{"id":"W4210412949","doi":"10.1016/j.gim.2022.01.001","title":"Standards for the classification of pathogenicity of somatic variants in cancer (oncogenicity): Joint recommendations of Clinical Genome Resource (ClinGen), Cancer Genomics Consortium (CGC), and Variant Interpretation for Cancer Consortium (VICC)","year":2022,"lang":"en","type":"article","venue":"Genetics in Medicine","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":239,"is_retracted":false,"has_abstract":false,"ca_institutions":"University Health Network; BC Cancer Agency","funders":"National Cancer Institute; National Center for Advancing Translational Sciences; National Human Genome Research Institute; National Institutes of Health","keywords":"Somatic cell; Computational biology; Genomics; Germline; Cancer; Genome; Biology; Genetics; Bioinformatics; Medicine; Gene","routes":{"ca_aff":true,"ca_fund":false,"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":["metaresearch"],"consensus_categories":[],"category_scores_codex":[0.2025386,0.003153414,0.006456861,0.02000171,0.006923233,0.01045408,0.03075278,0.02531442,0.003993268],"category_scores_gemma":[0.2667839,0.004285934,0.01294917,0.01521515,0.008598552,0.003254073,0.009621431,0.03006014,0.006379957],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.01040866,"about_ca_system_score_gemma":0.0467203,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.06855714,"about_ca_topic_score_gemma":0.05860899,"domain_scores_codex":[0.8086531,0.05715344,0.06115386,0.006257778,0.05986452,0.006917325],"domain_scores_gemma":[0.4695473,0.2030906,0.0363645,0.0333393,0.2419366,0.01572172],"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":[0.0007663314,0.001994103,0.03690932,0.004499412,0.001078075,0.001373301,0.004697649,0.00745747,0.008442876,0.03403367,0.6700647,0.2286831],"study_design_scores_gemma":[0.001146697,0.001402049,0.1573086,0.03028505,0.00380326,0.00542411,0.006103018,0.03161912,0.02624344,0.07636593,0.658995,0.001303694],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.02790178,0.03231227,0.5510787,0.2658417,0.01955732,0.01344489,0.02284846,0.0141529,0.05286194],"genre_scores_gemma":[0.03957177,0.005427328,0.8729656,0.03929398,0.001790968,0.006893632,0.02445897,0.001713989,0.007883664],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.2025386,"threshold_uncertainty_score":0.9834118,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06596945657184741,"score_gpt":0.3869771244400349,"score_spread":0.3210076678681875,"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."}}