Retrieve available abstracts of 130 articles: HTML format
Single Articles
July 2025
JING S, Wang H Infectivity and fatality of influenza in pre- and post-COVID-19 pandemic year.
PLoS Comput Biol. 2025;21:e1013229. PubMedAbstract available
June 2025
DEICHMANN J, Barda N, Canetti M, Peretz Y, et al Predicting antibody kinetics and duration of protection against SARS-CoV-2
following vaccination from sparse serological data.
PLoS Comput Biol. 2025;21:e1013192. PubMedAbstract available
VOUTOURI C, Munn LL, Stylianopoulos T, Jain RK, et al Biomarkers of mRNA vaccine efficacy derived from mechanistic modeling of
tumor-immune interactions.
PLoS Comput Biol. 2025;21:e1013163. PubMedAbstract available
CHEN S, Venkatesan S, Arnetorp S, Bergenheim K, et al Features influencing the health and economic impact of preventing COVID-19 in
immunocompromised individuals.
PLoS Comput Biol. 2025;21:e1013072. PubMedAbstract available
GAZEAU ST, Deng X, Brunet-Ratnasingham E, Kaufmann DE, et al Using virtual patient cohorts to uncover immune response differences in cancer
and immunosuppressed COVID-19 patients.
PLoS Comput Biol. 2025;21:e1013170. PubMedAbstract available
MURPH AC, Gibson GC, Amona EB, Beesley LJ, et al Synthetic method of analogues for emerging infectious disease forecasting.
PLoS Comput Biol. 2025;21:e1013203. PubMedAbstract available
May 2025
POLCZ P, Reguly IZ, Tornai K, Juhasz J, et al Smart epidemic control: A hybrid model blending ODEs and agent-based simulations
for optimal, real-world intervention planning.
PLoS Comput Biol. 2025;21:e1013028. PubMedAbstract available
MEDINA CM, Palacios JA, Minin VM Accounting for reporting delays in real-time phylodynamic analyses with
preferential sampling.
PLoS Comput Biol. 2025;21:e1012970. PubMedAbstract available
April 2025
WU L, Baker CM, Tierney N, Carville K, et al Quantifying the impact of contact tracing interview prioritisation strategies on
disease transmission: A modelling study.
PLoS Comput Biol. 2025;21:e1012906. PubMedAbstract available
POZZATI G, Flores SC Combining flipped-classroom and spaced-repetition learning in a master-level
bioinformatics course.
PLoS Comput Biol. 2025;21:e1012863. PubMedAbstract available
TEOH YC, Noor MS, Aghakhani S, Girton J, et al Viral escape-inspired framework for structure-guided dual bait protein biosensor
design.
PLoS Comput Biol. 2025;21:e1012964. PubMedAbstract available
HODCROFT EB, Wohlfender MS, Neher RA, Riou J, et al Estimating Re and overdispersion in secondary cases from the size of identical
sequence clusters of SARS-CoV-2.
PLoS Comput Biol. 2025;21:e1012960. PubMedAbstract available
GROTBERG JB, Romano F, Grotberg JC Flow mechanisms of the air-blood barrier.
PLoS Comput Biol. 2025;21:e1012917. PubMedAbstract available
FERRAZ MVF, Adan WCS, Lima TE, Santos AJC, et al Design of nanobody targeting SARS-CoV-2 spike glycoprotein using CDR-grafting
assisted by molecular simulation and machine learning.
PLoS Comput Biol. 2025;21:e1012921. PubMedAbstract available
ZHANG R, Tai J, Yao Q, Yang W, et al Behavior-driven forecasts of neighborhood-level COVID-19 spread in New York City.
PLoS Comput Biol. 2025;21:e1012979. PubMedAbstract available
March 2025
EALES O, Shearer FM, McCaw JM How immunity shapes the long-term dynamics of influenza H3N2.
PLoS Comput Biol. 2025;21:e1012893. PubMedAbstract available
AMARAL AVR, Wolffram D, Moraga P, Bracher J, et al Post-processing and weighted combination of infectious disease nowcasts.
