Response to the COVID-19 pandemic
As part of an MRC funded project "Mathematical modelling and adaptive control to inform real time decision making for the COVID-19 pandemic at the local, regional and national scale", our team at the Zeeman Institute:SBIDER (Systems Biology & Infectious Disease Epidemiology Research) at the University of Warwick used real time data on the UK SARS-CoV-2 outbreak to provide robust predictions, gauging the ability of a model to predict future epidemic behaviour.
The team includes Matt Keeling, Michael Tildesley, Louise Dyson, Ben Atkins and several colleagues in SBIDER. For further details on the research undertaken by members of the Zeeman Institute:SBIDER, contributing to the COVID-19 modelling response both in the UK and abroad, visit the SBIDER COVID-19 modelling response webpage.
I was also a participant of the Scientific Pandemic Influenza Group on Modelling, Operational subgroup (SPI-M-O) of the Scientific Advisory Group for Emergencies (SAGE), providing advice (based on infectious disease modelling and epidemiology) on scientific matters related to the UK’s response to the COVID-19 pandemic.
Listed below are associated peer-reviewed publications and preprints, split into twelve broad themes (in alphabetical order): Contact tracing mobile apps, fitting to the UK outbreak, higher education, households, immune escape, impact on other pathogens, impact on the infectious disease modelling community, precautionary breaks (circuit breakers), schools, vaccination, Variants of Concern (VOCs), workplaces.
Contact tracing mobile apps
- The effect of notification window length on the epidemiological impact of COVID-19 contact tracing mobile applications.
Trystan Leng, Edward M Hill, Matt J Keeling, Michael J Tildesley, Robin N Thompson. (2022)
Communications Medicine. doi:10.1038/s43856-022-00143-2
Fitting to the UK outbreak
Predictions of COVID-19 dynamics in the UK: short-term forecasting and analysis of potential exit strategies
Matt J Keeling, Edward M Hill, Erin E Gorsich, Bridget Penman, Glen Guyver-Fletcher, Alex Holmes, Trystan Leng, Hector McKimm, Massimiliano Tamborrino, Louise Dyson, Michael J Tildesley. (2021)
PLoS Comput Biol, 17(1): e1008619. doi:10.1371/journal.pcbi.1008619Fitting to the UK COVID-19 outbreak, short-term forecasts and estimating the reproductive number
Matt J Keeling, Louise Dyson, Glen Guyver-Fletcher, Alex Holmes, Malcolm G Semple, ISARIC4C Investigators, Michael J Tildesley, Edward M Hill. (2022)
Statistical Methods in Medical Research, 31(9): 1716-1737. doi:10.1177/09622802211070257Short-term forecasts to inform the response to the COVID-19 epidemic in the UK
Sebastian Funk et al. (2020)
medRxiv. doi:10.1101/2020.11.11.20220962Short-term Projections based on Early Omicron Variant Dynamics in England
Matt J Keeling, Ellen Brooks-Pollock, Robert J Challen, Leon Danon, Louise Dyson, Julia R Gog, Laura Guzman-Rincon, Edward M Hill, Lorenzo M Pellis, Jonathan M Read, Michael J Tildesley. (2021)
medRxiv. doi:10.1101/2021.12.30.21268307Bayesian estimation of real-time epidemic growth rates using Gaussian processes: local dynamics of SARS-CoV-2 in England
Laura Guzman-Rincon, Edward M Hill, Louise Dyson, Michael J Tildesley, Matt J Keeling. (2023)
Journal of the Royal Statistical Society Series C: Applied Statistics, qlad056. doi:10.1093/jrsssc/qlad056Comparison of the 2021 COVID-19 roadmap projections against public health data in England
Matt J Keeling, Louise Dyson, Michael J Tildesley, Edward M Hill, Sam Moore. (2022)
Nature Communications, 13: 4924. doi:10.1038/s41467-022-31991-0
Higher education
Modelling SARS-CoV-2 transmission in a UK university setting
Edward M Hill, Benjamin D Atkins, Matt J Keeling, Michael J Tildesley, Louise Dyson. (2021)
Epidemics, 36: 100476. doi:10.1016/j.epidem.2021.100476SARS-CoV-2 infection in UK university students: Lessons from September-December 2020 and modelling insights for future student return.
