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Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable.
Mavian C, Pond SK, Marini S, Magalis BR, Vandamme AM, Dellicour S, Scarpino SV, Houldcroft C, Villabona-Arenas J, Paisie TK, Trovão NS, Boucher C, Zhang Y, Scheuermann RH, Gascuel O, Lam TT, Suchard MA, Abecasis A, Wilkinson E, de Oliveira T, Bento AI, Schmidt HA, Martin D, Hadfield J, Faria N, Grubaugh ND, Neher RA, Baele G, Lemey P, Stadler T, Albert J, Crandall KA, Leitner T, Stamatakis A, Prosperi M, Salemi M. Mavian C, et al. Among authors: villabona arenas j. Proc Natl Acad Sci U S A. 2020 Jun 9;117(23):12522-12523. doi: 10.1073/pnas.2007295117. Epub 2020 May 7. Proc Natl Acad Sci U S A. 2020. PMID: 32381734 Free PMC article. No abstract available.
Effectiveness of isolation, testing, contact tracing, and physical distancing on reducing transmission of SARS-CoV-2 in different settings: a mathematical modelling study.
Kucharski AJ, Klepac P, Conlan AJK, Kissler SM, Tang ML, Fry H, Gog JR, Edmunds WJ; CMMID COVID-19 working group. Kucharski AJ, et al. Lancet Infect Dis. 2020 Oct;20(10):1151-1160. doi: 10.1016/S1473-3099(20)30457-6. Epub 2020 Jun 16. Lancet Infect Dis. 2020. PMID: 32559451 Free PMC article.
Improving modelling for epidemic responses: reflections from members of the UK infectious disease modelling community on their experiences during the COVID-19 pandemic.
Sherratt K, Carnegie AC, Kucharski A, Cori A, Pearson CAB, Jarvis CI, Overton C, Weston D, Hill EM, Knock E, Fearon E, Nightingale E, Hellewell J, Edmunds WJ, Villabona Arenas J, Prem K, Pi L, Baguelin M, Kendall M, Ferguson N, Davies N, Eggo RM, van Elsland S, Russell T, Funk S, Liu Y, Abbott S. Sherratt K, et al. Among authors: villabona arenas j. Wellcome Open Res. 2024 Jan 8;9:12. doi: 10.12688/wellcomeopenres.19601.1. eCollection 2024. Wellcome Open Res. 2024. PMID: 38784437 Free PMC article.