21 words: 4540 flesch: 45 summary: The conclusions were that exponential growth was somewhat empirically related to seasonal epidemic characteristics and that variation in epidemic start date as well as the transmission parameter over epidemic years could explain variation in seasonal epidemic size. Three parameters associated with variation across epidemic years were estimated: 1) the temporal offset of the epidemic cycle (α), 2) detection fraction (f), and 3) transmission parameter (β). keywords: children; data; epidemic; model; parameter; rsv; size; transmission; years cache: cord-329256-7njgmdd1.txt plain text: cord-329256-7njgmdd1.txt item: #368 of 435 id: cord-329276-tfrjw743 author: Ledzewicz, Urszula title: On the Role of the Objective in the Optimization of Compartmental Models for Biomedical Therapies date: 2020-09-30 words: 12524 flesch: 45 summary: In this paper, which is intended as a review and discussion, using mathematical models for cancer treatments as the main vehicle of presentation, we discuss the main aspects that enter into the modeling of biomedical problems as optimal control problems. Mathématiques and Applications Introduction to the Mathematical Theory of Control Geometric Optimal Control Sufficient conditions for strong local optimality in optimal control problems with L 2 -type objectives and control constraints A model for cancer chemotherapy with state space constraints A local field of extremals for optimal control problems with state constraints of relative degree 1 Optimal response to chemotherapy for a mathematical model of tumor-immune dynamics Optimal controls for a mathematical model of tumor-immune interactions under targeted chemotherapy with immune boost Less is more, regularly: metronomic dosing of cytotoxic drugs can target tumor angiogenesis in mice Perspective on more is not necessarily bette: metronomic chemotherapy Optimal combined radio-and antiangiogenic cancer therapy Optimal and suboptimal protocols for a mathematical model for tumor anti-angiogenesis in combination with chemotherapy Minimizing tumor volume for a mathematical model of anti-angiogenesis with linear pharmacokinetics Singular controls and chattering arcs in optimal control problems arising in biomedicine On the role of pharmacometrics in mathematical models for cancer treatments On optimal chemotherapy with a stongly targeted agent for a model of tumor-immune system interactions with generalized logistic growth Direct trajectory optimization and costate estimation via an orthogonal collocation method The Chebyshev-Legendre collocation method for a class of optimal control problems Zero-propellant maneuver guidance User's Manual for GPOPS: keywords: cancer; chemotherapy; control; dose; model; objective; optimal; point; problem; state; system; term; time; tumor cache: cord-329276-tfrjw743.txt plain text: cord-329276-tfrjw743.txt item: #369 of 435 id: cord-329534-deoyowto author: McBryde, Emma S. title: Role of modelling in COVID-19 policy development date: 2020-06-18 words: 3145 flesch: 33 summary: Economic evaluation and policies have combined epidemic models and traditional economic models to address the economic consequences of COVID-19, which have informed policy calls for easing restrictions. Economic evaluation and policies have combined epidemic models and traditional economic models to address the economic consequences of COVID-19, which have informed policy calls for easing restrictions. keywords: countries; covid-19; epidemic; impact; modelling; models; pandemic; policy cache: cord-329534-deoyowto.txt plain text: cord-329534-deoyowto.txt item: #370 of 435 id: cord-330148-yltc6wpv author: Lessler, Justin title: Trends in the Mechanistic and Dynamic Modeling of Infectious Diseases date: 2016-07-02 words: 5914 flesch: 30 summary: Infectious disease models are being given a firmer empirical footing, while the use of generative mechanistic approaches allows us to use models as tools for forecasting, strategic planning, and other activities in ways that would not be possible with models that do not represent the underlying dynamic epidemiologic processes. Similarly, ensemblebased climate models have been incorporated with infectious disease models to forecast climate-related disease including plague and malaria keywords: approaches; data; disease; dynamics; ebola; epidemic; health; influenza; methods; models; number; population; time; transmission cache: cord-330148-yltc6wpv.txt plain text: cord-330148-yltc6wpv.txt item: #371 of 435 id: cord-330474-c6eq1djd author: Fox, J title: Rapid translation of clinical guidelines into executable knowledge: a case study of COVID‐19 and on‐line demonstration date: 2020-06-18 words: 3324 flesch: 41 summary: Reusability of the data and knowledge models at different points in the care journey The escalation decision in the reference model was initially used in a self-triage pathway and reused in the residential care triage pathway of Pathfinder 1, but was replaced with three different decisions in the GP consultation pathway in light of clinical comments and new published guidance. As explained above the main goal of the Polyphony project is to develop a reference data and knowledge model, not to deploy the model directly but to be a resource for others to use in developing clinical services. keywords: care; covid-19; data; decision; knowledge; model; pathfinder; patient; proforma cache: cord-330474-c6eq1djd.txt plain text: cord-330474-c6eq1djd.txt item: #372 of 435 id: cord-330596-p4k7jexz author: Hu, Ji title: An integrated classification model for incremental learning date: 2020-10-21 words: 4520 flesch: 48 summary: In summary, batch learning algorithms cannot solve the problem of incremental data learning, and existing online learning algorithms are faced with problems involving sample noise and low classification accuracy. In recent years, the emergence of a large amount of data has exceeded the size of memory, and online learning algorithms have attracted attention in the field of machine learning. keywords: algorithm; classification; classifier; data; learning; model; online; training cache: cord-330596-p4k7jexz.txt plain text: cord-330596-p4k7jexz.txt item: #373 of 435 id: cord-330668-7aw17jf8 author: Chen, Cheng-Chang title: ORF8a of SARS-CoV forms an ion channel: Experiments and molecular dynamics simulations date: 2011-02-28 words: 4813 flesch: 53 summary: The role played by lipids unsaturation upon the membrane interaction of the Heliobacter pylori HP(2-20) antimicrobial peptide analogue HPA3 Identification of an ion channel activity of the Vpu transmembrane domain and its involvement in the regulation of virus release from HIV-1-infected cells The Vpu protein of human immunodeficiency virus type 1 forms cation-selective ion channels Cation-selective ion channels formed by p7 of hepatitis C virus are blocked by hexamethylene amiloride Activation-dependent subconductance levels in the drk1 K channel suggest a subunit basis for ion permeation and gating Accurate bond and angle parameter for X-ray proteinstructure refinement Molecular dynamics simulations of the ErbB-2 transmembrane domain within an explicite membrane environment: comparison with vacuum simulations Mapping the energy surface of transmembrane helixhelix interactions Experimentally based orientational refinement of membrane protein models: a structure for the influenza A M2 H + channel The structure of the HIV-1 Vpu ion channel: modelling and simulation studies Membrane assembly of simple helix homo-oligomers studied via molecular dynamics simulations Side-chain contributions to membrane protein structure and stability Solving the membrane protein folding problem Bundles consisting of extended transmembrane segments of Vpu from HIV-1: computer simulations and conductance measurements Viral channel forming proteins (VCPs) participate in several viral functions. keywords: bundle; channel; fig; helix; ion; lipid; membrane; models; pore; protein; residues; structure cache: cord-330668-7aw17jf8.txt plain text: cord-330668-7aw17jf8.txt item: #374 of 435 id: cord-330714-hhvap8ts author: Shah, Kamal title: Fractal-Fractional Mathematical Model Addressing the Situation of Corona Virus in Pakistan date: 2020-11-12 words: 4540 flesch: 50 summary: The approximate Noether symmetries and approximate first integrals for the approximate Hamiltonian systems Analysis of the fractional diffusion equations with fractional derivative ofnon-singular kernel Fractional operators with exponential kernels and a Lyapunov type inequality Atangana-Baleanu fractional framework of reproducing kernel technique in solving fractional population dynamics system Existence theory and numerical solutions to smoking model under Caputo-Fabrizio fractional derivative Modeling the dynamics of novel coronavirus (2019-nCov) with fractional derivative Analysis coronavirus disease (COVID-19) model using numerical approaches and logistic model Can transfer function and bode diagram be obtained from sumudu transform Numerical solution of fractional order smoking model via Laplace Adomian decomposition method Numerical analysis of fractional order model of HIV-1 infection of CD4+ T-cells A First Course in the Numerical Analysis of Differential Equations Numerical Methods for Ordinary Differential Equations Electromagnetic waves described by a fractional derivative of variable and