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Page 1
SARS-CoV-2 variant biology: immune escape, transmission and fitness.
Carabelli AM, Peacock TP, Thorne LG, Harvey WT, Hughes J; COVID-19 Genomics UK Consortium; Peacock SJ, Barclay WS, de Silva TI, Towers GJ, Robertson DL. Carabelli AM, et al. Nat Rev Microbiol. 2023 Mar;21(3):162-177. doi: 10.1038/s41579-022-00841-7. Epub 2023 Jan 18. Nat Rev Microbiol. 2023. PMID: 36653446 Free PMC article. Review.
SARS-CoV-2 variants, spike mutations and immune escape.
Harvey WT, Carabelli AM, Jackson B, Gupta RK, Thomson EC, Harrison EM, Ludden C, Reeve R, Rambaut A; COVID-19 Genomics UK (COG-UK) Consortium; Peacock SJ, Robertson DL. Harvey WT, et al. Nat Rev Microbiol. 2021 Jul;19(7):409-424. doi: 10.1038/s41579-021-00573-0. Epub 2021 Jun 1. Nat Rev Microbiol. 2021. PMID: 34075212 Free PMC article. Review.
Prevalence of persistent SARS-CoV-2 in a large community surveillance study.
Ghafari M, Hall M, Golubchik T, Ayoubkhani D, House T, MacIntyre-Cockett G, Fryer HR, Thomson L, Nurtay A, Kemp SA, Ferretti L, Buck D, Green A, Trebes A, Piazza P, Lonie LJ, Studley R, Rourke E, Smith DL, Bashton M, Nelson A, Crown M, McCann C, Young GR, Santos RAND, Richards Z, Tariq MA, Cahuantzi R; Wellcome Sanger Institute COVID-19 Surveillance Team; COVID-19 Infection Survey Group; COVID-19 Genomics UK (COG-UK) Consortium; Barrett J, Fraser C, Bonsall D, Walker AS, Lythgoe K. Ghafari M, et al. Nature. 2024 Feb;626(8001):1094-1101. doi: 10.1038/s41586-024-07029-4. Epub 2024 Feb 21. Nature. 2024. PMID: 38383783 Free PMC article.
Comparative analysis of the risks of hospitalisation and death associated with SARS-CoV-2 omicron (B.1.1.529) and delta (B.1.617.2) variants in England: a cohort study.
Nyberg T, Ferguson NM, Nash SG, Webster HH, Flaxman S, Andrews N, Hinsley W, Bernal JL, Kall M, Bhatt S, Blomquist P, Zaidi A, Volz E, Aziz NA, Harman K, Funk S, Abbott S; COVID-19 Genomics UK (COG-UK) consortium; Hope R, Charlett A, Chand M, Ghani AC, Seaman SR, Dabrera G, De Angelis D, Presanis AM, Thelwall S. Nyberg T, et al. Lancet. 2022 Apr 2;399(10332):1303-1312. doi: 10.1016/S0140-6736(22)00462-7. Epub 2022 Mar 16. Lancet. 2022. PMID: 35305296 Free PMC article.
SARS-CoV-2 within-host diversity and transmission.
Lythgoe KA, Hall M, Ferretti L, de Cesare M, MacIntyre-Cockett G, Trebes A, Andersson M, Otecko N, Wise EL, Moore N, Lynch J, Kidd S, Cortes N, Mori M, Williams R, Vernet G, Justice A, Green A, Nicholls SM, Ansari MA, Abeler-Dörner L, Moore CE, Peto TEA, Eyre DW, Shaw R, Simmonds P, Buck D, Todd JA; Oxford Virus Sequencing Analysis Group (OVSG); Connor TR, Ashraf S, da Silva Filipe A, Shepherd J, Thomson EC; COVID-19 Genomics UK (COG-UK) Consortium; Bonsall D, Fraser C, Golubchik T. Lythgoe KA, et al. Science. 2021 Apr 16;372(6539):eabg0821. doi: 10.1126/science.abg0821. Epub 2021 Mar 9. Science. 2021. PMID: 33688063 Free PMC article.
