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Automated analysis of phylogenetic clusters.
Ragonnet-Cronin M, Hodcroft E, Hué S, Fearnhill E, Delpech V, Brown AJ, Lycett S; UK HIV Drug Resistance Database. Ragonnet-Cronin M, et al. BMC Bioinformatics. 2013 Nov 6;14:317. doi: 10.1186/1471-2105-14-317. BMC Bioinformatics. 2013. PMID: 24191891 Free PMC article.
Transmission of Non-B HIV Subtypes in the United Kingdom Is Increasingly Driven by Large Non-Heterosexual Transmission Clusters.
Ragonnet-Cronin M, Lycett SJ, Hodcroft EB, Hué S, Fearnhill E, Brown AE, Delpech V, Dunn D, Leigh Brown AJ; United Kingdom HIV Drug Resistance Database. Ragonnet-Cronin M, et al. Among authors: hodcroft eb. J Infect Dis. 2016 May 1;213(9):1410-8. doi: 10.1093/infdis/jiv758. Epub 2015 Dec 23. J Infect Dis. 2016. PMID: 26704616 Free PMC article.
A Direct Comparison of Two Densely Sampled HIV Epidemics: The UK and Switzerland.
Ragonnet-Cronin ML, Shilaih M, Günthard HF, Hodcroft EB, Böni J, Fearnhill E, Dunn D, Yerly S, Klimkait T, Aubert V, Yang WL, Brown AE, Lycett SJ, Kouyos R, Brown AJ. Ragonnet-Cronin ML, et al. Among authors: hodcroft eb. Sci Rep. 2016 Sep 19;6:32251. doi: 10.1038/srep32251. Sci Rep. 2016. PMID: 27642070 Free PMC article.
Identifying Transmission Clusters with Cluster Picker and HIV-TRACE.
Rose R, Lamers SL, Dollar JJ, Grabowski MK, Hodcroft EB, Ragonnet-Cronin M, Wertheim JO, Redd AD, German D, Laeyendecker O. Rose R, et al. Among authors: hodcroft eb. AIDS Res Hum Retroviruses. 2017 Mar;33(3):211-218. doi: 10.1089/AID.2016.0205. Epub 2016 Dec 13. AIDS Res Hum Retroviruses. 2017. PMID: 27824249 Free PMC article.
Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison.
Ratmann O, Hodcroft EB, Pickles M, Cori A, Hall M, Lycett S, Colijn C, Dearlove B, Didelot X, Frost S, Hossain AS, Joy JB, Kendall M, Kühnert D, Leventhal GE, Liang R, Plazzotta G, Poon AF, Rasmussen DA, Stadler T, Volz E, Weis C, Leigh Brown AJ, Fraser C; PANGEA-HIV Consortium. Ratmann O, et al. Among authors: hodcroft eb. Mol Biol Evol. 2017 Jan;34(1):185-203. doi: 10.1093/molbev/msw217. Epub 2016 Oct 7. Mol Biol Evol. 2017. PMID: 28053012 Free PMC article.
The contribution of viral genotype to plasma viral set-point in HIV infection.
Hodcroft E, Hadfield JD, Fearnhill E, Phillips A, Dunn D, O'Shea S, Pillay D, Leigh Brown AJ; UK HIV Drug Resistance Database; UK CHIC Study. Hodcroft E, et al. PLoS Pathog. 2014 May 1;10(5):e1004112. doi: 10.1371/journal.ppat.1004112. eCollection 2014 May. PLoS Pathog. 2014. PMID: 24789308 Free PMC article.
Coast-to-Coast Spread of SARS-CoV-2 during the Early Epidemic in the United States.
Fauver JR, Petrone ME, Hodcroft EB, Shioda K, Ehrlich HY, Watts AG, Vogels CBF, Brito AF, Alpert T, Muyombwe A, Razeq J, Downing R, Cheemarla NR, Wyllie AL, Kalinich CC, Ott IM, Quick J, Loman NJ, Neugebauer KM, Greninger AL, Jerome KR, Roychoudhury P, Xie H, Shrestha L, Huang ML, Pitzer VE, Iwasaki A, Omer SB, Khan K, Bogoch II, Martinello RA, Foxman EF, Landry ML, Neher RA, Ko AI, Grubaugh ND. Fauver JR, et al. Among authors: hodcroft eb. Cell. 2020 May 28;181(5):990-996.e5. doi: 10.1016/j.cell.2020.04.021. Epub 2020 May 7. Cell. 2020. PMID: 32386545 Free PMC article.
52 results