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Viral burden is associated with age, vaccination, and viral variant in a population-representative study of SARS-CoV-2 that accounts for time-since-infection-related sampling bias.
Fryer HR, Golubchik T, Hall M, Fraser C, Hinch R, Ferretti L, Thomson L, Nurtay A, Pellis L, House T, MacIntyre-Cockett G, Trebes A, Buck D, Piazza P, Green A, Lonie LJ, Smith D, Bashton M, Crown M, Nelson A, McCann CM, Adnan Tariq M, Elstob CJ, Nunes Dos Santos R, Richards Z, Xhang X, Hawley J, Lee MR, Carrillo-Barragan P, Chapman I, Harthern-Flint S; COVID-19 Genomics UK (COG-UK) consortium; Bonsall D, Lythgoe KA. Fryer HR, et al. Among authors: golubchik t. PLoS Pathog. 2023 Aug 14;19(8):e1011461. doi: 10.1371/journal.ppat.1011461. eCollection 2023 Aug. PLoS Pathog. 2023. PMID: 37578971 Free PMC article.
Assessment of Mycobacterium tuberculosis transmission in Oxfordshire, UK, 2007-12, with whole pathogen genome sequences: an observational study.
Walker TM, Lalor MK, Broda A, Ortega LS, Morgan M, Parker L, Churchill S, Bennett K, Golubchik T, Giess AP, Del Ojo Elias C, Jeffery KJ, Bowler ICJW, Laurenson IF, Barrett A, Drobniewski F, McCarthy ND, Anderson LF, Abubakar I, Thomas HL, Monk P, Smith EG, Walker AS, Crook DW, Peto TEA, Conlon CP. Walker TM, et al. Among authors: golubchik t. Lancet Respir Med. 2014 Apr;2(4):285-292. doi: 10.1016/S2213-2600(14)70027-X. Epub 2014 Mar 4. Lancet Respir Med. 2014. PMID: 24717625 Free PMC article.
Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing.
CRyPTIC Consortium and the 100,000 Genomes Project; Allix-Béguec C, Arandjelovic I, Bi L, Beckert P, Bonnet M, Bradley P, Cabibbe AM, Cancino-Muñoz I, Caulfield MJ, Chaiprasert A, Cirillo DM, Clifton DA, Comas I, Crook DW, De Filippo MR, de Neeling H, Diel R, Drobniewski FA, Faksri K, Farhat MR, Fleming J, Fowler P, Fowler TA, Gao Q, Gardy J, Gascoyne-Binzi D, Gibertoni-Cruz AL, Gil-Brusola A, Golubchik T, Gonzalo X, Grandjean L, He G, Guthrie JL, Hoosdally S, Hunt M, Iqbal Z, Ismail N, Johnston J, Khanzada FM, Khor CC, Kohl TA, Kong C, Lipworth S, Liu Q, Maphalala G, Martinez E, Mathys V, Merker M, Miotto P, Mistry N, Moore DAJ, Murray M, Niemann S, Omar SV, Ong RT, Peto TEA, Posey JE, Prammananan T, Pym A, Rodrigues C, Rodrigues M, Rodwell T, Rossolini GM, Sánchez Padilla E, Schito M, Shen X, Shendure J, Sintchenko V, Sloutsky A, Smith EG, Snyder M, Soetaert K, Starks AM, Supply P, Suriyapol P, Tahseen S, Tang P, Teo YY, Thuong TNT, Thwaites G, Tortoli E, van Soolingen D, Walker AS, Walker TM, Wilcox M, Wilson DJ, Wyllie D, Yang Y, Zhang H, Zhao Y, Zhu B. CRyPTIC Consortium and the 100,000 Genomes Project, et al. Among authors: golubchik t. N Engl J Med. 2018 Oct 11;379(15):1403-1415. doi: 10.1056/NEJMoa1800474. Epub 2018 Sep 26. N Engl J Med. 2018. PMID: 30280646 Free PMC article.
Recombinational switching of the Clostridium difficile S-layer and a novel glycosylation gene cluster revealed by large-scale whole-genome sequencing.
Dingle KE, Didelot X, Ansari MA, Eyre DW, Vaughan A, Griffiths D, Ip CL, Batty EM, Golubchik T, Bowden R, Jolley KA, Hood DW, Fawley WN, Walker AS, Peto TE, Wilcox MH, Crook DW. Dingle KE, et al. Among authors: golubchik t. J Infect Dis. 2013 Feb 15;207(4):675-86. doi: 10.1093/infdis/jis734. Epub 2012 Nov 29. J Infect Dis. 2013. PMID: 23204167 Free PMC article.
Mobile elements drive recombination hotspots in the core genome of Staphylococcus aureus.
Everitt RG, Didelot X, Batty EM, Miller RR, Knox K, Young BC, Bowden R, Auton A, Votintseva A, Larner-Svensson H, Charlesworth J, Golubchik T, Ip CL, Godwin H, Fung R, Peto TE, Walker AS, Crook DW, Wilson DJ. Everitt RG, et al. Among authors: golubchik t. Nat Commun. 2014 May 23;5:3956. doi: 10.1038/ncomms4956. Nat Commun. 2014. PMID: 24853639 Free PMC article.
Microevolutionary analysis of Clostridium difficile genomes to investigate transmission.
Didelot X, Eyre DW, Cule M, Ip CL, Ansari MA, Griffiths D, Vaughan A, O'Connor L, Golubchik T, Batty EM, Piazza P, Wilson DJ, Bowden R, Donnelly PJ, Dingle KE, Wilcox M, Walker AS, Crook DW, Peto TE, Harding RM. Didelot X, et al. Among authors: golubchik t. Genome Biol. 2012 Dec 21;13(12):R118. doi: 10.1186/gb-2012-13-12-r118. Genome Biol. 2012. PMID: 23259504 Free PMC article.
A modified RNA-Seq approach for whole genome sequencing of RNA viruses from faecal and blood samples.
Batty EM, Wong TH, Trebes A, Argoud K, Attar M, Buck D, Ip CL, Golubchik T, Cule M, Bowden R, Manganis C, Klenerman P, Barnes E, Walker AS, Wyllie DH, Wilson DJ, Dingle KE, Peto TE, Crook DW, Piazza P. Batty EM, et al. Among authors: golubchik t. PLoS One. 2013 Jun 10;8(6):e66129. doi: 10.1371/journal.pone.0066129. Print 2013. PLoS One. 2013. PMID: 23762474 Free PMC article.
107 results