constant order with non-singular kernel Discrete fractional differences with nonsingular discrete Mittag-Leffler kernels Krasnoselskii N-tupled fixed point theorem with applications to fractional nonlinear dynamical system Well-posedness and fractals via fixed point theory, Fixed Point Theory and Applications A common fixed point theorem in metric spaces, Fixed Point Theory and Applications Fixed point theory for contractive mappings satisfying maps in metric spaces Current Update in Pakistan About COVID-19, on 16 High Contagiousness and Rapid Spread of Severe Acute Respiratory Syndrome Coronavirus 2 There exist no competing interest regarding this manuscript. Part I: Fractional models for biological reactions An Introduction to the Fractional Calculus and Fractional Differential Equations Theory and Application of Fractional Differential Equations On solutions of fractional differential equations Modelling and analysis of fractal-fractional partial differential equations: Application to reaction-diffusion model On a nonlinear fractional order model of dengue fever disease under Caputo-Fabrizio derivative Solution of the epidemic model by Adomian decomposition method Solution of the epidemic model by homotopy perturbation method Variational iteration method for solving the epidemic model and the prey and predator problem A conceptual model for the coronavirus disease 2019 (COVID-19) outbreak in Wuhan, China with individual reaction and governmental action keywords: derivative; fractal; model; order; solution; transmission cache: cord-330714-hhvap8ts.txt plain text: cord-330714-hhvap8ts.txt item: #375 of 435 id: cord-330978-f3uednt5 author: Wang, Yi title: Effect of time delay on pattern dynamics in a spatial epidemic model date: 2014-10-15 words: 4885 flesch: 49 summary: However, the effect of time delay on spatial epidemic models is not well understood. In Section 3, we summarize the dynamics of spatial epidemic model without time delay. keywords: delay; diffusion; epidemic; model; pattern; system; time; turing cache: cord-330978-f3uednt5.txt plain text: cord-330978-f3uednt5.txt item: #376 of 435 id: cord-331374-3gau0vmc author: Giorgi, Gabriele title: Expatriates’ Multiple Fears, from Terrorism to Working Conditions: Development of a Model date: 2016-10-13 words: 7417 flesch: 37 summary: The purpose of this paper is to examine the relationships between the emergent concept of fear of expatriation with further workplace fears (economic crisis and dangerous working conditions) and with mental health problems. In particular, we aimed to find out how the emergence of fear of expatriation, induced by mental health problems, might impact on the expatriate's further fears in the workplace, using data from a survey of 265 Italian expatriate workers. keywords: conditions; et al; expatriates; expatriation; fear; health; model; problems; stress; study; working cache: cord-331374-3gau0vmc.txt plain text: cord-331374-3gau0vmc.txt item: #377 of 435 id: cord-331376-l0o1weus author: Pogwizd, Steven M. title: Rabbit models of heart disease date: 2009-03-17 words: 5851 flesch: 29 summary: Drug therapy with different pharmacologic agents as therapy for HF has been used in a wide range of rabbit heart models -primarily in infarct and combined pressure and volume overload models, but to some degree in pacinginduced and adriamycin-induced HF. Although constrained by space, we attempt to provide an overview of the range of rabbit heart disease models used, along with some of their methods, advantages, limitations and potential (see Table 1 ). keywords: cardiac; chronic; disease; failure; function; heart; human; models; rabbit; studies; ventricular cache: cord-331376-l0o1weus.txt plain text: cord-331376-l0o1weus.txt item: #378 of 435 id: cord-331646-j5mkparg author: Sze To, G. N. title: Review and comparison between the Wells–Riley and dose‐response approaches to risk assessment of infectious respiratory diseases date: 2009-07-31 words: 11061 flesch: 41 summary: This review serves as a reference for further development of infection risk assessment models of respiratory diseases. Infection risk assessment models should be based on theories and mathematical equations that are biologically plausible or conformable to clinical or laboratorial evidences. keywords: deposition; dose; equation; exposure; infection risk; infectious; intake dose; models; pathogen; quanta; rate; response; risk assessment; wells cache: cord-331646-j5mkparg.txt plain text: cord-331646-j5mkparg.txt item: #379 of 435 id: cord-331849-o346txxr author: Cardoso, Pedro J.S. title: Computational Science in the Interconnected World: Selected papers from 2019 International Conference on Computational Science date: 2020-09-21 words: 2570 flesch: 25 summary: Feasibility, economy, opportunities and challenges Selected papers from 2019 International Conference on Computational Science Computational Science -ICCS 2019 Computational Science -ICCS 2019 Computational Science -ICCS 2019 Computational Science -ICCS 2019 Computational Science -ICCS 2019 Multi-GPU Immersed Boundary Method Hemodynamics Simulations Development of Element-by-Element Kernel Algorithms in Unstructured Finite-Element Solvers for Many-Core Wide-SIMD CPUs: Application to Earthquake Simulation Unconditionally stable, efficient and robust numerical simulation of isothermal compositional grading by gravity On uncertainty quantification via the ensemble of independent numerical solutions Contact patterns and influenza outbreaks in Russian cities: a proof-of-concept study via agent-based modeling A Passenger Model for Simulating Boarding and Alighting in Spatially Confined Transportation Scenarios The impact of Sea level rise in the guadiana estuary Ocean climatology at Brazilian Equatorial Margin: a numerical approach Six degrees of freedom flight simulation of tilt-rotor aircraft with nacelle conversion Forecasting Network Throughput of Remote Data Access in Computing Grids Machine learning surrogates for molecular dynamics simulations of soft materials An Introduction to Temporal Optimisation using a Water Management Problem The Chain Alignment Problem New online reinsertion approaches for a dynamic Dial-a-Ride Problem Weak Constraint Gaussian Processes for optimal sensor placement Characterizing, Modeling, and Accurately Simulating Power and Energy Consumption of I/O-intensive Scientific Workflows Many people are entitled to be acknowledged for their work to complete this virtual special issue. key: cord-331849-o346txxr authors: Cardoso, Pedro J.S.; Rodrigues, João M.F.; Monteiro, Jânio; Lam, Roberto; Krzhizhanovskaya, Valeria V.; Lees, Michael H.; Dongarra, Jack; Sloot, Peter M.A. title: Computational Science in the Interconnected World: Selected papers from 2019 International Conference on Computational Science date: 2020-09-21 journal: J Comput Sci DOI: 10.1016/j.jocs.2020.101222 sha: doc_id: 331849 cord_uid: o346txxr nan With the roots in computer science and applied mathematics, the computational science (CS) discipline is a fulcrum that brings together general sciences playing a major role in nowadays society. keywords: data; model; papers; performance; problem; science; simulations cache: cord-331849-o346txxr.txt plain text: cord-331849-o346txxr.txt item: #380 of 435 id: cord-332093-iluqwwxs author: Lessler, Justin title: Mechanistic Models of Infectious Disease and Their Impact on Public Health date: 2016-02-17 words: 5503 flesch: 26 summary: Even outside of public health crises, infectious disease models play an important role in setting public health policy. Infectious disease models play a critical role in incorporating indirect effects that can vary substantially across alternative programs. keywords: control; disease; dynamics; epidemic; health; impact; influenza; models; number; pandemic; transmission; vaccination cache: cord-332093-iluqwwxs.txt plain text: cord-332093-iluqwwxs.txt item: #381 of 435 id: cord-332412-lrn0wpvj author: Ibrahim, Mohamed R. title: Variational-LSTM Autoencoder to forecast the spread of coronavirus across the globe date: 2020-04-24 words: 6823 flesch: 51 summary: Put all together, more data, more factors, different forecasting model could also lead to better long-term forecast (1-3 months) for each country based on the lesson learned from the global and country-level trends of spread. Last, comparing our results to other models remains a challenge due to the absence of a unified model similar to what we have achieved that forecast each country globally, or also due to the absence of general benchmark data with a common evaluation metrics. keywords: coronavirus; countries; country; data; features; lstm; model; preprint; spread; time cache: cord-332412-lrn0wpvj.txt plain text: cord-332412-lrn0wpvj.txt item: #382 of 435 id: cord-332583-5enha3g9 author: Bodine, Erin N. title: Agent-Based Modeling and Simulation in Mathematics and Biology Education date: 2020-07-28 words: 7589 flesch: 37 summary: ABMs are now one of the many types of models students studying the life sciences or applied mathematics should encounter in their undergraduate education. Agent based modelling and simulation tools: A review of the state-of-art software In silico experiments of existing and hypotheticalcytokine-directed clinical trials using agentbased modeling Agent-based models in translational systems biology Aligning simulation models: a case