A New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics
Cori, Anne, Ferguson, Neil M., Fraser, Christophe, Cauchemez, Simon·2013·American Journal of Epidemiology
Cited by (1,000)
Items 101–200 of 1,000
- Assessing the impact of non-pharmaceutical interventions on SARS-CoV-2 transmission in SwitzerlandJoseph C. Lemaitre, Javier Perez‐Saez, Andrew S. Azman, Andrea Rinaldo, Jacques Fellay · 2020 · Swiss Medical Weekly
- Lessons from SARS-CoV-2 in India: A data-driven framework for pandemic resilienceMaxwell Salvatore, Rupam Bhattacharyya, Soumik Purkayastha, Lauren Zimmermann, Debashree Ray, Aditi Hazra, Michael Kleinsasser, Thomas A. Mellan, C Whittaker, Seth R Flaxman et al. · 2022 · Science Advances
- A simple approach to measure transmissibility and forecast incidencePierre Nouvellet, Anne Cori, Tini Garske, Isobel M. Blake, Ilaria Dorigatti, Wes R. Hinsley, Thibaut Jombart, Harriet L. Mills, Gemma L. Nedjati-Gilani, Maria D. Van Kerkhove et al. · 2017 · Epidemics
- The epidemiology of Mayaro virus in the Americas: A systematic review and key parameter estimates for outbreak modellingEdgar-Yaset Caicedo, Kelly Charniga, Amanecer Rueda-Monsalbe, Ilaria Dorigatti, Yardany Rafael Méndez, Arran Hamlet, Jean‐Paul Carrera, Zulma M. Cucunubá · 2021 · PLoS neglected tropical diseases
- Cholera outbreaks in sub-Saharan Africa during 2010-2019: a descriptive analysisQulu Zheng, Francisco Javier Luquero, Iza Ciglenečki, Joseph Francis Wamala, Abdinasir Abubakar, Placide Okitayemba Welo, Mukemil Hussen, Mesfin Wossen, Sebastian Yennan, Alama Keita et al. · 2022 · International Journal of Infectious Diseases
- Impact of interventions and the incidence of ebola virus disease in Liberia—implications for future epidemicsThomas Dean Kirsch, Heidi Moseson, Moses B. F. Massaquoi, Tolbert Nyenswah, Rachel Goodermote, Isabel Rodríguez-Barraquer, Justin Lessler, Derek A T Cumings, David H. Peters · 2016 · Health Policy and Planning
- Testing and reopening in an SEIR modelDavid Berger, Kyle Herkenhoff, Chengdai Huang, Simon Mongey · 2020 · Review of Economic Dynamics
- Data-driven methods for present and future pandemics: Monitoring, modelling and managingTeodoro Álamo, Daniel Gutiérrez Reina, Pablo Millán, Víctor M. Preciado, Giulia Giordano · 2021 · Annual Reviews in Control
- Urban dynamics through the lens of human mobilityYanyan Xu, Luis E. Olmos, David Mateo, Alberto Hernando, Xiaokang Yang, Marta C. González · 2023 · Nature Computational Science
- Bayesian inference of transmission chains using timing of symptoms, pathogen genomes and contact dataFinlay Campbell, Anne Cori, Neil M. Ferguson, Thibaut Jombart · 2019 · PLoS Computational Biology
- What Explains Temporal and Geographic Variation in the Early US Coronavirus Pandemic?Hunt Allcott, Levi Boxell, Jacob Conway, Billy Ferguson, Matthew Aaron Gentzkow, Benjamin Goldman · 2020 · National Bureau of Economic Research
- Contact, travel, and transmission: The impact of winter holidays on influenza dynamics in the United StatesAnne Ewing, Elizabeth C. Lee, Cecile G. Viboud, Shweta Bansal · 2016 · The Journal of Infectious Diseases
- Comprehensive public health evaluation of lockdown as a non-pharmaceutical intervention on COVID-19 spread in India: national trends masking state-level variationsDeepankar Basu, Maxwell Salvatore, Debashree Ray, Mike Kleinsasser, Soumik Purkayastha, Rupam Bhattacharyya, Bhramar Mukherjee · 2020 · BMJ Open
- Large-scale Lassa fever outbreaks in Nigeria: quantifying the association between disease reproduction number and local rainfallShi Zhao, Salihu S. Musa, Hao Fu, Daihai He, Jing Qin · 2020 · Epidemiology and Infection