Jessica Enright*, Edward M Hill*, Helena B Stage, Kirsty J Bolton, Emily J Nixon, Emma Fairbanks, Maria L Tang, Ellen Brooks-Pollock, Louise Dyson, Chris J Budd, Rebecca B Hoyle, Lars Schewe, Julia R Gog, Michael J Tildesley. (2021)
Royal Society Open Science, 8(8): 210310. doi:10.1098/rsos.210310
* denotes joint first authorsCoughs, colds and “freshers’ flu” survey in the University of Cambridge, 2007-2008
Ken TD Eames, Maria L Tang, Edward M Hill, Michael J Tildesley, Jonathan M Read, Matt J Keeling, Julia R Gog. (2022)
Epidemics, 42: 100659. doi:10.1016/j.epidem.2022.100659
Households
- Modelling the epidemiological implications for SARS-CoV-2 of Christmas household bubbles in England
Edward M Hill. (2022)
Journal of Theoretical Biology, 557: 111331. doi:10.1016/j.jtbi.2022.111331
Immune escape
SARS-CoV-2 incidence and vaccine escape
Robin N Thompson, Edward M Hill, Julia R Gog. (2021)
Lancet Infectious Diseases, 21(7): 913-914. doi:10.1016/S1473-3099(21)00202-4Vaccine escape in a heterogeneous population: insights for SARS-CoV-2 from a simple model
Julia R Gog, Edward M Hill, Leon Danon, Robin N Thompson. (2021)
Royal Society Open Science, 8(7): 210530. doi:10.1098/rsos.210530
Impact on other pathogens
- Scenario modelling for diminished influenza seasons during 2020/2021 and 2021/2022 in England
Edward M Hill, Matt J Keeling. (2022)
medRxiv. doi:10.1101/2022.10.27.22281628
Impact on the infectious disease modelling community
- Improving modelling for epidemic responses: reflections from members of the UK infectious disease modelling community on their experiences during the COVID-19 pandemic
Katharine Sherratt, Anna C Carnegie, Adam Kucharski, Anne Cori, Carl AB Pearson, Christopher I Jarvis, Christopher Overton, Dale Weston, Edward M Hill, Edward Knock, Elizabeth Fearon, Emily Nightingale, Joel Hellewell, W John Edmunds, Julian Villabona Arenas, Kiesha Prem, Li Pi, Marc Baguelin, Michelle Kendall, Neil Ferguson, Nicholas Davies, Rosalind M Eggo, Sabine van Elsland, Timothy Russell, Sebastian Funk, Yang Liu, Sam Abbott. (2024)
Wellcome Open Research, 9: 12. doi:10.12688/wellcomeopenres.19601.1
Precautionary breaks (circuit breakers)
Precautionary breaks: Planned, limited duration circuit breaks to control the prevalence of SARS-CoV-2 and the burden of COVID-19 disease
Matt J Keeling, Glen Guyver-Fletcher, Alex Holmes, Louise Dyson, Michael J Tildesley, Edward M Hill, Graham F Medley. (2021)
Epidemics, 37: 100526. doi:10.1016/j.epidem.2021.100526Optimal health and economic impact of non-pharmaceutical intervention measures prior and post vaccination in England: a mathematical modelling study
Michael J Tildesley, Anna Vassall, Steven Riley, Mark Jit, Frank Sandmann, Edward M Hill, Robin N Thompson, Benjamin D Atkins, John Edmunds, Louise Dyson, Matt J Keeling. (2022)
Royal Society Open Science, 9(8): 211746. doi:10.1098/rsos.211746
Schools
An analysis of school absences in England during the Covid-19 pandemic
Emma R Southall, Alex Holmes, Edward M Hill, Benjamin D Atkins, Trystan Leng, Robin N Thompson, Louise Dyson, Matt J Keeling, Michael J Tildesley. (2021)
BMC Medicine, 19: 137. doi:10.1186/s12916-021-01990-xThe impact of school reopening on the spread of COVID-19 in England
Matt J Keeling, Michael J Tildesley, Benjamin D Atkins, Bridget Penman, Emma Southall, Glen Guyver-Fletcher, Alex Holmes, Hector McKimm, Erin E Gorsich, Edward M Hill, Louise Dyson. (2021)
Phil Trans B, 376(1829): 20200261. doi:10.1098/rstb.2020.0261Assessing the impact of lateral flow testing strategies on within-school SARS-CoV-2 transmission and absences: A modelling study.
Trystan Leng, Edward M Hill, Robin N Thompson, Michael J Tildesley, Matt J Keeling, Louise Dyson. (2022)
PLoS Comput Biol, 18(6): e1010158. doi:10.1371/journal.pcbi.1010158Quantifying within-school SARS-CoV-2 transmission and the impact of lateral flow testing in secondary schools in England.