study and results Integration of biology, mathematics and computing in the classroom through the creation and repeated use of transdisciplinary modules. keywords: abms; agent; biology; computer; courses; data; example; life; modeling; models; netlogo; science; simulation; software; students; systems; use cache: cord-332583-5enha3g9.txt plain text: cord-332583-5enha3g9.txt item: #383 of 435 id: cord-332618-8al98ya2 author: Barraza, Néstor Ruben title: A non-homogeneous Markov early epidemic growth dynamics model. Application to the SARS-CoV-2 pandemic date: 2020-09-18 words: 4604 flesch: 57 summary: A theoretical framework to model epidemics by a non homogeneous birth-and-115 death process was proposed in [21] . -The proposed model matches the subexponential growth on the early stage of an epidemic. keywords: model; process; rate; time cache: cord-332618-8al98ya2.txt plain text: cord-332618-8al98ya2.txt item: #384 of 435 id: cord-332729-f1e334g0 author: Shah, Nirav R. title: An Impact-Oriented Approach to Epidemiological Modeling date: 2020-09-21 words: 1639 flesch: 46 summary: Those who develop epidemiological models are no longer only creating specialty tools, but consumer products as well, and thus face a new, non-traditional, set of considerations. Traditionally, epidemiological models have been valued for their ability to inform decision-makers who possess prior knowledge of disease management. keywords: covid-19; data; impact; models; public cache: cord-332729-f1e334g0.txt plain text: cord-332729-f1e334g0.txt item: #385 of 435 id: cord-332922-2qjae0x7 author: Mbuvha, Rendani title: Bayesian inference of COVID-19 spreading rates in South Africa date: 2020-08-05 words: 3225 flesch: 48 summary: We follow the framework of [6] to perform Bayesian inference for model parameters on the South African COVID-19 data. The posterior inference is governed by Bayes theorem as follows: Where P(W|D, M) is the posterior distribution of a vector of model parameters (W) given the model(M) and observed data(D), P(D|W, M) is the data likelihood and P(D) is the evidence. keywords: change; data; inference; model; seir; sir; trajectory cache: cord-332922-2qjae0x7.txt plain text: cord-332922-2qjae0x7.txt item: #386 of 435 id: cord-333088-ygdau2px author: Roy, Manojit title: On representing network heterogeneities in the incidence rate of simple epidemic models date: 2006-03-31 words: 7646 flesch: 45 summary: Persistent cycles arise in our system even though the homogeneous mean-field dynamics do not have oscillatory solutions, thereby revealing an interesting interplay of network structure and disease dynamics (also see Rand, 1999) . Statistical mechanics of complex networks Infectious Diseases of Humans: Dynamics and Control The Mathematical Theory of Infectious Diseases Dynamics of measles epidemics: estimating scaling of transmission rates using a time series SIR model Analytic models for the patchy spread of plant disease Space, persistence and dynamics of measles epidemics The effects of disease dispersal and host clustering on the epidemic threshold in plants The ecology and epizootiology of hantaviral infections in small mammal communities of Baltimore: a review and synthesis Island epidemics Evolution of Networks Modelling dynamic and network heterogeneities in the spread of sexually transmitted disease A stochastic model for extinction and recurrence of epidemics: estimation and inference for measles outbreaks Metapopulation dynamics as a contact process on a graph Stochastic resonance without external periodic force (Meta) population dynamics of infectious diseases A test of heterogeneous mixing as a mechanism for ecological persistence in a disturbed environment Some epidemiological models with nonlinear incidence Non-linear transmission rates and the dynamics of infectious disease A simple model of recurrent epidemics Correlation models for childhood epidemics The effects of local spatial structure on epidemiological invasions The implications of network structure for epidemic dynamics A contribution to the mathematical theory of epidemics Disentangling extrinsic from intrinsic factors in disease dynamics: a nonlinear time series approach with an application to cholera Modeling infection transmission Small world effect in an epidemiological model Fast response and temporal coherent oscillations in small-world networks Influence of nonlinear incidence rates upon the behavior of SIRS epidemiological models Dynamical behavior of epidemiological models with non-linear incidence rate How should pathogen transmission be modelled? Relating heterogeneous mixing models to spatial processes in disease epidemics Transmission of severe acute respiratory syndrome in dynamical small-world networks Data driven network models for the spread of disease Mathematical Biology keywords: disease; dynamics; mean; model; network; stochastic cache: cord-333088-ygdau2px.txt plain text: cord-333088-ygdau2px.txt item: #387 of 435 id: cord-333490-8pv5x6tz author: Liao, Yi title: Early box office prediction in China’s film market based on a stacking fusion model date: 2020-10-06 words: 5986 flesch: 51 summary: According to Kim et al. (2015) , there are four major types of box office prediction models (Kim et al. 2015) : statistical models such as linear regression models (Litman and Kohl 1989; Eliashberg and Shugan 1997) , probabilistic models (Neelamegham and Chintagunta 1999; Sawhney and Eliashberg 1996; Eliashberg et al. 2000) , time series models, and machine learning models such as deep neural network models (Sharda and Delen 2006; Delen and Sharda 2010; Ghiassi et al. 2015) . In the literature, existing box office prediction models usually depend on data pertaining to the after-film production period, which has a rather limited effect on stakeholders, because it can only affect the later refinement of advertising or distribution strategies at this stage. keywords: box; box office; data; film; model; office; office prediction; prediction; set cache: cord-333490-8pv5x6tz.txt plain text: cord-333490-8pv5x6tz.txt item: #388 of 435 id: cord-333693-z2ni79al author: Wu, Lin title: Modeling the COVID-19 Outbreak in China through Multi-source Information Fusion date: 2020-08-06 words: 725 flesch: 32 summary: The most common epidemic dynamics models are compartment models such as SEIR (Susceptible, Exposed, Infectious and Removed) and SIR (Susceptible, Infectious and Removed), which have been adopted widely in the simulation of COVID-19. In contrast to compartment models, individual-based models represent each individual via an independent set of specific characteristics that may change over time. keywords: covid-19; information; models cache: cord-333693-z2ni79al.txt plain text: cord-333693-z2ni79al.txt item: #389 of 435 id: cord-333919-nrd9ajj2 author: Albi, G. title: Relaxing lockdown measures in epidemic outbreaks using selective socio-economic containment with uncertainty date: 2020-05-16 words: 7708 flesch: 44 summary: This makes it possible to carry out a systematic analysis for different countries and to observe the different behaviour of the control action in line with the dynamics observed and the measures taken by different governments. Figure 6 : Age distribution of infected using constant and age dependent recovery rates as in (18) at the end of the lockdown period in different countries. keywords: activities; age; control; countries; data; epidemic; license; lockdown; model; number; preprint cache: cord-333919-nrd9ajj2.txt plain text: cord-333919-nrd9ajj2.txt item: #390 of 435 id: cord-335418-s8ugu8e1 author: Annan, James D title: Model calibration, nowcasting, and operational prediction of the COVID-19 pandemic date: 2020-04-17 words: 4082 flesch: 56 summary: While the cluster of high death numbers just before the 16th Feb raised the forecast in Figure 1b somewhat, reality was still captured within its uncertainty range. We use daily death numbers as our sole source of data in the Bayesian updating procedure. keywords: data; deaths; license; medrxiv; model; preprint; time cache: cord-335418-s8ugu8e1.txt plain text: cord-335418-s8ugu8e1.txt item: #391 of 435 id: cord-335465-sckfkciz author: Gupta, Rishi K. title: Systematic evaluation and external validation of 22 prognostic models among hospitalised adults with COVID-19: An observational cohort study date: 2020-09-25 words: 5056 flesch: 27 summary: The most discriminating univariable predictor is admission oxygen saturation (SpO2) on room air for deterioration models and patient age for mortality models. Importantly, prognostic models may have additional value in patient stratification for emerging drug therapies [6, 7] . keywords: covid-19; deterioration; hospital; models; mortality; patients; prediction; predictors; prognostic; risk; study cache: cord-335465-sckfkciz.txt plain text: cord-335465-sckfkciz.txt item: #392 of 435 id: cord-335689-8a704p38 author: Martin, Gerardo title: Climate Change Could Increase the Geographic Extent of Hendra Virus Spillover Risk date: 2018-03-19 words: 8557 flesch: 44 summary: Despite the increased geographical extent of spillover risk model projections predicted average lower probability of exceeding the specified intensity threshold for spillover to occur (20th quantile of median intensity at spillover locations) compared with current conditions (Figs. 5, 6) . The predicted spatial patterns of HeV