- The second and third waves in India: when will the pandemic be culminated?C. Kavitha, Arulprakash Gowrisankar, Santo Banerjee · 2021 · The European Physical Journal Plus
- Genomic Epidemiology Analysis of Infectious Disease Outbreaks Using TransPhyloXavier Didelot, Michelle Kendall, Yuanwei Xu, Peter J White, Noel Denis McCarthy · 2021 · Current Protocols
- College openings in the United States increase mobility and COVID-19 incidenceMartin S. Andersen, Ana I. Bento, Anirban Basu, Christopher R. Marsicano, Kosali Ilayperuma Simon · 2022 · PLoS ONE
- Early epidemiological signatures of novel SARS-CoV-2 variants: establishment of B.1.617.2 in EnglandRobert Challen, Louise Dyson, Christopher E. Overton, Laura M. Guzman-Rincon, Edward M. Hill, Helena B. Stage, Ellen Brooks‐Pollock, Lorenzo Pellis, Francesca Scarabel, David J. Pascall et al. · 2021 · medRxiv
- Comparison of control and transmission of COVID-19 across epidemic waves in Hong Kong: an observational studyBingyi Yang, Yun Lin, Weijia Xiong, Chang Liu, Huizhi Gao, Faith C. S. Ho, Jiayi Zhou, Ru Zhang, Jessica Y. Wong, Justin K. Cheung et al. · 2023 · The Lancet Regional Health - Western Pacific
- Real-time detection of COVID-19 epicenters within the United States using a network of smart thermometersSamuel D. Chamberlain, Inder Singh, C. Ariza, Amy L. Daitch, P. Philips, Benjamin D. Dalziel · 2020 · medRxiv
- Modelling insights into the COVID-19 pandemicMichael T. Meehan, Diana Patricia Rojas, Adeshina Israel Adekunle, Oyelola Abdulwasiu Adegboye, Jamie M. Caldwell, Evelyn M. Turek, Bridget M Williams, Ben J. Marais, James McCracken Trauer, Emma Sue McBryde · 2020 · Paediatric Respiratory Reviews
- Estimation of the basic reproduction number (R0) for the novel coronavirus disease in Sri LankaSamath Dhamminda Dharmaratne, Supun Sudaraka Manathunga, Ishanya Ayeshini Abeyagunawardena, Kasun Manchanayake, Mahen Kothalawala, Wasantha Gunathunga · 2020 · Virology Journal
- Mathematical perspective of Covid-19 pandemic: Disease extinction criteria in deterministic and stochastic modelsDebadatta Adak, Abhijit Majumder, Nandadulal Bairagi · 2020 · Chaos Solitons & Fractals
- Are Epidemic Growth Rates More Informative than Reproduction Numbers?Kris Varun Parag, Robin N. Thompson, Christl Ann Donnelly · 2022 · Journal of the Royal Statistical Society Series A (Statistics in Society)
- COVID-19 outbreak reproduction number estimations and forecasting in Marche, ItalyNalini Chintalapudi, Gopi Battineni, Getu Gamo Sagaro, Francesco Amenta · 2020 · International Journal of Infectious Diseases
- COVID-19: Short term prediction model using daily incidence dataHongwei Zhao, Naveed Merchant, Alyssa McNulty, Tiffany A. Radcliff, Murray J. Côté, Rebecca S. B. Fischer, Huiyan Sang, Marcia G. Ory · 2021 · PLoS ONE
- Accounting for non-stationarity in epidemiology by embedding time-varying parameters in stochastic modelsBernard Cazelles, Clara Champagne, Joseph Dureau · 2018 · PLoS Computational Biology
- Effectiveness of Localized Lockdowns in the COVID-19 PandemicYige Li, Eduardo A. Undurraga, José R. Zubizarreta · 2022 · American Journal of Epidemiology
- COVID-19 non-pharmaceutical intervention portfolio effectiveness and risk communication predominanceLouis Yat Hin Chan, Baoyin Yuan, Matteo Convertino · 2021 · Scientific Reports
- estimateR: an R package to estimate and monitor the effective reproductive numberJérémie Scire, Jana S. Huisman, Ana Grosu, Daniel C. Angst, Adrian Lison, Jinzhou Li, Marloes H. Maathuis, Sebastian Bonhoeffer, Tanja Stadler · 2023 · BMC Bioinformatics