PLoS Comput Biol. 2025;21:e1012836. PubMedAbstract available
VON HOENE E, Roess A, Kavak H, Anderson T, et al Synthetic population generation with public health characteristics for spatial
agent-based models.
PLoS Comput Biol. 2025;21:e1012439. PubMedAbstract available
WANG M, Patsenker J, Li H, Kluger Y, et al Supervised fine-tuning of pre-trained antibody language models improves antigen
specificity prediction.
PLoS Comput Biol. 2025;21:e1012153. PubMedAbstract available
February 2025
BANHOLZER N, Middelkoop K, Leukes J, Weingartner E, et al Estimating Mycobacterium tuberculosis transmission in a South African clinic:
Spatiotemporal model based on person movements.
PLoS Comput Biol. 2025;21:e1012823. PubMedAbstract available
LOMBARD B, Moultrie H, Pulliam JRC, van Schalkwyk C, et al Simulation-based validation of a method to detect changes in SARS-CoV-2
reinfection risk.
PLoS Comput Biol. 2025;21:e1012792. PubMedAbstract available
LI W, Chen X, Liu S, Zhang C, et al Using a multi-strain infectious disease model with physical information neural
networks to study the time dependence of SARS-CoV-2 variants of concern.
PLoS Comput Biol. 2025;21:e1012778. PubMedAbstract available
SIMPSON J, Kasson PM Structural prediction of chimeric immunogen candidates to elicit targeted
antibodies against betacoronaviruses.
PLoS Comput Biol. 2025;21:e1012812. PubMedAbstract available
SHEN X, Rumack A, Wilder B, Tibshirani RJ, et al Nowcasting reported covid-19 hospitalizations using de-identified, aggregated
medical insurance claims data.
PLoS Comput Biol. 2025;21:e1012717. PubMedAbstract available
GAO S, Chakraborty AK, Greiner R, Lewis MA, et al Early detection of disease outbreaks and non-outbreaks using incidence data: A
framework using feature-based time series classification and machine learning.
PLoS Comput Biol. 2025;21:e1012782. PubMedAbstract available
CASABURI P, Dall'Amico L, Gozzi N, Kalimeri K, et al Resilience of mobility network to dynamic population response across COVID-19
interventions: Evidences from Chile.
PLoS Comput Biol. 2025;21:e1012802. PubMedAbstract available
ZHAN X, Xu Q, Zheng Y, Lu G, et al Reliability-enhanced data cleaning in biomedical machine learning using inductive
conformal prediction.
PLoS Comput Biol. 2025;21:e1012803. PubMedAbstract available
January 2025
BADROU A, Mariano CA, Ramirez GO, Shankel M, et al Towards constructing a generalized structural 3D breathing human lung model based
on experimental volumes, pressures, and strains.
PLoS Comput Biol. 2025;21:e1012680. PubMedAbstract available
BOTTCHER L, D'Orsogna MR, Chou T Aggregating multiple test results to improve medical decision-making.
PLoS Comput Biol. 2025;21:e1012749. PubMedAbstract available
December 2024
ABRAHAM AA, Tan ZC, Shrestha P, Bozich ER, et al A multivalent binding model infers antibody Fc species from systems serology.
PLoS Comput Biol. 2024;20:e1012663. PubMedAbstract available
ZAARAOUI H, Schumer C, Duval X, Hoen B, et al Modelling the effectiveness of antiviral treatment strategies to prevent
household transmission of acute respiratory viruses.
PLoS Comput Biol. 2024;20:e1012573. PubMedAbstract available
CALMON L, Colosi E, Bassignana G, Barrat A, et al Preserving friendships in school contacts: An algorithm to construct synthetic
temporal networks for epidemic modelling.
PLoS Comput Biol. 2024;20:e1012661. PubMedAbstract available
FAJARDO-FONTIVEROS O, Mattei M, Burgio G, Granell C, et al Machine learning mathematical models for incidence estimation during pandemics.