spillover risk under present climatic conditions for both reservoir host systems, P. alecto and P. conspicillatus, are consistent with the distribution of spillover events since 1994. keywords: alecto; areas; change; climate; conspicillatus; et al; flying; hev; model; p. alecto; risk; species; spillover; system; virus cache: cord-335689-8a704p38.txt plain text: cord-335689-8a704p38.txt item: #393 of 435 id: cord-336644-kgrdul35 author: Shao, Nian title: Dynamic models for Coronavirus Disease 2019 and data analysis date: 2020-03-24 words: 1980 flesch: 54 summary: key: cord-336644-kgrdul35 authors: Shao, Nian; Zhong, Min; Yan, Yue; Pan, HanShuang; Cheng, Jin; Chen, Wenbin title: Dynamic models for Coronavirus Disease 2019 and data analysis date: 2020-03-24 journal: Math Methods Appl Sci DOI: 10.1002/mma.6345 sha: doc_id: 336644 cord_uid: kgrdul35 In this letter, two time delay dynamic models, a Time Delay Dynamical–Novel Coronavirus Pneumonia (TDD‐NCP) model and Fudan‐Chinese Center for Disease Control and Prevention (CCDC) model, are introduced to track the data of Coronavirus Disease 2019 (COVID‐19). medRxiv Simulating the infected population and spread trend of 2019-nCov under different policy by EIR model Available at SSRN 3537083 Early epidemiological assessment of the transmission potential and virulence of 2019 Novel Coronavirus in Wuhan City: China, medRxiv Feasibility of controlling 2019-nCoV outbreaks by isolation of cases and contacts medRxiv Early transmission dynamics in Wuhan, China, of novel coronavirus-infected pneumonia Dynamic models for Coronavirus Disease 2019 and data analysis The authors declare no potential conflicts of interest. keywords: covid-19; model; time cache: cord-336644-kgrdul35.txt plain text: cord-336644-kgrdul35.txt item: #394 of 435 id: cord-336687-iw3bzy0m author: Kraemer, M. U. G. title: Big city, small world: density, contact rates, and transmission of dengue across Pakistan date: 2015-10-06 words: 4520 flesch: 34 summary: Again, however, more attention is needed to determine the spatial and temporal resolution of appropriate intervention strategies and the effects of key covariates and model parameters [62] . Indeed, analyses of dengue transmission dynamics at a variety of scales have strongly supported this hypothesis [32] [33] [34] [35] . keywords: covariates; data; dengue; dynamics; mixing; model; time; transmission; variation cache: cord-336687-iw3bzy0m.txt plain text: cord-336687-iw3bzy0m.txt item: #395 of 435 id: cord-336747-8m7n5r85 author: Grossmann, G. title: Importance of Interaction Structure and Stochasticity for Epidemic Spreading: A COVID-19 Case Study date: 2020-05-08 words: 7036 flesch: 50 summary: Therefore, we run different network models with different R 0 (which is equivalent to fixing the corresponding values for λ or for R 0 ). Noticeably, the relationship is concave for most network models but almost linear for the ODE model. keywords: contact; epidemic; infection; interaction; model; network; number; rate; spreading; structure cache: cord-336747-8m7n5r85.txt plain text: cord-336747-8m7n5r85.txt item: #396 of 435 id: cord-337897-hkvll3xh author: Yang, Zheng Rong title: Peptide Bioinformatics- Peptide Classification Using Peptide Machines date: 2009 words: 7635 flesch: 49 summary: We then generate validation peptides using one fold and generate training peptides from the remaining folds. In building a computer model for a real application, there are two important issues for model validation in addition to model parameter estimation. keywords: classification; data; drug; function; method; model; peptides; prediction; protease; protein; resistance; sites; validation; vector cache: cord-337897-hkvll3xh.txt plain text: cord-337897-hkvll3xh.txt item: #397 of 435 id: cord-337915-usi3crfl author: Vo, Khuong title: An Efficient and Robust Deep Learning Method with 1-D Octave Convolution to Extract Fetal Electrocardiogram date: 2020-07-04 words: 5717 flesch: 47 summary: In this work, we explored a highly effective, end-to-end, deep neural network-based approach for the detection of fetal QRS complexes in non-invasive fetal ECG. Trends in fetal and perinatal mortality in the United States Electronic Fetal Monitoring in the United States Unobtrusive Continuous Monitoring of Fetal Cardiac Electrophysiology in the Home Setting Fetal phonocardiography signal processing from abdominal records by non-adaptive methods Congenital Heart Defects in the United States: Estimating the Magnitude of the Affected Population in 2010 A Review of Signal Processing Techniques for Non-Invasive Fetal Electrocardiography Blind Signal Separation: Statistical Principles Noninvasive fetal electrocardiogram extraction: Blind separation versus adaptive noise cancellation Fetal ECG extraction during labor using an adaptive maternal beat subtraction technique A deep learning approach for fetal QRS complex detection Fetal QRS Detection Based on Convolutional Neural Networks in Noninvasive Fetal Electrocardiogram Deep Learning for Detection of Fetal ECG from Multi-Channel Abdominal Leads Drop an Octave: Reducing Spatial Redundancy in Convolutional Neural Networks With Octave Convolution IEEE/CVF International Conference on Computer Vision (ICCV) Time series classification from scratch with deep neural networks: A strong baseline Deep learning for time series classification: A review Visual Explanations from Deep Networks via Gradient-Based Localization Noninvasive Fetal ECG: The PhysioNet/Computing in Cardiology Challenge Non-invasive FECG extraction from a set of abdominal sensors Batch Normalization: Accelerating Deep Network Training by Reducing Internal Covariate Shift Transfer learning for time series classification Learning Phrase Representations using RNN Encoder-Decoder for Statistical Machine Translation keywords: complexes; convolution; data; feature; frequency; method; model; noise; time cache: cord-337915-usi3crfl.txt plain text: cord-337915-usi3crfl.txt item: #398 of 435 id: cord-338466-7uvta990 author: Singh, Brijesh P. title: Modeling and forecasting the spread of COVID-19 pandemic in India and significance of lockdown: A mathematical outlook date: 2020-10-31 words: 9014 flesch: 50 summary: Right now in India only 29 districts out of 739 districts have COVID-19 case more than 4000. India reported its first case on 30th January and entered the countrywide lockdown on March 24th, 2020 with constantly increase in number of COVID-19 cases. keywords: cases; covid-19; disease; growth; india; lockdown; model; number; population; rate; spread; time cache: cord-338466-7uvta990.txt plain text: cord-338466-7uvta990.txt item: #399 of 435 id: cord-339374-2hxnez28 author: De Kort, Hanne title: Toward reliable habitat suitability and accessibility models in an era of multiple environmental stressors date: 2020-09-22 words: 9187 flesch: 12 summary: A 13-year-old otter model revisited The economics of land use reveals a selection bias in tree species distribution models Individual dispersal, landscape connectivity and ecological networks Landscape connectivity and animal behavior: Functional grain as a key determinant for dispersal Selecting pseudo-absences for species distribution models: How, where and how many? Can species distribution models really predict the expansion of invasive species? Anthropogenic climate change drives shift and shuffle in North Atlantic phytoplankton communities The crucial role of the accessible area in ecological niche modeling and species distribution modeling Appropriateness of full-, partial-and no-dispersal scenarios in climate change impact modelling Reorganization of North Atlantic marine copepod biodiversity and climate Combined impacts of global changes on biodiversity across the USA Will climate change promote future invasions? Changes in plant community composition lag behind climate warming in lowland forests Ecological constraints increase the climatic debt in forests Metacommunity dynamics: decline of functional relationship along a habitat fragmentation gradient Advancing ecological understandings through technological transformations in noninvasive genetics Costs of dispersal Causes and consequences of animal dispersal strategies: Relating individual behaviour to spatial dynamics Synergistic effects of climate change and agricultural land use on mammals Trade-offs in covariate selection for species distribution models: The meaning and use of the area under a receiver operating characteristic (ROC) curve High-resolution global maps of 21st-century forest cover change Host plant availability potentially limits butterfly distributions under cold environmental conditions Agricultural lands key to mitigation and adaptation A unified framework to model the potential and realized distributions of invasive species within the invaded range Evolution of migration rate in a spatially realistic metapopulation model Cross-validation of species distribution models: Removing spatial sorting bias and calibration with a null model Habitat suitability modelling and niche theory How biotic interactions may alter future predictions of species distributions: Future threats to the persistence of the arctic fox in Fennoscandia Revisiting adaptive potential, population size, and conservation A quantitative synthesis of the movement concepts used within species distribution modelling Climate change and biological invasions: Evidence, expectations, and response options Genetically informed ecological niche models improve climate change predictions Predicting the effects of climate change on population connectivity and genetic diversity of an imperiled freshwater mussel, Cumberlandia monodonta (Bivalvia: Margaritiferidae), in riverine systems Projected impacts of climate and land-use change on the global diversity of birds (GM Mace PanTHERIA: A species-level database of life history, ecology, and geography of extant and recently extinct mammals Using regional climate projections to guide grassland community restoration in the face of climate change Climate change drives microevolution in a wild bird Integrating biophysical models and evolutionary theory to predict climatic impacts on species' ranges: The dengue mosquito Aedes aegypti in Australia Rapid shifts in plant distribution with recent climate change Adaptation to climate change: Trade-offs among responses to multiple stressors in an intertidal crustacean Biodiversity and ecosystem services require IPBES to take novel approach to scenarios Aligning conservation priorities across taxa in Madagascar with high-resolution planning tools Global change and the distributional dynamics of migratory bird populations wintering in Central America Disentangling the effects of land-use change, climate and CO 2 on projected future European habitat types Incorporating microclimate into species distribution models Latitudinal and elevational range shifts under contemporary climate change Without quality presence-absence data, discrimination metrics such as TSS can be misleading measures of model performance How disturbance, competition, and dispersal interact to prevent tree range boundaries from keeping pace with climate change The use of occurrence data to predict the effects of climate change on insects. keywords: area; biodiversity; change; climate; climate change; conservation; data; dispersal; distribution; et al; evolution; global; habitat; land; modeling; models; potential; range; sdm; species; species distribution; use; use change cache: cord-339374-2hxnez28.txt plain text: cord-339374-2hxnez28.txt item: #400 of 435 id: cord-339649-ppgmmeuz author: Klein, Michael G. title: COVID-19 Models for Hospital Surge Capacity Planning: A Systematic Review date: 2020-09-10 words: 4188 flesch: 45 summary: The results of our study provide information to physicians, hospital administrators, emergency response personnel, and governmental agencies on available models for preparing scenario-based plans for responding to the COVID-19 or similar type of outbreak. In this systematic review, we identified and reviewed surge capacity planning models that handle both caseload projection and hospital capacity management for this novel pandemic disease. keywords: capacity; covid-19; hospital; model; parameters; patients; planning; surge; tool cache: cord-339649-ppgmmeuz.txt plain text: cord-339649-ppgmmeuz.txt item: #401 of 435 id: cord-340244-qjf23a7e author: Bernstein, Daniel J. title: Further analysis of the impact of distancing upon the COVID-19 pandemic date: 2020-04-16 words: 7079 flesch: 60 summary: The standard response-assuming, e.g., an S → E 1 → E 2 → I 1 → I 2 → R model-is to model a larger transmission speed from I 1 than from I 2 . It is not ethical to say that exploiting increased critical-care capacity in this way is allowed without mentioning that this has the side effect of more infections now-including painful hospitalizations and deaths that would have been avoided by more distancing. keywords: care; copyright; distancing; model; paper; people; plot; preprint cache: cord-340244-qjf23a7e.txt plain text: cord-340244-qjf23a7e.txt item: #402 of 435 id: cord-340354-j3xsp2po author: Noll, N. B. title: COVID-19 Scenarios: an interactive tool to explore the spread and associated morbidity and mortality of SARS-CoV-2 date: 2020-05-07 words: 4325 flesch: 45 summary: https://doi.org/10.1101/2020.05.05.20091363 doi: medRxiv preprint Figure 2 User interface for model parameters and mitigations A) An example screenshot of the UI of the web application used to vary model parameters. keywords: age; covid-19; data; mitigation; model; parameters; preprint; scenarios; time; tool cache: cord-340354-j3xsp2po.txt plain text: cord-340354-j3xsp2po.txt item: #403 of 435 id: cord-340375-lhv83zac author: Bliznashki, Svetoslav title: A Bayesian Logistic Growth Model for the Spread of COVID-19 in New York date: 2020-04-07 words: 2667 flesch: 53 summary: Models weighting all data points equally as well as models with normal error structure prove inadequate to model the process accurately. That being said, our simulations suggest that we should be somewhat skeptical towards logistic growth models applied to the raw data describing an outbreak, especially when the number of available data points is relatively small and the upper asymptote appears not to have been reached yet. . keywords: data; license; model; parameters; preprint cache: cord-340375-lhv83zac.txt plain text: cord-340375-lhv83zac.txt item: #404 of 435 id: cord-340564-3fu914lk author: Cohen, Joseph Paul title: Predicting COVID-19 Pneumonia Severity on Chest X-ray With Deep Learning date: 2020-07-28 words: 3259 flesch: 49 summary: In the case of building a predictive tool for COVID-19 CXR images, the lack of a public database made it difficult to conduct large-scale robust evaluations. A neural network model that was pre-trained on large (non-COVID-19) chest X-ray datasets is used to construct features for COVID-19 images which are predictive for our task. keywords: chest; covid-19; dataset; images; lung; model; opacity; prediction cache: cord-340564-3fu914lk.txt plain text: cord-340564-3fu914lk.txt item: #405 of 435 id: cord-340713-v5sdowb7 author: Bird, Jordan J. title: Country-level pandemic risk and preparedness classification based on COVID-19 data: A machine learning approach date: 2020-10-28 words: 5672 flesch: 49 summary: With the previous successful experiments in mind, this argues that risk classification would be more useful when performed prior to the situation unfolding, given that country-level information is seemingly more important at this stage when compared to the current postpeak climate. The positive effects of these factors likely contribute towards the reason why country-level information was useful for risk classification earlier in the pandemic, but are less-so later on post-peak. keywords: attributes; classification; country; covid-19; data; learning; level; machine; models; risk; test cache: cord-340713-v5sdowb7.txt plain text: cord-340713-v5sdowb7.txt item: #406 of 435 id: cord-340805-qbvgnr4r author: Ioannidis, John P.A. title: Forecasting for COVID-19 has failed date: 2020-08-25 words: 6093 flesch: 52 summary: The possibility of calibrating model predictions for looking at extremes rather than just means is sensible, especially in early days of pandemics, when much is unknown about the virus and its epidemiological footprint. However, even forecasting built directly on data alone fared badly, 11, 12 failing not only in ICU bed predictions ( Figure 1 ) but even in next day death predictions when issues of long-term chaotic behavior do not come into play (Figures 2 and 3 ). keywords: covid-19; data; deaths; distribution; epidemic; forecasting; impact; models; predictions cache: cord-340805-qbvgnr4r.txt plain text: cord-340805-qbvgnr4r.txt item: #407 of 435 id: cord-340827-vx37vlkf author: Jackson, Matthew O. title: Chapter 14 Diffusion, Strategic Interaction, and Social Structure date: 2011-12-31 words: 13728 flesch: 48 summary: Information players hold regarding the underlying network (namely, whether they are fully informed of the entire set of connections in the population, or only of connections in some local neighborhood) ends up playing a crucial role in the scope of predictions generated by network game models. Coleman, Katz, and Menzel (1966) is one of the first studies to document the role of social networks in diffusion processes. keywords: action; agents; behavior; degree; diffusion; individuals; infection; information; interactions; model; neighbors; network; probability; time cache: cord-340827-vx37vlkf.txt plain text: cord-340827-vx37vlkf.txt item: #408 of 435 id: cord-342591-6joc2ld1 author: Higazy, M. title: Novel Fractional Order SIDARTHE Mathematical Model of The COVID-19 Pandemic date: 2020-06-13 words: 3690 flesch: 41 summary: The COVID-19 epidemic Analysis and numerical simulation of fractional model of bank data with fractal-fractional Atangana-Baleanu derivative Determining lyapunov exponents from a time series Estimating clinical severity of COVID-19 from the transmission dynamics in Wuhan, China Characteristics of and important lessons from the coronavirus disease 2019 (COVID-19) outbreak in China: summary of a report of 72,314 cases from the Chinese center for disease control and prevention Optimal treatment of an SIR epidemic model with time delay In this section, we show numerically, the effect of applying the four control strategies studied in Section 3. In this paper, we propose to model the COVID-19 pandemic by fractional order SIDARTHE model which not appear in the literature before. keywords: control; covid-19; derivative; infected; model; order; population cache: cord-342591-6joc2ld1.txt plain text: cord-342591-6joc2ld1.txt item: #409 of 