- Underdetected dispersal and extensive local transmission drove the 2022 mpox epidemicMiguel I. Paredes, Nashwa Ahmed, Marlin D Figgins, Vittoria Colizza A, Philippe Lemey, John T. McCrone, Nicola Felix Müller, Cécile Tran Kiem, Trevor Bedford · 2024 · Cell
- Genomic Analysis and Comparison of Two Gonorrhea OutbreaksXavier Didelot, Janina Dordel, Lilith K. Whittles, Caitlin Collins, Nicole Bilek, Cynthia Bishop, Peter J White, David M. Aanensen, Julian Parkhill, Stephen D. Bentley et al. · 2016 · mBio
- Estimating and Forecasting Disease Scenarios for COVID-19 with an SIR ModelAndrew G. Atkeson, Karen Kopecky, Tao A. Zha · 2020 · National Bureau of Economic Research
- Transmission from vaccinated individuals in a large SARS-CoV-2 Delta variant outbreakKatherine J. Siddle, Lydia Andreyevna Krasilnikova, Gage K. Moreno, Stephen F. Schaffner, Johanna Vostok, Nicholas A. Fitzgerald, Jacob E. Lemieux, Nikolaos Barkas, Christine Loreth, Ivan Specht et al. · 2021 · Cell
- Estimating and explaining the spread of COVID-19 at the county level in the USAAnthony R. Ives, Claudio Bozzuto · 2021 · Communications Biology
- A Physics-Informed Neural Network approach for compartmental epidemiological modelsCaterina Millevoi, Damiano Pasetto, Massimiliano Ferronato · 2024 · PLoS Computational Biology
- Estimation of the serial interval and basic reproduction number of COVID‐19 in Qom, Iran, and three other countries: A data‐driven analysis in the early phase of the outbreakMohammad Aghaali, Goodarz Kolifarhood, Roya Nikbakht, Hossein Mozafar Saadati, Seyed Saeed Hashemi Nazari · 2020 · Transboundary and Emerging Diseases
- BNT162b2 Vaccination Effectively Combats the Rapid Rise of SARS-CoV-2 Variant B.1.1.7 in High Risk Populations in IsraelAriel Munitz, Matan Yechezkel, Yoav Dickstein, Dan Yamin, Motti Gerlic · 2021 · Cell Reports Medicine
- Epidemic curves made easy using the R package incidenceZhian N. Kamvar, Jun Cai, Juliet R.C. Pulliam, Jakob Schumacher, Thibaut Jombart · 2019 · F1000Research
- Estimating effects of physical distancing on the COVID-19 pandemic using an urban mobility indexJean-Paul R. Soucy, Shelby L. Sturrock, Isha Berry, Duncan J. Westwood, Nick Daneman, Derek R. MacFadden, Kevin Antoine Brown · 2020 · medRxiv
- Factors Associated With Measles Transmission in the United States During the Postelimination EraPaul A. Gastañaduy, Sebastian Funk, Benjamin Alan Lopman, Paul A. Rota, Manoj Gambhir, Bryan Thomas Grenfell, Prabasaj Paul · 2019 · Archives of Pediatrics and Adolescent Medicine
- Effect of Nonpharmaceutical Interventions on Transmission of Severe Acute Respiratory Syndrome Coronavirus 2, South Korea, 2020Sukhyun Ryu, Seikh Taslim Ali, Cheolsun Jang, Baekjin Kim, Benjamin John Cowling · 2020 · Emerging infectious diseases
- Estimation of reproduction numbers of COVID-19 in typical countries and epidemic trends under different prevention and control scenariosChen Xu, Yinqiao Dong, Xiaoyue Yu, Huwen Wang, Lhakpa Tsamlag, Ruijie Chang, Ruijie Chang, Zezhou Wang, Yuelin Yu, Rusi Long et al. · 2020 · Frontiers of Medicine
- Rapid review and meta-analysis of serial intervals for SARS-CoV-2 Delta and Omicron variantsZachary J. Madewell, Yang Yang, Ira M. Longini, M. Elizabeth Halloran, Alessandro Vespignani, Natalie E. Dean · 2023 · BMC Infectious Diseases
- Autochthonous dengue outbreak in Marche Region, Central Italy, August to October 2024Chiara Sacco, Augusto Liverani, Giulietta Venturi, Stefano Gavaudan, Flavia Riccardo, Giovanna Salvoni, Claudia Fortuna, Katia Marinelli, Giulia Marsili, Alessia Pesaresi et al. · 2024 · Eurosurveillance
