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CLIMB-COVID: continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance.
Nicholls SM, Poplawski R, Bull MJ, Underwood A, Chapman M, Abu-Dahab K, Taylor B, Colquhoun RM, Rowe WPM, Jackson B, Hill V, O'Toole Á, Rey S, Southgate J, Amato R, Livett R, Gonçalves S, Harrison EM, Peacock SJ, Aanensen DM, Rambaut A, Connor TR, Loman NJ; COVID-19 Genomics UK (COG-UK) Consortium. Nicholls SM, et al. Among authors: poplawski r. Genome Biol. 2021 Jul 1;22(1):196. doi: 10.1186/s13059-021-02395-y. Genome Biol. 2021. PMID: 34210356 Free PMC article.
Recurrent SARS-CoV-2 mutations in immunodeficient patients.
Wilkinson SAJ, Richter A, Casey A, Osman H, Mirza JD, Stockton J, Quick J, Ratcliffe L, Sparks N, Cumley N, Poplawski R, Nicholls SN, Kele B, Harris K, Peacock TP, Loman NJ. Wilkinson SAJ, et al. Among authors: poplawski r. Virus Evol. 2022 Aug 11;8(2):veac050. doi: 10.1093/ve/veac050. eCollection 2022 Jul. Virus Evol. 2022. PMID: 35996593 Free PMC article.
Genomics-informed outbreak investigations of SARS-CoV-2 using civet.
O'Toole Á, Hill V, Jackson B, Dewar R, Sahadeo N, Colquhoun R, Rooke S, McCrone JT, Duggan K, McHugh MP, Nicholls SM, Poplawski R; COVID-19 Genomics UK (COG-UK) Consortium; COVID-19 Impact Project (Trinidad & Tobago Group); Aanensen D, Holden M, Connor T, Loman N, Goodfellow I, Carrington CVF, Templeton K, Rambaut A. O'Toole Á, et al. Among authors: poplawski r. PLOS Glob Public Health. 2022 Dec 9;2(12):e0000704. doi: 10.1371/journal.pgph.0000704. eCollection 2022. PLOS Glob Public Health. 2022. PMID: 36962792 Free PMC article.
Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic.
Jackson B, Boni MF, Bull MJ, Colleran A, Colquhoun RM, Darby AC, Haldenby S, Hill V, Lucaci A, McCrone JT, Nicholls SM, O'Toole Á, Pacchiarini N, Poplawski R, Scher E, Todd F, Webster HJ, Whitehead M, Wierzbicki C; COVID-19 Genomics UK (COG-UK) Consortium; Loman NJ, Connor TR, Robertson DL, Pybus OG, Rambaut A. Jackson B, et al. Among authors: poplawski r. Cell. 2021 Sep 30;184(20):5179-5188.e8. doi: 10.1016/j.cell.2021.08.014. Epub 2021 Aug 17. Cell. 2021. PMID: 34499854 Free PMC article.
Rapid in-country sequencing of whole virus genomes to inform rabies elimination programmes.
Brunker K, Jaswant G, Thumbi SM, Lushasi K, Lugelo A, Czupryna AM, Ade F, Wambura G, Chuchu V, Steenson R, Ngeleja C, Bautista C, Manalo DL, Gomez MRR, Chu MYJV, Miranda ME, Kamat M, Rysava K, Espineda J, Silo EAV, Aringo AM, Bernales RP, Adonay FF, Tildesley MJ, Marston DA, Jennings DL, Fooks AR, Zhu W, Meredith LW, Hill SC, Poplawski R, Gifford RJ, Singer JB, Maturi M, Mwatondo A, Biek R, Hampson K. Brunker K, et al. Among authors: poplawski r. Wellcome Open Res. 2020 May 19;5:3. doi: 10.12688/wellcomeopenres.15518.2. eCollection 2020. Wellcome Open Res. 2020. PMID: 32090172 Free PMC article.
CLIMB (the Cloud Infrastructure for Microbial Bioinformatics): an online resource for the medical microbiology community.
Connor TR, Loman NJ, Thompson S, Smith A, Southgate J, Poplawski R, Bull MJ, Richardson E, Ismail M, Thompson SE, Kitchen C, Guest M, Bakke M, Sheppard SK, Pallen MJ. Connor TR, et al. Among authors: poplawski r. Microb Genom. 2016 Sep 20;2(9):e000086. doi: 10.1099/mgen.0.000086. eCollection 2016 Sep. Microb Genom. 2016. PMID: 28785418 Free PMC article.