435 id: cord-342855-dvgqouk2 author: Anzum, R. title: Mathematical Modeling of Coronavirus Reproduction Rate with Policy and Behavioral Effects date: 2020-06-18 words: 3087 flesch: 51 summary: https://doi.org/10.1101/2020.06.16.20133330 doi: medRxiv preprint sectors by exploring compartmental models along with standard economic models using econometric techniques. The model estimates the vulnerability of the pandemic with a prediction of new cases by estimating a time-varying R0 to capture changes in the behavior of SIR model implies to new policy taken at different times and different locations of the world. keywords: coronavirus; license; model; people; preprint; rate cache: cord-342855-dvgqouk2.txt plain text: cord-342855-dvgqouk2.txt item: #410 of 435 id: cord-343701-x5rghsbs author: Zhao, Yu-Feng title: Prediction of the Number of Patients Infected with COVID-19 Based on Rolling Grey Verhulst Models date: 2020-06-25 words: 5033 flesch: 47 summary: Therefore, the grey Verhulst model with the rolling sequence length of 7 and derived grey Verhulst models with rolling sequence lengths of 8 and 9 were selected to predict the final value and inflection point of the number of confirmed cases in China. As shown in test results of models in Section 4.2, the grey Verhulst model with the rolling sequence length of 7 and derived grey Verhulst models with the rolling sequence lengths of 8 and 9 were used to predict final value and inflection point of the number of confirmed cases in China. keywords: cases; china; grey; grey verhulst; model; number; prediction; rolling; verhulst model cache: cord-343701-x5rghsbs.txt plain text: cord-343701-x5rghsbs.txt item: #411 of 435 id: cord-344115-gtbkwuqv author: Grimm, Volker title: Three questions to ask before using model outputs for decision support date: 2020-09-30 words: 1921 flesch: 44 summary: Nat Commun DOI: 10.1038/s41467-020-17785-2 sha: doc_id: 344115 cord_uid: gtbkwuqv Decision makers must have sufficient confidence in models if they are to influence their decisions. We propose three screening questions to critically evaluate models with respect to their purpose, organization, and evidence. keywords: decision; model; patterns; purpose cache: cord-344115-gtbkwuqv.txt plain text: cord-344115-gtbkwuqv.txt item: #412 of 435 id: cord-344252-6g3zzj0o author: Farooq, Junaid title: A Novel Adaptive Deep Learning Model of Covid-19 with focus on mortality reduction strategies date: 2020-07-21 words: 6952 flesch: 51 summary: Deep learning and other machine learning techniques stand out in solving problems of data based model parameter estimation due to their state-of-the-art results. Different models have been developed to analyse the transmission dynamics of many infectious diseases like malaria (Ronald Ross model) keywords: data; deaths; disease; group; learning; model; number; population; risk; time cache: cord-344252-6g3zzj0o.txt plain text: cord-344252-6g3zzj0o.txt item: #413 of 435 id: cord-344417-1seb8b09 author: Wang, Yuhang title: SemSeq4FD: Integrating global semantic relationship and local sequential order to enhance text representation for fake news detection date: 2020-10-03 words: 8232 flesch: 52 summary: Pre-training of deep bidirectional transformers for language understanding This just in: Fake news packs a lot in title, uses simpler, repetitive content in text body, more similar to satire than real news Multi-depth graph convolutional networks for fake news detection Convolutional neural networks for sentence classification Semi-supervised classification with graph convolutional networks Logistic Regression Coronavirus goes viral: Quantifying the covid-19 misinformation epidemic on twitter Net reclassification improvement: Computation, interpretation, and controversies a literature review and clinician's guide Mining significant microblogs for misinformation identification: An attention-based approach Early detection of fake news on social media through propagation path classification with recurrent and convolutional networks Detecting rumors from microblogs with recurrent neural networks Detect rumors using time series of social context information on microblogging websites A novel approach for detection of fake news on social media using metaheuristic optimization algorithms Fake news detection within online social media using supervised artificial intelligence algorithms Automatic detection of fake news can fake news impact the stock market Truth of varying shades: Analyzing language in fake news and political factchecking From retweet to believability: Utilizing trust to identify rumor spreaders on twitter Fake news or truth? • TP: The number of fake news documents correctly predicted as fake news. keywords: cross; datasets; detection; document; domain; graph; information; model; network; news; order; real; representations; sentence cache: cord-344417-1seb8b09.txt plain text: cord-344417-1seb8b09.txt item: #414 of 435 id: cord-346136-sqc09x9c author: Hamilton, Kyra title: Application of the Health Action Process Approach to Social Distancing Behavior During COVID‐19 date: 2020-10-02 words: 8268 flesch: 29 summary: This study examined the social cognition determinants of social distancing behavior during the COVID‐19 pandemic in samples from Australia and the US guided by the health action process approach (HAPA). Intention and action control were significant predictors of social distancing behavior in both samples, and intention predicted action and coping planning in the US sample. keywords: action; behavior; control; distancing; effects; intention; model; past; planning; samples; self cache: cord-346136-sqc09x9c.txt plain text: cord-346136-sqc09x9c.txt item: #415 of 435 id: cord-346265-jx4kspen author: Tatapudi, Hanisha title: Impact assessment of full and partial stay-at-home orders, face mask usage, and contact tracing: An agent-based simulation study of COVID-19 for an urban region date: 2020-10-19 words: 5642 flesch: 45 summary: Simulation model tracks hourly movements of each individual (susceptible and infected) every day, and records for each susceptible the number of infected contacts and their identification at each location. Up to 14 days before the first reported case can be used as a potential date for simulation model to begin. keywords: cases; contact; covid-19; data; face; infection; model; pandemic; simulation; table cache: cord-346265-jx4kspen.txt plain text: cord-346265-jx4kspen.txt item: #416 of 435 id: cord-346309-hveuq2x9 author: Reis, Ben Y title: An Epidemiological Network Model for Disease Outbreak Detection date: 2007-06-26 words: 8426 flesch: 43 summary: Full networks, total-visit networks, two-node networks (target data stream and total visits at the same hospital), and reference models are compared. Full networks, total-visit networks, two-node networks (target data stream and total visits at the same hospital), and reference models are compared. keywords: care; data; data streams; health; models; network; outbreaks; public; shifts; streams; surveillance cache: cord-346309-hveuq2x9.txt plain text: cord-346309-hveuq2x9.txt item: #417 of 435 id: cord-346921-3hfxv6h8 author: Nave, OPhir title: Θ-SEIHRD mathematical model of Covid19-stability analysis using fast-slow decomposition date: 2020-09-21 words: 3198 flesch: 53 summary: key: cord-346921-3hfxv6h8 authors: Nave, OPhir; Hartuv, Israel; Shemesh, Uziel title: Θ-SEIHRD mathematical model of Covid19-stability analysis using fast-slow decomposition date: 2020-09-21 journal: PeerJ DOI: 10.7717/peerj.10019 sha: doc_id: 346921 cord_uid: 3hfxv6h8 In general, a mathematical model that contains many linear/nonlinear differential equations, describing a phenomenon, does not have an explicit hierarchy of system variables. As can be seen from the results obtained from the mathematical model and from the results reported by the authorities, the relative error of the model can be calculated for which, we define the relative error of the equilibrium points for each dynamic variable of the system as where U model is the dynamic variable of the system, that is, the stable equilibrium point of the original model (after the inverse transform of the stable equilibrium points) and U real denotes the values reported by the authorities. keywords: equilibrium; mathematical; model; new; system cache: cord-346921-3hfxv6h8.txt plain text: cord-346921-3hfxv6h8.txt item: #418 of 435 id: cord-347199-slq70aou author: Safta, Cosmin title: Characterization of partially observed epidemics through Bayesian inference: application to COVID-19 date: 2020-10-07 words: 8415 flesch: 49 summary: This was somewhat expected based on the evolution of the daily counts of symptomatic cases and the functional form that couples the infection rate and incubation models. The epidemiological model is formulated in Sect. 2, with postulated forms for the infection rate curve and the derivation of the prediction for daily new cases; we also discuss a filtering approach that is applied to the data before using it to infer model parameters. keywords: cases; covid-19; daily; data; distribution; incubation; infection; model; number; parameters; rate; results; time cache: cord-347199-slq70aou.txt plain text: cord-347199-slq70aou.txt item: #419 of 435 id: cord-347791-wofyftrs author: Hao, Tian title: Prediction of Coronavirus Disease (covid-19) Evolution in USA with the Model Based on