PLoS Comput Biol. 2024;20:e1012687. PubMedAbstract available
ZHANG XY, Yu LL, Wang WY, Sun GQ, et al Estimating the time-varying effective reproduction number via Cycle
Threshold-based Transformer.
PLoS Comput Biol. 2024;20:e1012694. PubMedAbstract available
ZUNKER H, Schmieding R, Kerkmann D, Schengen A, et al Novel travel time aware metapopulation models and multi-layer waning immunity for
late-phase epidemic and endemic scenarios.
PLoS Comput Biol. 2024;20:e1012630. PubMedAbstract available
CHERIAN P, Kshirsagar J, Neekhra B, Deshkar G, et al BharatSim: An agent-based modelling framework for India.
PLoS Comput Biol. 2024;20:e1012682. PubMedAbstract available
November 2024
SHE B, Smith RL, Pytlarz I, Sundaram S, et al A framework for counterfactual analysis, strategy evaluation, and control of
epidemics using reproduction number estimates.
PLoS Comput Biol. 2024;20:e1012569. PubMedAbstract available
October 2024
XIA F, Xiao Y, Ma J The optimal spatially-dependent control measures to effectively and economically
eliminate emerging infectious diseases.
PLoS Comput Biol. 2024;20:e1012498. PubMedAbstract available
MATHEBULA D, Amankwah A, Amouzouvi K, Assamagan KA, et al Modelling the impact of vaccination on COVID-19 in African countries.
PLoS Comput Biol. 2024;20:e1012456. PubMedAbstract available
ANDRONICO A, Paireau J, Cauchemez S Integrating information from historical data into mechanistic models for
influenza forecasting.
PLoS Comput Biol. 2024;20:e1012523. PubMedAbstract available
September 2024
JIANG J, Meng X, Wang Y, Zhuang Z, et al Effect of aberrant fructose metabolism following SARS-CoV-2 infection on
colorectal cancer patients' poor prognosis.
PLoS Comput Biol. 2024;20:e1012412. PubMedAbstract available
ABOUSAMRA E, Figgins M, Bedford T Fitness models provide accurate short-term forecasts of SARS-CoV-2 variant
frequency.
PLoS Comput Biol. 2024;20:e1012443. PubMedAbstract available
OLIVEIRA ROSTER KI, Kissler SM, Omoregie E, Wang JC, et al Surveillance strategies for the detection of new pathogen variants across
epidemiological contexts.
PLoS Comput Biol. 2024;20:e1012416. PubMedAbstract available
MILLEVOI C, Pasetto D, Ferronato M A Physics-Informed Neural Network approach for compartmental epidemiological
models.
PLoS Comput Biol. 2024;20:e1012387. PubMedAbstract available
LI K, Chaguza C, Stamp J, Chew YT, et al Genome-wide association study between SARS-CoV-2 single nucleotide polymorphisms
and virus copies during infections.
PLoS Comput Biol. 2024;20:e1012469. PubMedAbstract available
TANG B, Ma K, Liu Y, Wang X, et al Managing spatio-temporal heterogeneity of susceptibles by embedding it into an
homogeneous model: A mechanistic and deep learning study.
PLoS Comput Biol. 2024;20:e1012497. PubMedAbstract available
KUMAGAI Y BootCellNet, a resampling-based procedure, promotes unsupervised identification
of cell populations via robust inference of gene regulatory networks.
PLoS Comput Biol. 2024;20:e1012480. PubMedAbstract available
KEELING MJ, Dyson L A retrospective assessment of forecasting the peak of the SARS-CoV-2 Omicron BA.1
wave in England.
PLoS Comput Biol. 2024;20:e1012452. PubMedAbstract available
August 2024
BOUROS I, Hill EM, Keeling MJ, Moore S, et al Prioritising older individuals for COVID-19 booster vaccination leads to optimal
public health outcomes in a range of socio-economic settings.
