{"id":"W4200136702","doi":"10.1002/path.5849","title":"Validated biomarker assays confirm that ARID1A loss is confounded with MMR deficiency, CD8 + TIL infiltration, and provides no independent prognostic value in endometriosis‐associated ovarian carcinomas","year":2021,"lang":"en","type":"article","venue":"The Journal of Pathology","topic":"Chromatin Remodeling and Cancer","field":"Biochemistry, Genetics and Molecular Biology","cited_by":42,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta; University of Calgary; Vancouver General Hospital; University of British Columbia; Calgary Laboratory Services; BC Cancer Agency","funders":"H2020 European Research Council; Medical Research and Materiel Command; Cancer Research UK; National Health and Medical Research Council; Swedish Cancer Foundation; Terry Fox Research Institute; Deutsche Forschungsgemeinschaft; National Cancer Institute; BC Cancer Foundation; Canadian Institutes of Health Research; National Center for Research Resources; Cancer Institute NSW; Michael Smith Health Research BC; Breast Cancer Now","keywords":"ARID1A; CD8; Cancer research; Microsatellite instability; Endometriosis; Biology; Immune system; Oncology; Internal medicine; Medicine; Immunology; Mutation; Gene; Genetics","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"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":[0.001844304,0.0003413152,0.0004292872,0.00168956,0.0004423194,0.0007371602,0.0003791991,0.0003335143,0.001824831],"category_scores_gemma":[0.003237612,0.0001494409,0.0003677155,0.001592723,0.0002972075,0.000330336,0.0005234862,0.0002697835,0.0005932056],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005383388,"about_ca_system_score_gemma":0.0005332215,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004160807,"about_ca_topic_score_gemma":0.008106802,"domain_scores_codex":[0.9987214,0.0002326257,0.000251571,0.0002739208,0.0003530177,0.0001674695],"domain_scores_gemma":[0.9978485,0.0004637676,0.0007134763,0.0002837522,0.0005170717,0.0001733939],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0003209487,0.0000462572,0.9659402,0.00007028998,0.0001561026,0.00009199176,0.00008254924,0.0004365147,0.02443397,0.0001194404,0.000398693,0.007903089],"study_design_scores_gemma":[0.0000223749,0.0001811317,0.9757088,0.00002053244,0.0001290388,0.00057482,0.0001681307,0.001309694,0.01804717,0.0002409887,0.003585825,0.00001150115],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9892201,0.001243873,0.002818099,0.00004436956,0.00001211874,0.00009106283,0.004824424,0.00004307304,0.001702882],"genre_scores_gemma":[0.9930172,0.0001702929,0.002933755,0.00003714953,0.000008521858,0.0001040379,0.003230459,0.00000919064,0.0004893207],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004160807,"threshold_uncertainty_score":0.009753704,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01847845810984757,"score_gpt":0.2434947310254057,"score_spread":0.2250162729155581,"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."}}