Trystan Leng, Edward M Hill, Alex Holmes, Emma Southall, Robin N Thompson, Michael J Tildesley, Matt J Keeling, Louise Dyson. (2022)
Nature Communications, 13: 1106. doi:10.1038/s41467-022-28731-9
Vaccination
Cost-effectiveness of routine COVID-19 adult vaccination programmes in England
Matt J Keeling, Edward M Hill, Stavros Petrou, Phuong Bich Tran, May Ee Png, Sophie Staniszewska, Corinna Clark, Katie Hassel, Julia Stowe, Nick Andrews. (2024)
medRxiv. doi:10.1101/2024.11.08.24316972Modelling optimal vaccination strategy for SARS-CoV-2 in the UK
Sam Moore, Edward M Hill, Louise Dyson, Michael J Tildesley, Matt J Keeling. (2021)
PLoS Comput Biol, 17(5): e1008849. doi:10.1371/journal.pcbi.1008849Vaccination and non-pharmaceutical interventions for COVID-19: a mathematical modelling study
Sam Moore, Edward M Hill, Michael J Tildesley, Louise Dyson, Matt J Keeling. (2021)
Lancet Infectious Diseases, 21(6): 793-802. doi:10.1016/S1473-3099(21)00143-2Comparison between one and two dose SARS-CoV-2 vaccine prioritization for a fixed number of vaccine doses
Edward M Hill, Matt J Keeling. (2021)
J. R. Soc. Interface, 18(182): 20210214. doi:10.1098/rsif.2021.0214Waning, Boosting and a Path to Endemicity for SARS-CoV-2
Matt J Keeling, Amy C Thomas, Edward M Hill, Robin N Thompson, Louise Dyson, Michael J Tildesley, Sam Moore. (2021)
medRxiv. doi:10.1101/2021.11.05.21265977Retrospectively modeling the effects of increased global vaccine sharing on the COVID-19 pandemic
Sam Moore, Edward M Hill, Louise Dyson, Michael J Tildesley, Matt J Keeling. (2022)
Nature Medicine, 28: 2416-2423. doi:10.1038/s41591-022-02064-yThe impacts of SARS-CoV-2 vaccine dose separation and targeting on the COVID-19 epidemic in England
Matt J Keeling, Sam Moore, Bridget Penman, Edward M Hill. (2023)
Nature Communications, 14: 740. doi:10.1038/s41467-023-35943-0Prioritising older individuals for COVID-19 booster vaccination leads to optimal public health outcomes in a range of socio-economic settings
Ioana Bouros, Edward M Hill, Matt J Keeling, Sam Moore, Robin N Thompson. (2024)
PLoS Comput Biol, 20(8): e1012309. doi:10.1371/journal.pcbi.1012309
Variants of Concern (VOCs)
Probability of Extinction and Peak Time for Multi-Type Epidemics with Application to Covid-19 Variants of Concern
Jacob Curran-Sebastian, Louise Dyson, Edward M Hill, Lorenzo Pellis, Ian Hall, Thomas House. (2024)
Available at SSRN: 10.1038/s41467-021-25915-7Short-term Projections based on Early Omicron Variant Dynamics in England
Matt J Keeling, Ellen Brooks-Pollock, Robert J Challen, Leon Danon, Louise Dyson, Julia R Gog, Laura Guzman-Rincon, Edward M Hill, Lorenzo M Pellis, Jonathan M Read, Michael J Tildesley. (2021)
medRxiv. doi:10.1101/2021.12.30.21268307Possible future waves of SARS-CoV-2 infection generated by variants of concern with a range of characteristics
Louise Dyson*, Edward M Hill*, Sam Moore, Jacob Curran-Sebastian, Michael J Tildesley, Katrina A Lythgoe, Thomas House, Lorenzo Pellis, Matt J Keeling. (2021)
Nature Communications, 12: 5730. doi:10.1038/s41467-021-25915-7
* denotes joint first authorsEarly epidemiological signatures of novel SARS-CoV-2 variants: establishment of B.1.617.2 in England
Robert Challen et al. (2021)
medRxiv. doi:10.1101/2021.06.05.21258365Emergence of SARS-CoV-2 Delta Variant and Effect of Nonpharmaceutical Interventions, British Columbia, Canada
Y.L. Elaine Chan, Michael A. Irvine, Natalie Prystajecky, Hind Sbihi, Marsha Taylor, Yayuk Joffres, Andrea Schertzer, Caren Rose, Louise Dyson, Edward M. Hill, Michael Tildesley, John R. Tyson, Linda M.N. Hoang, Eleni Galanis. (2023)
Emerging Infectious Diseases, 29(10): 1999-2007. doi:10.3201/eid2910.230055
Workplaces
- A network modelling approach to assess non-pharmaceutical disease controls in a worker population: An application to SARS-CoV-2
Edward M Hill*, Benjamin D Atkins*, Matt J Keeling, Louise Dyson, Michael J Tildesley. (2021)
PLoS Comput Biol, 17(6): e1009058. doi:10.1371/journal.pcbi.1009058
* denotes joint first authors