PLoS Comput Biol. 2024;20:e1012309. PubMedAbstract available
SAAD-ROY CM, Morris SE, Boots M, Baker RE, et al Impact of waning immunity against SARS-CoV-2 severity exacerbated by vaccine
hesitancy.
PLoS Comput Biol. 2024;20:e1012211. PubMedAbstract available
LIN J, Aprahamian H, Golovko G A proactive/reactive mass screening approach with uncertain symptomatic cases.
PLoS Comput Biol. 2024;20:e1012308. PubMedAbstract available
BOLAJI AJ, Duggan AT In silico analyses identify sequence contamination thresholds for
Nanopore-generated SARS-CoV-2 sequences.
PLoS Comput Biol. 2024;20:e1011539. PubMedAbstract available
July 2024
LAU YC, Shan S, Wang D, Chen D, et al Forecasting of influenza activity and associated hospital admission burden and
estimating the impact of COVID-19 pandemic on 2019/20 winter season in Hong Kong.
PLoS Comput Biol. 2024;20:e1012311. PubMedAbstract available
DOYLE NJ, Cumming F, Thompson RN, Tildesley MJ, et al When should lockdown be implemented? Devising cost-effective strategies for
managing epidemics amid vaccine uncertainty.
PLoS Comput Biol. 2024;20:e1012010. PubMedAbstract available
ROSENBLATT E, Cook JD, DiRenzo GV, Grant EHC, et al Epidemiological modeling of SARS-CoV-2 in white-tailed deer (Odocoileus
virginianus) reveals conditions for introduction and widespread transmission.
PLoS Comput Biol. 2024;20:e1012263. PubMedAbstract available
GABERNET G, Marquez S, Bjornson R, Peltzer A, et al nf-core/airrflow: An adaptive immune receptor repertoire analysis workflow
employing the Immcantation framework.
PLoS Comput Biol. 2024;20:e1012265. PubMedAbstract available
June 2024
HILL EM, Petrou S, de Lusignan S, Yonova I, et al Correction: Seasonal influenza: Modelling approaches to capture immunity
propagation.
PLoS Comput Biol. 2024;20:e1012213. PubMedAbstract available
ROJAS CHAVEZ RA, Fili M, Han C, Rahman SA, et al Mapping the Evolutionary Space of SARS-CoV-2 Variants to Anticipate Emergence of
Subvariants Resistant to COVID-19 Therapeutics.
PLoS Comput Biol. 2024;20:e1012215. PubMedAbstract available
SHUBIN M, Brustad HK, Midtbo JE, Gunther F, et al The influence of cross-border mobility on the COVID-19 epidemic in Nordic
countries.
PLoS Comput Biol. 2024;20:e1012182. PubMedAbstract available
SALWIG S, Drefs J, Lucke J Zero-shot denoising of microscopy images recorded at high-resolution limits.
PLoS Comput Biol. 2024;20:e1012192. PubMedAbstract available
May 2024
HLADISH TJ, Pillai AN, Pearson CAB, Toh KB, et al Evaluating targeted COVID-19 vaccination strategies with agent-based modeling.
PLoS Comput Biol. 2024;20:e1012128. PubMedAbstract available
LOPEZ VK, Cramer EY, Pagano R, Drake JM, et al Challenges of COVID-19 Case Forecasting in the US, 2020-2021.
PLoS Comput Biol. 2024;20:e1011200. PubMedAbstract available
ASPLIN P, Keeling MJ, Mancy R, Hill EM, et al Epidemiological and health economic implications of symptom propagation in
respiratory pathogens: A mathematical modelling investigation.
PLoS Comput Biol. 2024;20:e1012096. PubMedAbstract available
TRINITY L, Stege U, Jabbari H Tying the knot: Unraveling the intricacies of the coronavirus frameshift
pseudoknot.
PLoS Comput Biol. 2024;20:e1011787. PubMedAbstract available
FOSTER ZSL, Tupper AS, Press CM, Grunwald NJ, et al Krisp: A Python package to aid in the design of CRISPR and amplification-based
diagnostic assays from whole genome sequencing data.