Lineage replacement and evolution captured by 3 years of the United Kingdom Coronavirus (COVID-19) Infection Survey.
Lythgoe KA, Golubchik T, Hall M, House T, Cahuantzi R, MacIntyre-Cockett G, Fryer H, Thomson L, Nurtay A, Ghafani M, Buck D, Green A, Trebes A, Piazza P, Lonie LJ, Studley R, Rourke E, Smith D, Bashton M, Nelson A, Crown M, McCann C, Young GR, Andre Nunes Dos Santos R, Richards Z, Tariq A; Wellcome Sanger Institute COVID-19 Surveillance Team; COVID-19 Infection Survey Group, The COVID-19 Genomics UK (COG-UK) Consortium; Fraser C, Diamond I, Barrett J, Walker AS, Bonsall D. Lythgoe KA, et al. Proc Biol Sci. 2023 Oct 25;290(2009):20231284. doi: 10.1098/rspb.2023.1284. Epub 2023 Oct 18. Proc Biol Sci. 2023. PMID: 37848057 Free PMC article.
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. Genome Biol. 2021 Jul 1;22(1):196. doi: 10.1186/s13059-021-02395-y. Genome Biol. 2021. PMID: 34210356 Free PMC article.
CoronaHiT: high-throughput sequencing of SARS-CoV-2 genomes.
Baker DJ, Aydin A, Le-Viet T, Kay GL, Rudder S, de Oliveira Martins L, Tedim AP, Kolyva A, Diaz M, Alikhan NF, Meadows L, Bell A, Gutierrez AV, Trotter AJ, Thomson NM, Gilroy R, Griffith L, Adriaenssens EM, Stanley R, Charles IG, Elumogo N, Wain J, Prakash R, Meader E, Mather AE, Webber MA, Dervisevic S, Page AJ, O'Grady J. Baker DJ, et al. Genome Med. 2021 Feb 9;13(1):21. doi: 10.1186/s13073-021-00839-5. Genome Med. 2021. PMID: 33563320 Free PMC article.
Effectiveness of rapid SARS-CoV-2 genome sequencing in supporting infection control for hospital-onset COVID-19 infection: Multicentre, prospective study.
Stirrup O, Blackstone J, Mapp F, MacNeil A, Panca M, Holmes A, Machin N, Shin GY, Mahungu T, Saeed K, Saluja T, Taha Y, Mahida N, Pope C, Chawla A, Cutino-Moguel MT, Tamuri A, Williams R, Darby A, Robertson DL, Flaviani F, Nastouli E, Robson S, Smith D, Loose M, Laing K, Monahan I, Kele B, Haldenby S, George R, Bashton M, Witney AA, Byott M, Coll F, Chapman M, Peacock SJ; COG-UK HOCI Investigators; COVID-19 Genomics UK (COG-UK) consortium; Hughes J, Nebbia G, Partridge DG, Parker M, Price JR, Peters C, Roy S, Snell LB, de Silva TI, Thomson E, Flowers P, Copas A, Breuer J. Stirrup O, et al. Elife. 2022 Sep 13;11:e78427. doi: 10.7554/eLife.78427. Elife. 2022. PMID: 36098502 Free PMC article.
Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1.
Tsui JL, McCrone JT, Lambert B, Bajaj S, Inward RPD, Bosetti P, Pena RE, Tegally H, Hill V, Zarebski AE, Peacock TP, Liu L, Wu N, Davis M, Bogoch II, Khan K, Kall M, Abdul Aziz NIB, Colquhoun R, O'Toole Á, Jackson B, Dasgupta A, Wilkinson E, de Oliveira T; COVID-19 Genomics UK (COG-UK) consortium¶; Connor TR, Loman NJ, Colizza V, Fraser C, Volz E, Ji X, Gutierrez B, Chand M, Dellicour S, Cauchemez S, Raghwani J, Suchard MA, Lemey P, Rambaut A, Pybus OG, Kraemer MUG. Tsui JL, et al. Science. 2023 Jul 21;381(6655):336-343. doi: 10.1126/science.adg6605. Epub 2023 Jul 20. Science. 2023. PMID: 37471538 Free PMC article.
100 results