- Epidemic trends, public health response and health system capacity: the Chilean experience in four months of the COVID-19 pandemicMauricio Canals, Cristóbal Cuadrado, Andrea Canals, Karla Yohannessen V, Luis Álvaro Lefio, María Paz Bertoglia, Pamela Eguiguren, Izkia Siches, Verónica Iglesias, Óscar Arteaga · 2020 · Revista Panamericana de Salud Pública
- Transmission dynamics and control of COVID-19 in Chile, March-October, 2020Amna Tariq, Eduardo A. Undurraga, Carla Castillo-Laborde, Katia Vogt-Geisse, Ruiyan Luo, RICHARD B. ROTHENBERG, Gerardo Chowell · 2021 · PLoS neglected tropical diseases
- Analyzing and Modeling the Spread of SARS-CoV-2 Omicron Lineages BA.1 and BA.2, France, September 2021–February 2022Mircea T. Sofonea, Bénédicte Roquebert, Vincent Foulongne, David Morquin, Laura Verdurme, Sabine Trombert‐Paolantoni, Mathilde Roussel, Jean-Christophe Bonetti, Judith Zerah, Stéphanie Haïm‐Boukobza et al. · 2022 · Emerging infectious diseases
- Real-time estimation of the epidemic reproduction number: Scoping review of the applications and challengesRebecca K. Nash, Pierre Nouvellet, Anne Cori · 2022 · PLOS Digital Health
- Impacts of human mobility on the citywide transmission dynamics of 18 respiratory viruses in pre- and post-COVID-19 pandemic yearsAmanda C. Perofsky, C. Hansen, Roy Burstein, Shanda Boyle, Robin A. Prentice, Cooper Marshall, David Reinhart, Ben Capodanno, Melissa Truong, Kristen Schwabe‐Fry et al. · 2024 · Nature Communications
- A new estimation method for COVID-19 time-varying reproduction number using active casesAgus Hasan, Hadi Susanto, Venansius Ryan Tjahjono, Rudy Kusdiantara, Endah R.M. Putri, Nuning Nuraini, Panji Fortuna Hadisoemarto · 2022 · Scientific Reports
- Estimating asymptomatic, undetected and total cases for the COVID-19 outbreak in Wuhan: a mathematical modeling studyXi Huo, Jing Chen, Shigui Ruan · 2021 · BMC Infectious Diseases
- A comparison of five epidemiological models for transmission of SARS-CoV-2 in IndiaSoumik Purkayastha, Rupam Bhattacharyya, Ritwik Bhaduri, Ritoban Kundu, Xuelin Gu, Maxwell Salvatore, Debashree Ray, Swapnil Mishra, Bhramar Mukherjee · 2021 · BMC Infectious Diseases
- Containment efficiency and control strategies for the corona pandemic costsClaudius Gros, Roser Valenti, Lukas Stelz, Kilian Valenti, Daniel Gros · 2021 · Scientific Reports
- Commentary on the use of the reproduction number R during the COVID-19 pandemicCarolin Vegvari, Sam Abbott, Frank Ball, Ellen Brooks‐Pollock, Robert Challen, Benjamin S. Collyer, C. E. Dangerfield, Julia R. Gog, Katelyn M. Gostic, Jane Marie Heffernan et al. · 2021 · Statistical Methods in Medical Research
- Modelling the effective reproduction number of vector-borne diseases: the yellow fever outbreak in Luanda, Angola 2015–2016 as an exampleShi Zhao, Salihu S. Musa, Jay Thomas Hebert, Peihua Cao, Jinjun Ran, Jiayi Meng, Daihai He, Jing Qin · 2020 · PeerJ
- Fundamental Identifiability Limits in Molecular EpidemiologyStilianos Louca, Angela McLaughlin, Ailene MacPherson, Jeffrey B. Joy, Matthew W. Pennell · 2021 · Molecular Biology and Evolution
- The Epidemiology of COVID-19 in MalaysiaVivek Jason Jayaraj, Sanjay Rampal, Chiu‐Wan Ng, Diane Woei-Quan Chong · 2021 · The Lancet Regional Health - Western Pacific
- Estimating relative generation times and reproduction numbers of Omicron BA.1 and BA.2 with respect to Delta variant in DenmarkKimihito Ito, Chayada Piantham, Hiroshi Nishiura · 2022 · Mathematical Biosciences & Engineering
