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Highly Diverse Hepatitis C Strains Detected in Sub-Saharan Africa Have Unknown Susceptibility to Direct-Acting Antiviral Treatments.
Davis C, Mgomella GS, da Silva Filipe A, Frost EH, Giroux G, Hughes J, Hogan C, Kaleebu P, Asiki G, McLauchlan J, Niebel M, Ocama P, Pomila C, Pybus OG, Pépin J, Simmonds P, Singer JB, Sreenu VB, Wekesa C, Young EH, Murphy DG, Sandhu M, Thomson EC. Davis C, et al. Among authors: singer jb. Hepatology. 2019 Apr;69(4):1426-1441. doi: 10.1002/hep.30342. Epub 2019 Mar 22. Hepatology. 2019. PMID: 30387174 Free PMC article.
GLUE: a flexible software system for virus sequence data.
Singer JB, Thomson EC, McLauchlan J, Hughes J, Gifford RJ. Singer JB, et al. BMC Bioinformatics. 2018 Dec 18;19(1):532. doi: 10.1186/s12859-018-2459-9. BMC Bioinformatics. 2018. PMID: 30563445 Free PMC article.
Convalescent plasma therapy for persistent hepatitis E virus infection.
Ankcorn M, Gallacher J, Ijaz S, Taha Y, Harvala H, Maclennan S, Thomson EC, Davis C, Singer JB, da Silva Filipe A, Smollett K, Niebel M, Semple MG, Tedder RS, McPherson S. Ankcorn M, et al. Among authors: singer jb. J Hepatol. 2019 Aug;71(2):434-438. doi: 10.1016/j.jhep.2019.04.008. Epub 2019 May 8. J Hepatol. 2019. PMID: 31075322 Free PMC article. No abstract available.
Interpreting Viral Deep Sequencing Data with GLUE.
Singer JB, Thomson EC, Hughes J, Aranday-Cortes E, McLauchlan J, da Silva Filipe A, Tong L, Manso CF, Gifford RJ, Robertson DL, Barnes E, Ansari MA, Mbisa JL, Bibby DF, Bradshaw D, Smith D. Singer JB, et al. Viruses. 2019 Apr 3;11(4):323. doi: 10.3390/v11040323. Viruses. 2019. PMID: 30987147 Free PMC article.
Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland.
da Silva Filipe A, Shepherd JG, Williams T, Hughes J, Aranday-Cortes E, Asamaphan P, Ashraf S, Balcazar C, Brunker K, Campbell A, Carmichael S, Davis C, Dewar R, Gallagher MD, Gunson R, Hill V, Ho A, Jackson B, James E, Jesudason N, Johnson N, McWilliam Leitch EC, Li K, MacLean A, Mair D, McAllister DA, McCrone JT, McDonald SE, McHugh MP, Morris AK, Nichols J, Niebel M, Nomikou K, Orton RJ, O'Toole Á, Palmarini M, Parcell BJ, Parr YA, Rambaut A, Rooke S, Shaaban S, Shah R, Singer JB, Smollett K, Starinskij I, Tong L, Sreenu VB, Wastnedge E; COVID-19 Genomics UK (COG-UK) Consortium; Holden MTG, Robertson DL, Templeton K, Thomson EC. da Silva Filipe A, et al. Among authors: singer jb. Nat Microbiol. 2021 Jan;6(1):112-122. doi: 10.1038/s41564-020-00838-z. Epub 2020 Dec 21. Nat Microbiol. 2021. PMID: 33349681 Free article.
Real world SOF/VEL/VOX retreatment outcomes and viral resistance analysis for HCV patients with prior failure to DAA therapy.
Smith DA, Bradshaw D, Mbisa JL, Manso CF, Bibby DF, Singer JB, Thomson EC, da Silva Filipe A, Aranday-Cortes E, Ansari MA, Brown A, Hudson E, Benselin J, Healy B, Troke P, McLauchlan J, Barnes E, Irving WL. Smith DA, et al. Among authors: singer jb. J Viral Hepat. 2021 Sep;28(9):1256-1264. doi: 10.1111/jvh.13549. Epub 2021 Jun 8. J Viral Hepat. 2021. PMID: 34003556 Free article.
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission.
Aggarwal D, Warne B, Jahun AS, Hamilton WL, Fieldman T, du Plessis L, Hill V, Blane B, Watkins E, Wright E, Hall G, Ludden C, Myers R, Hosmillo M, Chaudhry Y, Pinckert ML, Georgana I, Izuagbe R, Leek D, Nsonwu O, Hughes GJ, Packer S, Page AJ, Metaxaki M, Fuller S, Weale G, Holgate J, Brown CA; Cambridge Covid-19 testing Centre; University of Cambridge Asymptomatic COVID-19 Screening Programme Consortium; COVID-19 Genomics UK (COG-UK) Consortium; Howes R, McFarlane D, Dougan G, Pybus OG, Angelis D, Maxwell PH, Peacock SJ, Weekes MP, Illingworth C, Harrison EM, Matheson NJ, Goodfellow IG. Aggarwal D, et al. Nat Commun. 2022 Feb 8;13(1):751. doi: 10.1038/s41467-021-27942-w. Nat Commun. 2022. PMID: 35136068 Free PMC article.
The evolutionary dynamics and epidemiological history of hepatitis C virus genotype 6, including unique strains from the Li community of Hainan Island, China.
Xu R, Aranday-Cortes E, Leitch ECM, Hughes J, Singer JB, Sreenu V, Tong L, da Silva Filipe A, Bamford CGG, Rong X, Huang J, Wang M, Fu Y, McLauchlan J. Xu R, et al. Among authors: singer jb. Virus Evol. 2022 Feb 16;8(1):veac012. doi: 10.1093/ve/veac012. eCollection 2022. Virus Evol. 2022. PMID: 35600095 Free PMC article.
Rapid feedback on hospital onset SARS-CoV-2 infections combining epidemiological and sequencing data.
Stirrup O, Hughes J, Parker M, Partridge DG, Shepherd JG, Blackstone J, Coll F, Keeley A, Lindsey BB, Marek A, Peters C, Singer JB; COVID-19 Genomics UK (COG-UK) consortium; Tamuri A, de Silva TI, Thomson EC, Breuer J. Stirrup O, et al. Among authors: singer jb. Elife. 2021 Jun 29;10:e65828. doi: 10.7554/eLife.65828. Elife. 2021. PMID: 34184637 Free PMC article.
77 results