the Eyring Rate Process Theory and Free Volume Concept date: 2020-04-22 words: 3604 flesch: 51 summary: In MSIR model, we assume that during the transmission process from the susceptible to the infected, both human movement and virus particle transmission are involved and the exposed is only an transient state. This approach is therefore naturally applied to disease transmissions, as human movement and virus particle transmissions should follow same physical and chemical principles. keywords: infected; model; process; rate; volume cache: cord-347791-wofyftrs.txt plain text: cord-347791-wofyftrs.txt item: #420 of 435 id: cord-347906-3ehsg8oi author: Zhang, Zizhen title: Dynamics of COVID-19 mathematical model with stochastic perturbation date: 2020-08-28 words: 1776 flesch: 53 summary: Adv Differ Equ DOI: 10.1186/s13662-020-02909-1 sha: doc_id: 347906 cord_uid: 3ehsg8oi Acknowledging many effects on humans, which are ignored in deterministic models for COVID-19, in this paper, we consider stochastic mathematical model for COVID-19. key: cord-347906-3ehsg8oi authors: Zhang, Zizhen; Zeb, Anwar; Hussain, Sultan; Alzahrani, Ebraheem title: Dynamics of COVID-19 mathematical model with stochastic perturbation date: 2020-08-28 journal: keywords: coronavirus; covid-19; epidemic; model; stochastic cache: cord-347906-3ehsg8oi.txt plain text: cord-347906-3ehsg8oi.txt item: #421 of 435 id: cord-347952-k95wrory author: Prieto, Diana M title: A systematic review to identify areas of enhancements of pandemic simulation models for operational use at provincial and local levels date: 2012-03-30 words: 9205 flesch: 34 summary: We also agreed with the concern that social behavior is inadequately represented in pandemic influenza models. We also agreed with the concern that social behavior is inadequately represented in pandemic influenza models. keywords: access; assumptions; contact; data; health; infection; influenza; mitigation; models; pandemic; parameters; public; review; strategies; table; time cache: cord-347952-k95wrory.txt plain text: cord-347952-k95wrory.txt item: #422 of 435 id: cord-348010-m3a3utvz author: Wolff, Michael title: On build‐up of epidemiologic models—Development of a SEI(3)RSD model for the spread of SARS‐CoV‐2 date: 2020-10-13 words: 13019 flesch: 57 summary: In Definition 2.1 (ii)-(iv), contact and reproduction numbers are defined independently of concrete infection models. After dealing with equations for the class of infectious infected persons, it is now the aim to add further equations for remaining classes like , and . keywords: class; contact; equation; individuals; infected; infection; model; number; persons; population; sars; time cache: cord-348010-m3a3utvz.txt plain text: cord-348010-m3a3utvz.txt item: #423 of 435 id: cord-350001-pd2bnqbp author: Liu, L. title: Estimating the Changing Infection Rate of COVID-19 Using Bayesian Models of Mobility date: 2020-08-07 words: 5520 flesch: 48 summary: [10] develop a Bayesian semimechanistic (rather than compartmental) model linking Google mobility data and a latent timevarying factor to a time-varying reproductive number R t , which is combined with a latent IFR and time-to-death distribution to model observed deaths. On the other hand, compartmental models [e.g., 1, 6, 7] assume a flexible, causal story for the spread of a disease and can also incorporate mobility data as a covariate for predicting the time-varying infection rate of a disease. keywords: compartmental; covid-19; data; death; infection; mobility; model; parameters; rate; time cache: cord-350001-pd2bnqbp.txt plain text: cord-350001-pd2bnqbp.txt item: #424 of 435 id: cord-350240-bmppif8g author: Girardi, Paolo title: Robust inference for nonlinear regression models from the Tsallis score: application to COVID‐19 contagion in Italy date: 2020-08-12 words: 3230 flesch: 50 summary: key: cord-350240-bmppif8g authors: Girardi, Paolo; Greco, Luca; Mameli, Valentina; Musio, Monica; Racugno, Walter; Ruli, Erlis; Ventura, Laura title: Robust inference for nonlinear regression models from the Tsallis score: application to COVID‐19 contagion in Italy date: 2020-08-12 journal: Stat (Int Stat Inst) DOI: 10.1002/sta4.309 sha: doc_id: 350240 cord_uid: bmppif8 g We discuss an approach of robust fitting on nonlinear regression models, both in a frequentist and a Bayesian approach, which can be employed to model and predict the contagion dynamics of COVID‐19 in Italy. keywords: data; model; scoring; tsallis cache: cord-350240-bmppif8g.txt plain text: cord-350240-bmppif8g.txt item: #425 of 435 id: cord-350510-o4libq5d author: Grinfeld, M. title: On Linear Growth in COVID-19 Cases date: 2020-06-22 words: 2155 flesch: 60 summary: It would be interesting to investigate models in which g is a function of more than the last day's data, or of undominated maxima in the number of new cases, but we assume here for simplicity that R(n) is a reasonable proxy for the information stream. key: cord-350510-o4libq5d authors: Grinfeld, M.; Mulheran, P. A. title: On Linear Growth in COVID-19 Cases date: 2020-06-22 journal: nan DOI: 10.1101/2020.06.19.20135640 sha: doc_id: 350510 cord_uid: o4libq5d We present an elementary model of COVID-19 propagation that makes explicit the connection between testing strategies and rates of transmission and the linear growth in new cases observed in many parts of the world. keywords: cases; model; number; rate cache: cord-350510-o4libq5d.txt plain text: cord-350510-o4libq5d.txt item: #426 of 435 id: cord-350603-ssen3q08 author: Albrecht, Randy A. title: Moving Forward: Recent Developments for the Ferret Biomedical Research Model date: 2018-07-17 words: 1611 flesch: 14 summary: Studies in the embryology of the ferret Anatomy of the ferret heart: an animal model for cardiac research A model of spinal cord injury Drug effects on after discharge and seizure threshold in lissencephalic ferrets: an epilepsy model for drug evaluation A ferret model of COPDrelated chronic bronchitis Airway disease phenotypes in animal models of cystic fibrosis Development of ferret as a human lung cancer model by injecting 4-(N-methyl-N-nitrosamino)-1-(3-pyridyl)-1-butanone (NNK) Building the ferretome Cloned ferrets produced by somatic cell nuclear transfer Adeno-associated virus-targeted disruption of the CFTR gene in cloned ferrets CRISPR/Cas9-mediated genome engineering of the ferret Live attenuated influenza vaccine is safe and immunogenic in immunocompromised ferrets Influenza transmission in the mother-infant dyad leads to severe disease, mammary gland infection, and pathogenesis by regulating host responses Impaired heterologous immunity in aged ferrets during sequential influenza A H1N1 infection The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease Transcriptome sequencing and development of an expression microarray platform for the domestic ferret Integrated omics analysis of pathogenic host responses during pandemic H1N1 influenza virus infection: the crucial role of lipid metabolism Flow Cytometric and cytokine ELISPOT approaches to characterize the cell-mediated immune response in ferrets following influenza virus Infection Screening monoclonal antibodies for cross-reactivity in the ferret model of influenza infection Generation of monoclonal antibodies against immunoglobulin proteins of the domestic ferret (Mustela putorius furo) Neurovirulence in ferrets and biological properties in cell cultures Assessment of the ferret as an in vivo model for mumps virus infection Infection of mice, ferrets, and rhesus macaques with a clinical mumps virus isolate Further studies on the neonatal ferret model of infection and immunity to and attenuation of human parainfluenza viruses Effect of upper respiratory infection on hearing in the ferret model Virology: SARS virus infection of cats and ferrets A neutralizing human monoclonal antibody protects against lethal disease in a new ferret model of acute Nipah virus infection The domestic ferret (Mustela putorius furo) as a lethal infection model for 3 species of Ebolavirus Rift Valley fever: a report of three cases of laboratory infection and the experimental transmission of the disease to ferrets Influenza enhances susceptibility to natural acquisition of and disease due to Streptococcus pneumoniae in ferrets In vivo localization of Staphylococcus aureus in nasal tissues of healthy and influenza A virus-infected ferrets Helicobacter infections in laboratory animals: a model for gastric neoplasias A new experimental infection model in ferrets based on aerosolised Mycobacterium bovis Animal models of pneumocystosis Immune system cells in healthy ferrets: an immunohistochemical study Cellular immune response in the presence of protective antibody levels correlates with protection against 1918 influenza in ferrets Evaluation of the humoral and cellular immune responses elicited by the live attenuated and inactivated influenza vaccines and their roles in heterologous protection in ferrets keywords: cell; ferret; infection; influenza; model; research; virus cache: cord-350603-ssen3q08.txt plain text: cord-350603-ssen3q08.txt item: #427 of 435 id: cord-350870-a89zj5mh author: Ikeda, Hiroki title: Improving the estimation of the death rate of infected cells from time course data during the acute phase of virus infections: application to acute HIV-1 infection in a humanized mouse model date: 2014-05-21 words: 5069 