PLoS Comput Biol. 2024;20:e1012139. PubMedAbstract available
MASSEY A, Boennec C, Restrepo-Ortiz CX, Blanchet C, et al Real-time forecasting of COVID-19-related hospital strain in France using a
non-Markovian mechanistic model.
PLoS Comput Biol. 2024;20:e1012124. PubMedAbstract available
RAWSON T, Hinsley W, Sonabend R, Semenova E, et al The impact of health inequity on spatial variation of COVID-19 transmission in
England.
PLoS Comput Biol. 2024;20:e1012141. PubMedAbstract available
April 2024
BENISTON E, Skittrall JP Locations and structures of influenza A virus packaging-associated signals and
other functional elements via an in silico pipeline for predicting constrained
features in RNA viruses.
PLoS Comput Biol. 2024;20:e1012009. PubMedAbstract available
LISON A, Abbott S, Huisman J, Stadler T, et al Generative Bayesian modeling to nowcast the effective reproduction number from
line list data with missing symptom onset dates.
PLoS Comput Biol. 2024;20:e1012021. PubMedAbstract available
BOUMAN JA, Hauser A, Grimm SL, Wohlfender M, et al Bayesian workflow for time-varying transmission in stratified compartmental
infectious disease transmission models.
PLoS Comput Biol. 2024;20:e1011575. PubMedAbstract available
March 2024
SHAO Y, Magee AF, Vasylyeva TI, Suchard MA, et al Scalable gradients enable Hamiltonian Monte Carlo sampling for phylodynamic
inference under episodic birth-death-sampling models.
PLoS Comput Biol. 2024;20:e1011640. PubMedAbstract available
JIJON S, Czuppon P, Blanquart F, Debarre F, et al Using early detection data to estimate the date of emergence of an epidemic
outbreak.
PLoS Comput Biol. 2024;20:e1011934. PubMedAbstract available
HASSE T, Mantei E, Shahoei R, Pawnikar S, et al Mechanistic insights into ligand dissociation from the SARS-CoV-2 spike
glycoprotein.
PLoS Comput Biol. 2024;20:e1011955. PubMedAbstract available
PUNG R, Russell TW, Kucharski AJ Detecting changes in generation and serial intervals under varying pathogen
biology, contact patterns and outbreak response.
PLoS Comput Biol. 2024;20:e1011967. PubMedAbstract available
ATAMER BALKAN B, Chang Y, Sparnaaij M, Wouda B, et al The multi-dimensional challenges of controlling respiratory virus transmission in
indoor spaces: Insights from the linkage of a microscopic pedestrian simulation
and SARS-CoV-2 transmission model.
PLoS Comput Biol. 2024;20:e1011956. PubMedAbstract available
January 2024
CHAN LYH, Ro G, Midtbo JE, Di Ruscio F, et al Modeling geographic vaccination strategies for COVID-19 in Norway.
PLoS Comput Biol. 2024;20:e1011426. PubMedAbstract available
SHIN B, An G, Cockrell RC Examining B-cell dynamics and responsiveness in different inflammatory milieus
using an agent-based model.
PLoS Comput Biol. 2024;20:e1011776. PubMedAbstract available
GRUNNILL M, Arino J, McCarthy Z, Bragazzi NL, et al Modelling disease mitigation at mass gatherings: A case study of COVID-19 at the
2022 FIFA World Cup.
PLoS Comput Biol. 2024;20:e1011018. PubMedAbstract available
PLANK MJ, Watson L, Maclaren OJ Near-term forecasting of Covid-19 cases and hospitalisations in Aotearoa New
Zealand.
PLoS Comput Biol. 2024;20:e1011752. PubMedAbstract available
RAMACHANDRAN A, Lumetta SS, Chen D PandoGen: Generating complete instances of future SARS-CoV-2 sequences using Deep
Learning.
