Quantifying within-school SARS-CoV-2 transmission and the impact of lateral flow testing in secondary schools in England
 Leng, T Hill, E Holmes, A Southall, E Thompson, R Tildesley, M Keeling, M Dyson, L doi:10.1101/2021.07.09.21260271
Waning, Boosting and a Path to Endemicity for SARS-CoV-2
 Keeling, M Thomas, A Hill, E Thompson, R Dyson, L Tildesley, M Moore, S doi:10.1101/2021.11.05.21265977
The effect of notification window length on the epidemiological impact of COVID-19 contact tracing mobile applications
 Leng, T Hill, E Keeling, M Tildesley, M Thompson, R doi:10.1101/2021.11.08.21266079
Generation time of the alpha and delta SARS-CoV-2 variants: an epidemiological analysis
 Hart, W Miller, E Andrews, N Waight, P Maini, P Funk, S Thompson, R (04 May 2022)
The impact of cross-reactive immunity on the emergence of SARS-CoV-2 variants
 Thompson, R Southall, E Daon, Y Lovell-Read, F Iwami, S Thompson, C Obolski, U (01 Jan 2022) doi:10.1101/2022.09.20.22280161
Estimation of heterogeneous instantaneous reproduction numbers with application to characterize SARS-CoV-2 transmission in Massachusetts counties
 Zhou, Z Kolaczyk, E Thompson, R White, L doi:10.1101/2021.12.02.21267164
Using ‘sentinel’ plants to improve early detection of invasive plant pathogens
 Lovell-Read, F Parnell, S Cunniffe, N Thompson, R doi:10.1101/2022.09.01.506171
A quantitative model used to compare within-host SARS-CoV-2, MERS-CoV, and SARS-CoV dynamics provides insights into the pathogenesis and treatment of SARS-CoV-2
 Kim, K Ejima, K Iwanami, S Fujita, Y Ohashi, H Koizumi, Y Asai, Y Nakaoka, S Watashi, K Aihara, K Thompson, R Ke, R Perelson, A Iwami, S PLoS Biology volume 19 issue 3 (22 Mar 2021) doi:10.1371/journal.pbio.3001128
Detection of significant antiviral drug effects on COVID-19 with reasonable sample sizes in randomized controlled trials: a modeling study
 Iwanami, S Ejima, K Kim, K Noshita, K Fujita, Y Miyazaki, T Kohno, S Miyazaki, Y Morimoto, S Nakaoka, S Koizumi, Y Asai, Y Aihara, K Watashi, K Thompson, R Shibuya, K Fujiu, K Perelson, A Iwami, S Wakita, T PLoS Medicine volume 18 issue 7 (06 Jul 2021) doi:10.1371/journal.pmed.1003660
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