flesch: 51 summary: In this paper, we developed novel mathematical approaches to estimating parameters from acute viral infection data. METHODS: Both new models, called as the reduced quasi-steady state (RQS) model and the piece-wise regression (PWR) model, are derived by simplification of a standard model for the acute-phase dynamics of target cells, viruses and infected cells. keywords: cells; data; death; infection; model; rate; target; virus cache: cord-350870-a89zj5mh.txt plain text: cord-350870-a89zj5mh.txt item: #428 of 435 id: cord-351411-q9kqjvvf author: Moghadas, Seyed M title: Improving public health policy through infection transmission modelling: Guidelines for creating a Community of Practice date: 2015 words: 3883 flesch: 26 summary: The first two, Modelling in public health: Opportunities and challenges and Mathematical modelling in public health practice, helped to set the context regarding scientific methods and research applications, particularly for the evaluation of research uptake and provided public health perspectives on the utility of modelling in decision making. Furthermore, the diversity of the Canadian population has not been adequately addressed in public health models, and research outcomes are often not translated for use within their relevant contexts. keywords: health; modelling; models; outcomes; policy; population; practice; research; workshop cache: cord-351411-q9kqjvvf.txt plain text: cord-351411-q9kqjvvf.txt item: #429 of 435 id: cord-352348-2wtyk3r5 author: Sabroe, Ian title: Identifying and hurdling obstacles to translational research date: 2007 words: 5308 flesch: 31 summary: Although central to an effective understanding of immune biology and the role of new candidate drug targets, the predictive value of in vivo experimentation is less than desired, particularly in the context of studies of single knockouts in specific disease models and mouse strains. Therefore, rodent models remain essential and cannot be replaced by in vitro approaches at present, but are an imperfect translational conduit for both biological and practical reasons (such as the difficulty in establishing chronic disease models). keywords: biology; disease; human; models; process; research; science; scientists; studies; tissues; vivo cache: cord-352348-2wtyk3r5.txt plain text: cord-352348-2wtyk3r5.txt item: #430 of 435 id: cord-352431-yu7kxnab author: Langbeheim, Elon title: Science Teachers’ Attitudes towards Computational Modeling in the Context of an Inquiry-Based Learning Module date: 2020-08-25 words: 7934 flesch: 39 summary: This study focuses on science teachers’ first encounter with computational modeling in professional development workshops. group consisted of new teachers, and a few experienced teachers in other fields such as math, who were new to teaching physics topics. keywords: activity; efficacy; inquiry; learning; modeling; physics; programming; self; students; teachers; teaching; workshop cache: cord-352431-yu7kxnab.txt plain text: cord-352431-yu7kxnab.txt item: #431 of 435 id: cord-352543-8il0dh58 author: Kuzdeuov, A. title: A Network-Based Stochastic Epidemic Simulator: Controlling COVID-19 with Region-Specific Policies date: 2020-05-06 words: 6262 flesch: 41 summary: We set the number of exposed individuals to ten on this date, as this figure yielded accurate model state populations going forward. Calibration is tuning model parameters with available real epidemic data. keywords: covid-19; epidemic; individuals; license; model; node; number; population; preprint; simulator; state; transition cache: cord-352543-8il0dh58.txt plain text: cord-352543-8il0dh58.txt item: #432 of 435 id: cord-353200-5csewb1k author: Jehi, Lara title: Development and validation of a model for individualized prediction of hospitalization risk in 4,536 patients with COVID-19 date: 2020-08-11 words: 4349 flesch: 35 summary: After that date, testing resources were streamlined through a COVID-19 Hotline which followed recommendations from the Centers for Disease Control (recommending to focus on high risk patients as defined by any of the following: Age older than 60 years old or less than 36 months old; on immune therapy; having comorbidities of cancer, end-stage renal disease, diabetes, hypertension, coronary artery disease, heart failure with reduced ejection fraction, lung disease, HIV/AIDS, solid organ transplant; contact with known COVID 19 patients; physician discretion was still allowed). Table 1 provides demographic, exposure, clinical, laboratory, social characteristics, and medication history of COVID-19 patients who were hospitalized versus those who completed their treatment on an outpatient basis in both the DC and VC. keywords: cohort; covid-19; data; disease; health; hospitalization; model; patients; prediction; risk; variables cache: cord-353200-5csewb1k.txt plain text: cord-353200-5csewb1k.txt item: #433 of 435 id: cord-354254-89vjfkfd author: Peng, Shanbi title: The role of computational fluid dynamics tools on investigation of pathogen transmission: Prevention and control date: 2020-08-31 words: 7521 flesch: 36 summary: A Multi-zone Indoor Air Quality and Ventilation Analysis Software Tool Multi-zone modeling of probable sars virus transmission by airflow between flats in block e, amoy gardens Investigating a safe ventilation rate for the prevention of indoor sars transmission: an attempt based on a simulation approach Multi-zone simulation of outdoor particle penetration and transport in a multi-story building Significance of two-way airflow effect due to temperature difference in indoor air quality The transport of gaseous pollutants due to stack effect in high-rise residential buildings Air infiltration induced inter-unit dispersion and infectious risk assessment in a high-rise residential building Principles and applications of probability-based inverse modeling method for finding indoor airborne contaminant sources Experimental and numerical study on particle distribution in a two-zone chamber Model-based optimal control of a dedicated outdoor air-chilled ceiling system using liquid desiccant and membrane-based total heat recovery Identifying index (source), patient location of sars transmission in a hospital ward Airborne contagion and air hygiene: an ecological study of droplet infections An advanced numerical model for the assessment of airborne transmission of influenza in bus microenvironments Evaluation of airborne disease infection risks in an airliner cabin using the lagrangian-based wells-riley approach Cfd simulation of spread risks of infectious disease due to interactive wind and ventilation airflows via window openings in high-rise buildings Modelling the transmission of airborne infections in enclosed spaces Infection risk of indoor airborne transmission of diseases in multiple spaces Preventing airborne disease transmission: review of methods for ventilation design in health care facilities Risk assessment of airborne infectious diseases in aircraft cabins Risk of indoor airborne infection transmission estimated from carbon dioxide concentration A probabilistic transmission dynamic model to assess indoor airborne infection risks. key: cord-354254-89vjfkfd authors: Peng, Shanbi; Chen, Qikun; Liu, Enbin title: The role of computational fluid dynamics tools on investigation of pathogen transmission: Prevention and control date: 2020-08-31 journal: Sci Total Environ DOI: 10.1016/j.scitotenv.2020.142090 sha: doc_id: 354254 cord_uid: 89vjfkfd Transmission mechanics of infectious pathogen in various environments are of great complexity and has always been attracting many researchers' attention. keywords: airborne; cfd; et.al; experiment; flow; gas; hospital; method; model; particle; pathogen; pathogen transmission; risk; simulation; system; tracer; transmission; ventilation cache: cord-354254-89vjfkfd.txt plain text: cord-354254-89vjfkfd.txt item: #434 of 435 id: cord-354627-y07w2f43 author: pinter, g. title: COVID-19 Pandemic Prediction for Hungary; a Hybrid Machine Learning Approach date: 2020-05-06 words: 5485 flesch: 45 summary: As an alternative to the SIR-based models, this study proposed machine learning as a new trend in advancing outbreak models. Outbreak prediction models have shown to be essential to communicate insights into the likely spread and consequences of COVID-19. keywords: algorithm; covid-19; data; learning; license; machine; models; outbreak; prediction; preprint; sir; time cache: cord-354627-y07w2f43.txt plain text: cord-354627-y07w2f43.txt item: #435 of 435 id: cord-355102-jcyq8qve author: Avila, Eduardo title: Hemogram data as a tool for decision-making in COVID-19 management: applications to resource scarcity scenarios date: 2020-06-29 words: 4771 flesch: 34 summary: Also, our simulations suggest that the NB model has at least some degree of tolerance to missing data values, which can be advantageous when compared to other ML techniques. The Naïve Bayes (NB) method combines the previous probability of an event (also called prior probability, or simply prior) with additional evidence (as, e.g., a set of clinical data from a patient) to calculate a combined, conditional probability that includes the prior probability given the extra information. keywords: covid-19; data; hemogram; model; patients; pcr; prior; probability; results cache: cord-355102-jcyq8qve.txt plain text: cord-355102-jcyq8qve.txt