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outbreaker2: a modular platform for outbreak reconstruction.
Campbell F, Didelot X, Fitzjohn R, Ferguson N, Cori A, Jombart T. Campbell F, et al. Among authors: ferguson n. BMC Bioinformatics. 2018 Oct 22;19(Suppl 11):363. doi: 10.1186/s12859-018-2330-z. BMC Bioinformatics. 2018. PMID: 30343663 Free PMC article.
OutbreakTools: a new platform for disease outbreak analysis using the R software.
Jombart T, Aanensen DM, Baguelin M, Birrell P, Cauchemez S, Camacho A, Colijn C, Collins C, Cori A, Didelot X, Fraser C, Frost S, Hens N, Hugues J, Höhle M, Opatowski L, Rambaut A, Ratmann O, Soubeyrand S, Suchard MA, Wallinga J, Ypma R, Ferguson N. Jombart T, et al. Among authors: ferguson n. Epidemics. 2014 Jun;7(100):28-34. doi: 10.1016/j.epidem.2014.04.003. Epub 2014 Apr 18. Epidemics. 2014. PMID: 24928667 Free PMC article.
The Ecological Dynamics of Fecal Contamination and Salmonella Typhi and Salmonella Paratyphi A in Municipal Kathmandu Drinking Water.
Karkey A, Jombart T, Walker AW, Thompson CN, Torres A, Dongol S, Tran Vu Thieu N, Pham Thanh D, Tran Thi Ngoc D, Voong Vinh P, Singer AC, Parkhill J, Thwaites G, Basnyat B, Ferguson N, Baker S. Karkey A, et al. Among authors: ferguson n. PLoS Negl Trop Dis. 2016 Jan 6;10(1):e0004346. doi: 10.1371/journal.pntd.0004346. eCollection 2016 Jan. PLoS Negl Trop Dis. 2016. PMID: 26735696 Free PMC article.
When are pathogen genome sequences informative of transmission events?
Campbell F, Strang C, Ferguson N, Cori A, Jombart T. Campbell F, et al. Among authors: ferguson n. PLoS Pathog. 2018 Feb 8;14(2):e1006885. doi: 10.1371/journal.ppat.1006885. eCollection 2018 Feb. PLoS Pathog. 2018. PMID: 29420641 Free PMC article.
Suppression of a SARS-CoV-2 outbreak in the Italian municipality of Vo'.
Lavezzo E, Franchin E, Ciavarella C, Cuomo-Dannenburg G, Barzon L, Del Vecchio C, Rossi L, Manganelli R, Loregian A, Navarin N, Abate D, Sciro M, Merigliano S, De Canale E, Vanuzzo MC, Besutti V, Saluzzo F, Onelia F, Pacenti M, Parisi SG, Carretta G, Donato D, Flor L, Cocchio S, Masi G, Sperduti A, Cattarino L, Salvador R, Nicoletti M, Caldart F, Castelli G, Nieddu E, Labella B, Fava L, Drigo M, Gaythorpe KAM; Imperial College COVID-19 Response Team; Brazzale AR, Toppo S, Trevisan M, Baldo V, Donnelly CA, Ferguson NM, Dorigatti I, Crisanti A; Imperial College COVID-19 Response Team. Lavezzo E, et al. Among authors: ferguson nm. Nature. 2020 Aug;584(7821):425-429. doi: 10.1038/s41586-020-2488-1. Epub 2020 Jun 30. Nature. 2020. PMID: 32604404
Quantifying the effect of delaying the second COVID-19 vaccine dose in England: a mathematical modelling study.
Imai N, Rawson T, Knock ES, Sonabend R, Elmaci Y, Perez-Guzman PN, Whittles LK, Kanapram DT, Gaythorpe KAM, Hinsley W, Djaafara BA, Wang H, Fraser K, FitzJohn RG, Hogan AB, Doohan P, Ghani AC, Ferguson NM, Baguelin M, Cori A. Imai N, et al. Among authors: ferguson nm. Lancet Public Health. 2023 Mar;8(3):e174-e183. doi: 10.1016/S2468-2667(22)00337-1. Epub 2023 Feb 9. Lancet Public Health. 2023. PMID: 36774945 Free PMC article.
Retrospective evaluation of real-time estimates of global COVID-19 transmission trends and mortality forecasts.
Bhatia S, Parag KV, Wardle J, Nash RK, Imai N, Elsland SLV, Lassmann B, Brownstein JS, Desai A, Herringer M, Sewalk K, Loeb SC, Ramatowski J, Cuomo-Dannenburg G, Jauneikaite E, Unwin HJT, Riley S, Ferguson N, Donnelly CA, Cori A, Nouvellet P. Bhatia S, et al. Among authors: ferguson n. PLoS One. 2023 Oct 18;18(10):e0286199. doi: 10.1371/journal.pone.0286199. eCollection 2023. PLoS One. 2023. PMID: 37851661 Free PMC article.
909 results