PLoS Comput Biol. 2024;20:e1011790. PubMedAbstract available
VAN BOVEN M, van Dorp CH, Westerhof I, Jaddoe V, et al Estimation of introduction and transmission rates of SARS-CoV-2 in a prospective
household study.
PLoS Comput Biol. 2024;20:e1011832. PubMedAbstract available
LAMB KD, Luka MM, Saathoff M, Orton RJ, et al Mutational signature dynamics indicate SARS-CoV-2's evolutionary capacity is
driven by host antiviral molecules.
PLoS Comput Biol. 2024;20:e1011795. PubMedAbstract available
December 2023
MOREL JD, Morel JM, Alvarez L Time warping between main epidemic time series in epidemiological surveillance.
PLoS Comput Biol. 2023;19:e1011757. PubMedAbstract available
JOHNSON KE, Pasco R, Woody S, Lachmann M, et al Optimizing COVID-19 testing strategies on college campuses: Evaluation of the
health and economic costs.
PLoS Comput Biol. 2023;19:e1011715. PubMedAbstract available
ISLAM MA, Getz M, Macklin P, Ford Versypt AN, et al An agent-based modeling approach for lung fibrosis in response to COVID-19.
PLoS Comput Biol. 2023;19:e1011741. PubMedAbstract available
November 2023
ALAHAKOON P, Taylor PG, McCaw JM How effective were Australian Quarantine Stations in mitigating transmission
aboard ships during the influenza pandemic of 1918-19?
PLoS Comput Biol. 2023;19:e1011656. PubMedAbstract available
DRAKE JM, Handel A, Marty E, O'Dea EB, et al A data-driven semi-parametric model of SARS-CoV-2 transmission in the United
States.
PLoS Comput Biol. 2023;19:e1011610. PubMedAbstract available
WOOD AJ, Sanchez AR, Bessell PR, Wightman R, et al Assessing the importance of demographic risk factors across two waves of
SARS-CoV-2 using fine-scale case data.
PLoS Comput Biol. 2023;19:e1011611. PubMedAbstract available
BROCKHAUS EK, Wolffram D, Stadler T, Osthege M, et al Why are different estimates of the effective reproductive number so different? A
case study on COVID-19 in Germany.
PLoS Comput Biol. 2023;19:e1011653. PubMedAbstract available
VAN DER ROEST BR, Bootsma MCJ, Fischer EAJ, Klinkenberg D, et al A Bayesian inference method to estimate transmission trees with multiple
introductions; applied to SARS-CoV-2 in Dutch mink farms.
PLoS Comput Biol. 2023;19:e1010928. PubMedAbstract available
WARD T, Morris M, Gelman A, Carpenter B, et al Bayesian spatial modelling of localised SARS-CoV-2 transmission through mobility
networks across England.
PLoS Comput Biol. 2023;19:e1011580. PubMedAbstract available
October 2023
HE M, Tang S, Xiao Y Combining the dynamic model and deep neural networks to identify the intensity of
interventions during COVID-19 pandemic.
PLoS Comput Biol. 2023;19:e1011535. PubMedAbstract available
September 2023
ZHOU Z, Li D, Zhao Z, Shi S, et al Dynamical modelling of viral infection and cooperative immune protection in
COVID-19 patients.
PLoS Comput Biol. 2023;19:e1011383. PubMedAbstract available
ZHANG K, Xia Z, Huang S, Sun GQ, et al Evaluating the impact of test-trace-isolate for COVID-19 management and
alternative strategies.
PLoS Comput Biol. 2023;19:e1011423. PubMedAbstract available
MUNDAY JD, Abbott S, Meakin S, Funk S, et al Evaluating the use of social contact data to produce age-specific short-term
forecasts of SARS-CoV-2 incidence in England.
PLoS Comput Biol. 2023;19:e1011453. PubMedAbstract available
OVERTON CE, Abbott S, Christie R, Cumming F, et al Nowcasting the 2022 mpox outbreak in England.
PLoS Comput Biol. 2023;19:e1011463. PubMedAbstract available
WANG Z, Wu P, Wang L, Li B, et al Marginal effects of public health measures and COVID-19 disease burden in China:
A large-scale modelling study.