- Estimating the effective reproduction number of dengue considering temperature-dependent generation intervalsCláudia Torres Codeço, Daniel Antunes Maciel Villela, Flávio Codeço Coelho · 2018 · Epidemics
- Dynamics of conflict during the Ebola outbreak in the Democratic Republic of the Congo 2018–2019Moritz U. G. Kraemer, David M. Pigott, Sarah Catherine Hill, Samantha Vanderslott, Robert C. Reiner, Stephanie Stasse, John S. Brownstein, Bernardo Gutiérrez, Francis Dennig, Simon Iain Hay et al. · 2020 · BMC Medicine
- Using information theory to optimise epidemic models for real-time prediction and estimationKris Varun Parag, Christl Ann Donnelly · 2020 · PLoS Computational Biology
- A Comparative Analysis of Statistical Methods to Estimate the Reproduction Number in Emerging Epidemics, With Implications for the Current Coronavirus Disease 2019 (COVID-19) PandemicMegan O’Driscoll, Carole Harry, Christl Ann Donnelly, Anne Cori, Ilaria Dorigatti · 2020 · Clinical Infectious Diseases
- Nowcasting for Real-Time COVID-19 Tracking in New York City: An Evaluation Using Reportable Disease Data From Early in the PandemicSharon K. Greene, Sarah F. McGough, Gretchen M. Culp, Laura E. Graf, Marc Lipsitch, Nicolas A. Menzies, Rebecca J. Kahn · 2021 · JMIR Public Health and Surveillance
- Inferring time-varying generation time, serial interval, and incubation period distributions for COVID-19Dongxuan Chen, Yiu Chung Lau, Xiao-Ke Xu, Lin Wang, Zhanwei Du, Tim K. Tsang, Peng Wu, Eric H. Y. Lau, Jacco Wallinga, Benjamin John Cowling et al. · 2022 · Nature Communications
- Spatiotemporal Analysis of the 2014 Ebola Epidemic in West AfricaJantien A. Backer, Jacco Wallinga · 2016 · PLoS Computational Biology
- Development of a Critical Care Response - Experiences from Italy During the Coronavirus Disease 2019 PandemicEmanuele Rezoagli, Aurora Magliocca, Giacomo Bellani, Antonio Pesenti, Giacomo Grasselli · 2021 · Anesthesiology Clinics
- Epidemiological drivers of transmissibility and severity of SARS-CoV-2 in EnglandPerez-Guzman, Pablo N., Knock, Edward, Imai, Natsuko, Rawson, Thomas, Santoni, Cosmo Nazzareno, Alcada, Joana, Whittles, Lilith K., Thekke Kanapram, Divya, Sonabend, Raphael, Gaythorpe, Katy A. M. et al. · 2023 · Nature Communications
- OutbreakTools: A new platform for disease outbreak analysis using the R softwareThibaut Jombart, David M. Aanensen, Marc Baguelin, Paul Birrell, Simon Cauchemez, Anton Camacho, Caroline Colijn, Caitlin Collins, Anne Cori, Xavier Didelot et al. · 2014 · Epidemics
- High Rate of Non-Human Feeding by Aedes aegypti Reduces Zika Virus Transmission in South TexasMark F. Olson, Martial L. Ndeffo-Mbah, Jose Guillermo Juarez, Selene Garcia-Luna, Estelle M. Martin, Monica K. Borucki, Matthias A. Frank, José Guillermo Estrada-Franco, Mario Alberto Rodríguez-Pérez, Nadia A. Fernández‐Santos et al. · 2020 · Viruses
- Spatial variability in reproduction number and doubling time across two waves of the COVID-19 pandemic in South Korea, February to July, 2020Eunha Shim, Amna Tariq, Gerardo Chowell · 2020 · International Journal of Infectious Diseases
- EpiEstim: Estimate Time Varying Reproduction Numbers from Epidemic CurvesAnne Cori · 2012
- Transmission dynamics and control of two epidemic waves of SARS-CoV-2 in South KoreaSukhyun Ryu, Sheikh Taslim Ali, Eunbi Noh, Dasom Kim, Eric H. Y. Lau, Benjamin John Cowling · 2021 · BMC Infectious Diseases
- A critical evaluation of Nigeria’s response to the first wave of COVID-19Ezekiel Damilare Jacobs, Malachy Ifeanyi Okeke · 2022 · Bulletin of the National Research Centre/Bulletin of the National Research Center
