{"id":"W3202019442","doi":"10.1016/j.cels.2021.09.013","title":"The mutational landscape of SARS-CoV-2 variants diversifies T cell targets in an HLA-supertype-dependent manner","year":2021,"lang":"en","type":"article","venue":"Cell Systems","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":39,"is_retracted":false,"has_abstract":false,"ca_institutions":"Université de Montréal; Montreal Heart Institute; Centre Hospitalier Universitaire Sainte-Justine","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research; Natural Sciences and Engineering Research Council of Canada; Institut de Valorisation des Données; Fondation Institut de Cardiologie de Montréal; Centre hospitalier universitaire Sainte-Justine; Fondation Charles-Bruneau; Canada Foundation for Innovation","keywords":"Biology; Immunosurveillance; Population; Pandemic; Genetics; Human leukocyte antigen; Immunogenicity; Genome; Epitope; Haplotype; Virology; Allele; Cell; Coronavirus disease 2019 (COVID-19); Immune system; Gene; Medicine; Antigen; Disease","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001522058,0.0001578524,0.0001533233,0.0001832785,0.0001228338,0.0004799697,0.0001414197,0.0001900614,0.003607718],"category_scores_gemma":[0.0002142793,0.00009838128,0.0001155788,0.0001218505,0.0001289708,0.0002356536,0.0002183528,0.000341922,0.000578032],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001909815,"about_ca_system_score_gemma":0.0001121982,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000459501,"about_ca_topic_score_gemma":0.0006944024,"domain_scores_codex":[0.9998411,0.00004072968,0.000008649309,0.00003086482,0.00002851107,0.00005009645],"domain_scores_gemma":[0.9999329,0.00001582449,0.00001350598,0.00001082476,0.00001328442,0.00001377339],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001204662,0.00002980025,0.001700493,0.00001200555,0.000006875306,0.00005682301,0.00002663177,0.0002029863,0.9955599,0.0003001371,0.0001179414,0.001865796],"study_design_scores_gemma":[0.00007644791,0.001823182,0.1320881,0.0000287729,0.00006927622,0.003412086,0.0007191194,0.01452852,0.8326129,0.001590392,0.01301493,0.00003633422],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9968389,0.0003055891,0.0007064881,0.00005930196,0.000008809021,0.000008167831,0.0001303774,0.00001698212,0.001925479],"genre_scores_gemma":[0.9985349,0.00015087,0.000253995,0.00004699027,0.000004953102,0.000005351603,0.0002199479,0.00000808249,0.0007748155],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003607718,"threshold_uncertainty_score":0.01206905,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04264930182184622,"score_gpt":0.3084451288067582,"score_spread":0.2657958269849119,"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."}}