PLoS Comput Biol. 2023;19:e1011492. PubMedAbstract available
August 2023
MORRIS M, Hayes P, Cox IJ, Lampos V, et al Neural network models for influenza forecasting with associated uncertainty using
Web search activity trends.
PLoS Comput Biol. 2023;19:e1011392. PubMedAbstract available
CLAIRON Q, Prague M, Planas D, Bruel T, et al Modeling the kinetics of the neutralizing antibody response against SARS-CoV-2
variants after several administrations of Bnt162b2.
PLoS Comput Biol. 2023;19:e1011282. PubMedAbstract available
WOLFFRAM D, Abbott S, An der Heiden M, Funk S, et al Collaborative nowcasting of COVID-19 hospitalization incidences in Germany.
PLoS Comput Biol. 2023;19:e1011394. PubMedAbstract available
RAACH B, Bundgaard N, Haase MJ, Starruss J, et al Influence of cell type specific infectivity and tissue composition on SARS-CoV-2
infection dynamics within human airway epithelium.
PLoS Comput Biol. 2023;19:e1011356. PubMedAbstract available
YEDIDYA Y, Davis D, Drier Y SARS-CoV-2 infection perturbs enhancer mediated transcriptional regulation of key
pathways.
PLoS Comput Biol. 2023;19:e1011397. PubMedAbstract available
MARC A, Marlin R, Donati F, Prague M, et al Impact of variants of concern on SARS-CoV-2 viral dynamics in non-human primates.
PLoS Comput Biol. 2023;19:e1010721. PubMedAbstract available
BOSSE NI, Abbott S, Cori A, van Leeuwen E, et al Scoring epidemiological forecasts on transformed scales.
PLoS Comput Biol. 2023;19:e1011393. PubMedAbstract available
NASH RK, Bhatt S, Cori A, Nouvellet P, et al Estimating the epidemic reproduction number from temporally aggregated incidence
data: A statistical modelling approach and software tool.
PLoS Comput Biol. 2023;19:e1011439. PubMedAbstract available
July 2023
SERVADIO JL, Thai PQ, Choisy M, Boni MF, et al Repeatability and timing of tropical influenza epidemics.
PLoS Comput Biol. 2023;19:e1011317. PubMedAbstract available
LOU S, Yang M, Li T, Zhao W, et al Constructing a full, multiple-layer interactome for SARS-CoV-2 in the context of
lung disease: Linking the virus with human genes and microbes.
PLoS Comput Biol. 2023;19:e1011222. PubMedAbstract available
ANDRESS C, Kappel K, Villena ME, Cuperlovic-Culf M, et al DAPTEV: Deep aptamer evolutionary modelling for COVID-19 drug design.
PLoS Comput Biol. 2023;19:e1010774. PubMedAbstract available
PARAG KV, Obolski U Risk averse reproduction numbers improve resurgence detection.
PLoS Comput Biol. 2023;19:e1011332. PubMedAbstract available
YANG W, Shaman J Development of Accurate Long-lead COVID-19 Forecast.
PLoS Comput Biol. 2023;19:e1011278. PubMedAbstract available
June 2023
FOX SJ, Javan E, Pasco R, Gibson GC, et al Disproportionate impacts of COVID-19 in a large US city.
PLoS Comput Biol. 2023;19:e1011149. PubMedAbstract available
DAN S, Chen Y, Chen Y, Monod M, et al Estimating fine age structure and time trends in human contact patterns from
coarse contact data: The Bayesian rate consistency model.
PLoS Comput Biol. 2023;19:e1011191. PubMedAbstract available
MOREL JD, Morel JM, Alvarez L Learning from the past: A short term forecast method for the COVID-19 incidence
curve.
PLoS Comput Biol. 2023;19:e1010790. PubMedAbstract available
XIONG YX, Wang MG, Chen L, Zhang XF, et al Cell-type annotation with accurate unseen cell-type identification using multiple
references.
