{"id":"W4220871416","doi":"10.1093/ve/veac023","title":"Tracking SARS-CoV-2 Mutations & Variants Through the COG-UK-Mutation Explorer","year":2022,"lang":"en","type":"article","venue":"Virus Evolution","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":31,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Infection and Immunity; Great Ormond Street Institute of Child Health; Medical Research Council; UK Research and Innovation; Sheffield Teaching Hospitals NHS Foundation Trust; St George's University Hospitals NHS Foundation Trust; Public Health Agency; Norfolk and Norwich University Hospitals NHS Foundation Trust; University College London Hospitals NHS Foundation Trust; Newcastle upon Tyne Hospitals NHS Foundation Trust; Cambridge University Hospitals; University of Glasgow; University of Brighton; Public Health England; Queen's University Belfast; Cardiff University; Quadram Institute Bioscience; Newcastle University; Imperial College London; Queen's University; Directorate for Biological Sciences; University of East Anglia; Bournemouth University; University of Cambridge; Academy of Medical Sciences; National Institute for Health and Care Research; University of Oxford; Royal Devon and Exeter NHS Foundation Trust; Middlesex University; National Institute for Health Research Health Protection Research Unit; Royal Free London NHS Foundation Trust; University Hospital Southampton NHS Foundation Trust; King's College Hospital NHS Foundation Trust; King's College London; University of Nottingham; Public Health Wales; University Hospitals of Leicester NHS Trust; University College London; Imperial College Healthcare NHS Trust; University of Southampton; Wellcome Trust; Nottingham University Hospitals NHS Trust; Barts Health NHS Trust; Swansea University; Great Ormond Street Hospital for Children; NHS Greater Glasgow and Clyde; Royal Marsden NHS Foundation Trust; Northumbria University; University of Exeter; University of Portsmouth; Betsi Cadwaladr University Health Board","keywords":"Mutation; Cog; Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2); Genetics; Coronavirus disease 2019 (COVID-19); Virology; Biology; 2019-20 coronavirus outbreak; Tracking (education); Gene; Medicine; Computer science; Artificial intelligence; Disease","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005710304,0.0001754701,0.0002035383,0.0001585651,0.0009416326,0.00006071318,0.0002156425,0.000077579,0.0001117931],"category_scores_gemma":[0.0003352655,0.0001466857,0.000139362,0.0009279782,0.0001338081,0.0002893049,0.0001214781,0.0005260939,0.000401369],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006407068,"about_ca_system_score_gemma":0.0003644536,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001550661,"about_ca_topic_score_gemma":0.000307072,"domain_scores_codex":[0.9976997,0.0002654112,0.0003511178,0.0003928185,0.0008802157,0.0004106991],"domain_scores_gemma":[0.999031,0.0001520905,0.0001252615,0.0004783983,0.0001935159,0.00001971016],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0005613032,0.0004489391,0.004112384,0.00005104529,0.0001688255,0.00008289346,0.009073554,0.0001696608,0.9659479,0.004913466,0.009689539,0.004780553],"study_design_scores_gemma":[0.006137193,0.0008883871,0.06064702,0.0001126221,0.0006068763,0.0008233566,0.007361883,0.01089393,0.2596373,0.03486703,0.6171665,0.0008579323],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9723424,0.0009221419,0.01912162,0.001336905,0.0005281091,0.0008918005,0.00005577051,0.0001872825,0.004614007],"genre_scores_gemma":[0.9838884,0.000005417954,0.0003452024,0.01494261,0.0002527719,0.0003903648,0.0000665617,0.00003966174,0.00006898009],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7063106,"threshold_uncertainty_score":0.7242372,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1125041118313048,"score_gpt":0.3799172805534813,"score_spread":0.2674131687221766,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}