{"id":"W4281974175","doi":"10.1093/narcan/zcac016","title":"Allele-informed copy number evaluation of plasma DNA samples from metastatic prostate cancer patients: the PCF_SELECT consortium assay","year":2022,"lang":"en","type":"article","venue":"NAR Cancer","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"National Cancer Institute; Foundation Medicine; Genentech; Ono Pharmaceutical; Shionogi; Astellas Pharma; National Institute for Health and Care Research; Cancer Research UK; Associazione Italiana per la Ricerca sul Cancro; Astex Pharmaceuticals; Francis Crick Institute; Rosetrees Trust; Bayer HealthCare; Sanofi; GlaxoSmithKline; Invitae; Prostate Cancer Foundation; Bristol-Myers Squibb; Eli Lilly and Company; AstraZeneca; Amgen; Pfizer","keywords":"Prostate cancer; Allele; Biology; Single-nucleotide polymorphism; Prostate; Cancer; Allele frequency; Gene; Cancer research; Genetics; Internal medicine; Oncology; Genotype; Medicine","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":"codex-gemma-dda1882f352a","candidate_categories":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0004254511,0.0001622707,0.000194343,0.00002346434,0.0001789784,0.00002211942,0.0002285604,0.00004314717,0.001690744],"category_scores_gemma":[0.0002440122,0.0001353351,0.00009229845,0.00013661,0.00008575465,0.000005750979,0.0001487168,0.0001191353,0.000004495223],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002464204,"about_ca_system_score_gemma":0.001137128,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002554437,"about_ca_topic_score_gemma":0.003287876,"domain_scores_codex":[0.9984174,0.0001780281,0.000328611,0.0003017124,0.0005317244,0.0002424674],"domain_scores_gemma":[0.9988465,0.000118171,0.0002874385,0.0002931564,0.0004025825,0.00005212598],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"not_applicable","study_design_scores_codex":[0.003164377,0.0009391563,0.3963661,0.0001522932,0.002898044,0.000003427892,0.004847932,0.06664499,0.1406058,0.0003743236,0.2875363,0.09646726],"study_design_scores_gemma":[0.008102611,0.0006503343,0.02664653,0.00004120244,0.001022392,0.000003446215,0.001285312,0.003304045,0.2782369,0.0006583346,0.6792564,0.0007925465],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9922231,0.002571791,0.00002726451,0.0003057442,0.0005114567,0.0006956612,0.003089712,0.000006430983,0.000568829],"genre_scores_gemma":[0.9949779,0.001626329,0.0001175391,0.0007722289,0.0001508587,0.001084545,0.001073448,0.00002943394,0.0001677124],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3917201,"threshold_uncertainty_score":0.9992219,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02443670983961077,"score_gpt":0.3069160730589166,"score_spread":0.2824793632193058,"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."}}