{"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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001784334,0.001983142,0.001137548,0.005666893,0.0007470648,0.002833786,0.001697411,0.001411399,0.03304414],"category_scores_gemma":[0.005554372,0.0006216369,0.001428989,0.005344734,0.0003585906,0.001747772,0.003453796,0.0009037525,0.0244389],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009136747,"about_ca_system_score_gemma":0.001470394,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01054672,"about_ca_topic_score_gemma":0.01774948,"domain_scores_codex":[0.999057,0.0000892871,0.0000919774,0.0003004317,0.0003305506,0.000130826],"domain_scores_gemma":[0.997893,0.0006683253,0.0004221902,0.0003119758,0.000397665,0.0003068791],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.001873046,0.0000982313,0.02023584,0.004555696,0.0004483882,0.001006951,0.0009190568,0.002456649,0.009427633,0.003456095,0.878288,0.07723448],"study_design_scores_gemma":[0.0003609098,0.0001638966,0.03743019,0.001070193,0.0002767735,0.000871113,0.0005232156,0.008541469,0.009206725,0.006220612,0.9350891,0.0002459018],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.02019702,0.00253903,0.007636402,0.0006681636,0.0001992575,0.0001829665,0.8925791,0.05844806,0.01755003],"genre_scores_gemma":[0.05296432,0.002005175,0.04785392,0.0007498314,0.0000831475,0.0004643898,0.8734702,0.01518508,0.007223981],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.03304414,"threshold_uncertainty_score":0.1105436,"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."}}