{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,30]],"date-time":"2026-06-30T11:59:40Z","timestamp":1782820780167,"version":"3.54.5"},"reference-count":0,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2022,3,18]],"date-time":"2022-03-18T00:00:00Z","timestamp":1647561600000},"content-version":"am","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["220977\/Z\/20\/Z"],"award-info":[{"award-number":["220977\/Z\/20\/Z"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Medical Research Council (MRC) part of UK Research & Innovation (UKRI), the National Institute of Health Research","award":["MC_PC_19027"],"award-info":[{"award-number":["MC_PC_19027"]}]},{"name":"G2P-UK National Virology Consortium","award":["MR\/W005611\/1"],"award-info":[{"award-number":["MR\/W005611\/1"]}]},{"DOI":"10.13039\/501100000265","name":"Medical Research Council","doi-asserted-by":"publisher","award":["MC_UU_12014\/12"],"award-info":[{"award-number":["MC_UU_12014\/12"]}],"id":[{"id":"10.13039\/501100000265","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000265","name":"Medical Research Council","doi-asserted-by":"publisher","award":["MR\/R024758\/1"],"award-info":[{"award-number":["MR\/R024758\/1"]}],"id":[{"id":"10.13039\/501100000265","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>COG-UK Mutation Explorer (COG-UK-ME, https:\/\/sars2.cvr.gla.ac.uk\/cog-uk\/ - Last Accessed date 16\/03\/22) is a web resource that displays knowledge and analyses on SARS-CoV-2 virus genome mutations and variants circulating in the UK, with a focus on the observed amino acid replacements that have an antigenic role in the context of the human humoral and cellular immune response. This analysis is based on more than 2 million genome sequences (as of March 2022) for UK SARS-CoV-2 data held in the CLIMB-COVID centralised data environment. COG-UK-ME curates these data and displays analyses that are cross-referenced to experimental data collated from the primary literature. The aim is to track mutations of immunological importance that are accumulating in current variants of concern and variants of interest that could alter the neutralising activity of monoclonal antibodies (mAbs), convalescent sera and vaccines. Changes in epitopes recognised by T cells, including those where reduced T cell binding has been demonstrated, are reported. Mutations that have been shown to confer SARS-CoV-2 resistance to antiviral drugs are also included. Using visualisation tools, COG-UK-ME also allows users to identify the emergence of variants carrying mutations that could decrease the neutralising activity of both mAbs present in therapeutic cocktails, e.g., Ronapreve. COG-UK-ME tracks changes in frequency of combination of mutations and brings together curated literature on the impact of those mutations on various functional aspects of the virus and therapeutics. Given SARS-CoV-2 unpredictable nature as exemplified by yet another variant of concern, Omicron, continued surveillance of SARS-CoV-2 remains imperative to monitor virus evolution linked to the efficacy of therapeutics.<\/jats:p>","DOI":"10.1093\/ve\/veac023","type":"journal-article","created":{"date-parts":[[2022,3,17]],"date-time":"2022-03-17T20:32:59Z","timestamp":1647549179000},"source":"Crossref","is-referenced-by-count":27,"title":["Tracking SARS-CoV-2 Mutations &amp; Variants Through the COG-UK-Mutation Explorer"],"prefix":"10.1093","author":[{"given":"Derek W","family":"Wright","sequence":"first","affiliation":[{"name":"MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"William T","family":"Harvey","sequence":"additional","affiliation":[{"name":"MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow, 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Biology, University of Edinburgh, Edinburgh, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9981-0649","authenticated-orcid":false,"given":"Ben","family":"Jackson","sequence":"additional","affiliation":[{"name":"Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3389-4325","authenticated-orcid":false,"given":"Richard","family":"Orton","sequence":"additional","affiliation":[{"name":"MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7885-4311","authenticated-orcid":false,"given":"Morten","family":"Nielsen","sequence":"additional","affiliation":[{"name":"Universidad Nacional de San Martin, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nienyun Sharon","family":"Hsu","sequence":"additional","affiliation":[{"name":"The Florey Institute for Host-Pathogen Interactions and Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ewan M","family":"Harrison","sequence":"additional","affiliation":[{"name":"Department of Medicine, University of Cambridge, Cambridge, UK"},{"name":"Wellcome Sanger Institute, Hinxton, UK"},{"name":"Department of Public Health and Primary Care, University of Cambridge, Cambridge, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thushan I","family":"de Silva","sequence":"additional","affiliation":[{"name":"The Florey Institute for Host-Pathogen Interactions and Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4337-3707","authenticated-orcid":false,"given":"Andrew","family":"Rambaut","sequence":"additional","affiliation":[{"name":"Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1718-2782","authenticated-orcid":false,"given":"Sharon J","family":"Peacock","sequence":"additional","affiliation":[{"name":"Department of Medicine, University of Cambridge, Cambridge, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6338-0221","authenticated-orcid":false,"given":"David L","family":"Robertson","sequence":"additional","affiliation":[{"name":"MRC-University of Glasgow Centre for Virus Research, University of Glasgow, Glasgow, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3625-4021","authenticated-orcid":false,"given":"Alessandro M","family":"Carabelli","sequence":"additional","affiliation":[{"name":"Department of Medicine, University of Cambridge, Cambridge, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2022,3,18]]},"container-title":["Virus 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