- Estimating the epidemic reproduction number from temporally aggregated incidence data: A statistical modelling approach and software toolRebecca K. Nash, Samir Bhatt, Anne Cori, Pierre Nouvellet · 2023 · PLoS Computational Biology
- Forecasting hospital demand in metropolitan areas during the current COVID-19 pandemic and estimates of lockdown-induced 2nd wavesMarcos A. Capistrán, Antonio Capella, J. Andrés Christen · 2021 · PLoS ONE
- The Effectiveness Of Government Masking Mandates On COVID-19 County-Level Case Incidence Across The United States, 2020Jing Yang Huang, Brian T. Fisher, Vicky W. Tam, Zi Wang, Lihai Song, Jiasheng Shi, Caroline La Rochelle, Xi Wang, Jeffrey S. Morris, Susan E Coffin et al. · 2022 · Health Affairs
- Monkeypox: Early estimation of basic reproduction number R 0 in EuropeFrancesco Branda, Massimo Pierini, Sandra Mazzoli · 2022 · Journal of Medical Virology
- Using digital traces to build prospective and real-time county-level early warning systems to anticipate COVID-19 outbreaks in the United StatesLucas Martins Stolerman, Leonardo Clemente, Canelle Poirier, Kris V. Parag, Atreyee Majumder, Serge Masyn, Bernd Resch, Mauricio Santillana · 2023 · Science Advances
- A graph-based evidence synthesis approach to detecting outbreak clusters: An application to dog rabiesAnne Cori, Pierre Nouvellet, Tini Garske, Hervé Bourhy, Emmanuel Rivalyn Nakouné, Thibaut Jombart · 2018 · PLoS Computational Biology
- Rapid Changes in the Phytoplankton Community of a Subtropical, Shallow, Hypereutrophic Lake During the Rainy SeasonOsiris Díaz-Torres, José de Anda, Ofelia Yadira Lugo-Melchor, Adriana Pacheco, Danielle Annette Orozco-Nunnelly, Harvey Shear, Carolina Senés‐Guerrero, Misael Sebastian Gradilla Hernandez · 2021 · Frontiers in Microbiology
- Exploring surveillance data biases when estimating the reproduction number: with insights into subpopulation transmission of COVID-19 in EnglandKatharine Sherratt, Sam Abbott, Sophie R. Meakin, Joel Hellewell, James D Munday, Nikos I Bosse, CMMID COVID-19 Working Group, Mark Jit, Sebastian Funk · 2021 · Philosophical Transactions of the Royal Society B Biological Sciences
- Quantification of the spread of SARS-CoV-2 variant B.1.1.7 in SwitzerlandChaoran Chen, Sarah Nadeau, Ivan Topolsky, Marc Manceau, Jana S. Huisman, Kim Philipp Jablonski, Lara Fuhrmann, David Dreifuss, Katharina Jahn, Christiane Beckmann et al. · 2021 · Epidemics
- The importance of the generation interval in investigating dynamics and control of new SARS-CoV-2 variantsSang Woo Park, Benjamin M. Bolker, Sebastian Funk, Charlotte Jessica E. Metcalf, Joshua S. Weitz, Bryan Thomas Grenfell, Jonathan G. Dushoff · 2022 · Journal of The Royal Society Interface
- Economic and Health Impacts of Social Distancing Policies during the Coronavirus PandemicHunt Allcott, Levi Boxell, Jacob Conway, Billy Ferguson, Matthew Aaron Gentzkow, Benjamin Goldman · 2020 · SSRN Electronic Journal
- COVID-19 epidemic monitoring after non-pharmaceutical interventions: The use of time-varying reproduction number in a country with a large migrant populationAdil Said Al Wahaibi, Abdullah Al Manji, Amal Saif Al-Maani, Bader Al Rawahi, Khalid Al Harthy, Fatma Alyaquobi, Amina Al‐Jardani, Eskild Petersen, Seif Al Abri · 2020 · International Journal of Infectious Diseases
- The methodologies to assess the effectiveness of non-pharmaceutical interventions during COVID-19: a systematic reviewNicolas Banholzer, Adrian Lison, Dennis Özcelik, Tanja Stadler, Stefan Feuerriegel, Werner Vach · 2022 · European Journal of Epidemiology