PLoS Comput Biol. 2023;19:e1011261. PubMedAbstract available
BRETT TS, Bansal S, Rohani P Charting the spatial dynamics of early SARS-CoV-2 transmission in Washington
state.
PLoS Comput Biol. 2023;19:e1011263. PubMedAbstract available
May 2023
MICHALSKI M, Setny P Two modes of fusogenic action for influenza virus fusion peptide.
PLoS Comput Biol. 2023;19:e1011174. PubMedAbstract available
SPERRY MM, Oskotsky TT, Maric I, Kaushal S, et al Target-agnostic drug prediction integrated with medical record analysis uncovers
differential associations of statins with increased survival in COVID-19
patients.
PLoS Comput Biol. 2023;19:e1011050. PubMedAbstract available
IYANIWURA SA, Ringa N, Adu PA, Mak S, et al Understanding the impact of mobility on COVID-19 spread: A hybrid
gravity-metapopulation model of COVID-19.
PLoS Comput Biol. 2023;19:e1011123. PubMedAbstract available
GHOSH S, Birrell PJ, De Angelis D An approximate diffusion process for environmental stochasticity in infectious
disease transmission modelling.
PLoS Comput Biol. 2023;19:e1011088. PubMedAbstract available
SEKAR RV, Oliva PJ, Woodside MT Modelling the structures of frameshift-stimulatory pseudoknots from
representative bat coronaviruses.
PLoS Comput Biol. 2023;19:e1011124. PubMedAbstract available
SUNAGAWA J, Komorizono R, Park H, Hart WS, et al Contact-number-driven virus evolution: A multi-level modeling framework for the
evolution of acute or persistent RNA virus infection.
PLoS Comput Biol. 2023;19:e1011173. PubMedAbstract available
April 2023
ZHAO C, Zhang J, Hou X, Yeung CH, et al A high-frequency mobility big-data reveals how COVID-19 spread across
professions, locations and age groups.
PLoS Comput Biol. 2023;19:e1011083. PubMedAbstract available
March 2023
HARVEY WT, Davies V, Daniels RS, Whittaker L, et al A Bayesian approach to incorporate structural data into the mapping of genotype
to antigenic phenotype of influenza A(H3N2) viruses.
PLoS Comput Biol. 2023;19:e1010885. PubMedAbstract available
MURGA A, Bale R, Li CG, Ito K, et al Large eddy simulation of droplet transport and deposition in the human
respiratory tract to evaluate inhalation risk.
PLoS Comput Biol. 2023;19:e1010972. PubMedAbstract available
DAUTEL KA, Agyingi E, Pathmanathan P Validation framework for epidemiological models with application to COVID-19
models.
PLoS Comput Biol. 2023;19:e1010968. PubMedAbstract available
LEONIDOU N, Renz A, Mostolizadeh R, Drager A, et al New workflow predicts drug targets against SARS-CoV-2 via metabolic changes in
infected cells.
PLoS Comput Biol. 2023;19:e1010903. PubMedAbstract available
CAPPELLO L, Kim J, Palacios JA adaPop: Bayesian inference of dependent population dynamics in coalescent models.
PLoS Comput Biol. 2023;19:e1010897. PubMedAbstract available
February 2023
HAW DJ, Biggerstaff M, Prasad P, Walker J, et al Using real-time data to guide decision-making during an influenza pandemic: A
modelling analysis.
PLoS Comput Biol. 2023;19:e1010893. PubMedAbstract available
NIELSEN BF, Saad-Roy CM, Li Y, Sneppen K, et al Host heterogeneity and epistasis explain punctuated evolution of SARS-CoV-2.
PLoS Comput Biol. 2023;19:e1010896. PubMedAbstract available
TRINITY L, Wark I, Lansing L, Jabbari H, et al Shapify: Paths to SARS-CoV-2 frameshifting pseudoknot.
PLoS Comput Biol. 2023;19:e1010922. PubMedAbstract available