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Explosive nosocomial outbreak of SARS-CoV-2 in a rehabilitation clinic: the limits of genomics for outbreak reconstruction.
Abbas M, Robalo Nunes T, Cori A, Cordey S, Laubscher F, Baggio S, Jombart T, Iten A, Vieux L, Teixeira D, Perez M, Pittet D, Frangos E, Graf CE, Zingg W, Harbarth S. Abbas M, et al. Among authors: cori a. J Hosp Infect. 2021 Nov;117:124-134. doi: 10.1016/j.jhin.2021.07.013. Epub 2021 Aug 27. J Hosp Infect. 2021. PMID: 34461177 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: cori a. 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.
Genome sequencing defines phylogeny and spread of methicillin-resistant Staphylococcus aureus in a high transmission setting.
Tong SY, Holden MT, Nickerson EK, Cooper BS, Köser CU, Cori A, Jombart T, Cauchemez S, Fraser C, Wuthiekanun V, Thaipadungpanit J, Hongsuwan M, Day NP, Limmathurotsakul D, Parkhill J, Peacock SJ. Tong SY, et al. Among authors: cori a. Genome Res. 2015 Jan;25(1):111-8. doi: 10.1101/gr.174730.114. Epub 2014 Dec 9. Genome Res. 2015. PMID: 25491771 Free PMC article.
The role of rapid diagnostics in managing Ebola epidemics.
Nouvellet P, Garske T, Mills HL, Nedjati-Gilani G, Hinsley W, Blake IM, Van Kerkhove MD, Cori A, Dorigatti I, Jombart T, Riley S, Fraser C, Donnelly CA, Ferguson NM. Nouvellet P, et al. Among authors: cori a. Nature. 2015 Dec 3;528(7580):S109-16. doi: 10.1038/nature16041. Nature. 2015. PMID: 26633764 Free PMC article.
Unraveling the drivers of MERS-CoV transmission.
Cauchemez S, Nouvellet P, Cori A, Jombart T, Garske T, Clapham H, Moore S, Mills HL, Salje H, Collins C, Rodriquez-Barraquer I, Riley S, Truelove S, Algarni H, Alhakeem R, AlHarbi K, Turkistani A, Aguas RJ, Cummings DA, Van Kerkhove MD, Donnelly CA, Lessler J, Fraser C, Al-Barrak A, Ferguson NM. Cauchemez S, et al. Among authors: cori a. Proc Natl Acad Sci U S A. 2016 Aug 9;113(32):9081-6. doi: 10.1073/pnas.1519235113. Epub 2016 Jul 25. Proc Natl Acad Sci U S A. 2016. PMID: 27457935 Free PMC article.
A simple approach to measure transmissibility and forecast incidence.
Nouvellet P, Cori A, Garske T, Blake IM, Dorigatti I, Hinsley W, Jombart T, Mills HL, Nedjati-Gilani G, Van Kerkhove MD, Fraser C, Donnelly CA, Ferguson NM, Riley S. Nouvellet P, et al. Among authors: cori a. Epidemics. 2018 Mar;22:29-35. doi: 10.1016/j.epidem.2017.02.012. Epub 2017 Feb 24. Epidemics. 2018. PMID: 28351674 Free PMC article.
Heterogeneities in the case fatality ratio in the West African Ebola outbreak 2013-2016.
Garske T, Cori A, Ariyarajah A, Blake IM, Dorigatti I, Eckmanns T, Fraser C, Hinsley W, Jombart T, Mills HL, Nedjati-Gilani G, Newton E, Nouvellet P, Perkins D, Riley S, Schumacher D, Shah A, Van Kerkhove MD, Dye C, Ferguson NM, Donnelly CA. Garske T, et al. Among authors: cori a. Philos Trans R Soc Lond B Biol Sci. 2017 May 26;372(1721):20160308. doi: 10.1098/rstb.2016.0308. Philos Trans R Soc Lond B Biol Sci. 2017. PMID: 28396479 Free PMC article.
Key data for outbreak evaluation: building on the Ebola experience.
Cori A, Donnelly CA, Dorigatti I, Ferguson NM, Fraser C, Garske T, Jombart T, Nedjati-Gilani G, Nouvellet P, Riley S, Van Kerkhove MD, Mills HL, Blake IM. Cori A, et al. Philos Trans R Soc Lond B Biol Sci. 2017 May 26;372(1721):20160371. doi: 10.1098/rstb.2016.0371. Philos Trans R Soc Lond B Biol Sci. 2017. PMID: 28396480 Free PMC article. Review.
220 results