- Estimating effective reproduction number using generation time versus serial interval, with application to covid-19 in the Greater Toronto Area, CanadaJesse Knight, Sharmistha Mishra · 2020 · Infectious Disease Modelling
- Successive epidemic waves of cholera in South Sudan between 2014 and 2017: a descriptive epidemiological studyForrest K. Jones, Joseph Francis Wamala, John Pasquale Rumunu, Pinyi Nyimol Mawien, Mathew Tut M. Kol, Shirlee Wohl, Lul Lojok Deng, Lorenzo Pezzoli, Linda Haj Omar, Justin Lessler et al. · 2020 · The Lancet Planetary Health
- Influenza Virus: Tracking, Predicting, and ForecastingSheikh Taslim Ali, Benjamin John Cowling · 2020 · Annual Review of Public Health
- Epidemiological characteristics of the first 100 cases of coronavirus disease 2019 (COVID-19) in Hong Kong Special Administrative Region, China, a city with a stringent containment policyChristopher K.C. Lai, Rita W. Y. Ng, Martin C. S. Wong, Ka Chun Chong, Yun Kit Yeoh, Zigui Chen, Paul K.S. Chan · 2020 · International Journal of Epidemiology
- Meta-analysis of the severe acute respiratory syndrome coronavirus 2 serial intervals and the impact of parameter uncertainty on the coronavirus disease 2019 reproduction numberRobert Challen, Ellen Brooks‐Pollock, Krasimira T. Tsaneva-Atanasova, León Danon · 2021 · Statistical Methods in Medical Research
- Mitigation of SARS-CoV-2 transmission at a large public universityDiana Rose E. Rañoa, Robin L. Holland, Fadi G. Alnaji, Kelsie J. Green, Leyi Wang, Richard L. Fredrickson, Tong Wang, George N. Wong, Johnny A. Uelmen, Sergei Maslov et al. · 2022 · Nature Communications
- Transmission dynamics of the 2009 influenza A (H1N1) pandemic in India: The impact of holiday-related school closureSheikh Taslim Ali, A. S. Kadi, Neil M. Ferguson · 2013 · Epidemics
- Reconstruction and prediction of viral disease epidemicsMoritz U. G. Kraemer, Derek A. T. Cummings, Sebastian Funk, Robert C. Reiner, Nuno Rodrigues Faria, Oliver G. Pybus, Simon Cauchemez · 2018 · Epidemiology and Infection
- Improving local prevalence estimates of SARS-CoV-2 infections using a causal debiasing frameworkGeorge Nicholson, Brieuc Lehmann, Tullia Padellini, Koen Bernardus Pouwels, Radka Jersakova, James Lomax, Ruairidh King, Ann‐Marie Mallon, Peter John Diggle, Sylvia T. Richardson et al. · 2021 · Nature Microbiology
- COVID-19 monitoring with sparse sampling of sewered and non-sewered wastewater in urban and rural communitiesDhammika Leshan Wannigama, Mohan Amarasiri, Parichart Hongsing, Cameron Paul Hurst, Charin Modchang, Sudarat Chadsuthi, Suparinthon Anupong, Phatthranit Phattharapornjaroen, Ali Hosseini Rad S.M., Stefan Fernandez et al. · 2023 · iScience
- Explosive nosocomial outbreak of SARS-CoV-2 in a rehabilitation clinic: the limits of genomics for outbreak reconstructionMohamed Abbas, Tomás Robalo Nunes, Anne Cori, Samuel Cordey, Florian Laubscher, Stéphanie Baggio, Thibaut Jombart, Anne Iten, Laure Vieux, D. Teixeira et al. · 2021 · Journal of Hospital Infection
- EpiLPS: A fast and flexible Bayesian tool for estimation of the time-varying reproduction numberOswaldo Gressani, Jacco Wallinga, Christian Lorenz Althaus, Niel Hens, Christel Faes · 2022 · PLoS Computational Biology
- Unreported cases in the 2014-2016 Ebola epidemic: Spatiotemporal variation, and implications for estimating transmissionBenjamin D. Dalziel, Max S. Y. Lau, Amanda Tiffany, Amanda McClelland, Jon Zelner, Jessica Bliss, Bryan Thomas Grenfell · 2018 · PLoS neglected tropical diseases