Antigenic Diversity, Transmission Mechanisms, and the Evolution of Pathogens. - Alexander Lange; Neil M. Ferguson (PLoS Comput. Biol., 2009)

Estimating the Location and Spatial Extent of a Covert Anthrax Release. - Judith Legrand; Joseph R. Egan; Ian M. Hall; Simon Cauchemez; Steve Leach; Neil M. Ferguson (PLoS Comput. Biol., 2009)

Achieving Synergy in the Industry-Academia Relationship. - Neil M. Ferguson (Computer, 2011)

Determinants of the Spatiotemporal Dynamics of the 2009 H1N1 Pandemic in Europe: Implications for Real-Time Modelling. - Stefano Merler; Marco Ajelli; Andrea Pugliese 003; Neil M. Ferguson (PLoS Comput. Biol., 2011)

Evaluating the Adequacy of Gravity Models as a Description of Human Mobility for Epidemic Modelling. - James Truscott; Neil M. Ferguson (PLoS Comput. Biol., 2012)

Feature Selection Methods for Identifying Genetic Determinants of Host Species in RNA Viruses. - Ricardo Aguas; Neil M. Ferguson (PLoS Comput. Biol., 2013)

Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data. - Thibaut Jombart; Anne Cori; Xavier Didelot; Simon Cauchemez; Christophe Fraser; Neil M. Ferguson (PLoS Comput. Biol., 2014)

A Change in Vaccine Efficacy and Duration of Protection Explains Recent Rises in Pertussis Incidence in the United States. - Manoj Gambhir; Thomas A. Clark; Simon Cauchemez; Sara Y. Tartof; David L. Swerdlow; Neil M. Ferguson (PLoS Comput. Biol., 2015)

Modelling Virus and Antibody Dynamics during Dengue Virus Infection Suggests a Role for Antibody in Virus Clearance. - Hannah E. Clapham; Than Ha Quyen; Duong Thi Hue Kien; Ilaria Dorigatti; Cameron P. Simmons; Neil M. Ferguson (PLoS Comput. Biol., 2016)

Model-Based Comprehensive Analysis of School Closure Policies for Mitigating Influenza Epidemics and Pandemics. - Laura Fumanelli; Marco Ajelli; Stefano Merler; Neil M. Ferguson; Simon Cauchemez (PLoS Comput. Biol., 2016)

outbreaker2: a modular platform for outbreak reconstruction. - Finlay Campbell; Xavier Didelot; Richard G. FitzJohn; Neil M. Ferguson; Anne Cori; Thibaut Jombart (BMC Bioinform., 2018)

Bayesian inference of transmission chains using timing of symptoms, pathogen genomes and contact data. - Finlay Campbell; Anne Cori; Neil M. Ferguson; Thibaut Jombart (PLoS Comput. Biol., 2019)

Optimal national prioritization policies for hospital care during the SARS-CoV-2 pandemic. - Josh C. D'aeth; Shubhechyya Ghosal; Fiona Grimm; David J. Haw; Esma Koca; Krystal Lau; Stefano Moret; Dheeya Rizmie; Sarah R. Deeny; Pablo N. Perez-Guzman; Neil M. Ferguson; Katharina D. Hauck; et al. (Nat. Comput. Sci., 2021)

Deriving fine-scale models of human mobility from aggregated origin-destination flow data. - Constanze Ciavarella; Neil M. Ferguson (PLoS Comput. Biol., 2021)

The interaction of transmission intensity, mortality, and the economy: a retrospective analysis of the COVID-19 pandemic. - Christian Morgenstern; Daniel J. Laydon; Charles Whittaker; Swapnil Mishra; David J. Haw; Samir Bhatt; Neil M. Ferguson (CoRR, 2022)

Optimizing social and economic activity while containing SARS-CoV-2 transmission using DAEDALUS. - David J. Haw; Giovanni Forchini; Patrick Doohan; Paula Christen; Matteo Pianella; Robert Johnson; Sumali Bajaj; Alexandra B. Hogan; Peter Winskill; Marisa Miraldo; Peter J. White; Azra C. Ghani; et al. (Nat. Comput. Sci., 2022)

Modelling the impact of JNJ-1802, a first-in-class dengue inhibitor blocking the NS3-NS4B interaction, on in-vitro DENV-2 dynamics. - Clare P. McCormack; Olivia Goethals; Nele Goeyvaerts; Xavier Woot de Trixhe; Peggy Geluykens; Doortje Borrenberghs; Neil M. Ferguson; Oliver Ackaert; Ilaria Dorigatti (PLoS Comput. Biol., 2023)

The impact of health inequity on spatial variation of COVID-19 transmission in England. - Thomas Rawson; Wes Hinsley; Raphael Sonabend; Elizaveta Semenova; Anne Cori; Neil M. Ferguson (PLoS Comput. Biol., 2024)

Artificial intelligence for modelling infectious disease epidemics. - Moritz U. G. Kraemer; Joseph L.-H. Tsui; Serina Chang; Spyros Lytras; Mark P. Khurana; Samantha Vanderslott; Sumali Bajaj; Neil Scheidwasser; Jacob Liam Curran-Sebastian; Elizaveta Semenova; Mengyan Zhang; H. Juliette T. Unwin; et al. (Nat., 2025)