{"id":"W3019265755","doi":"10.1038/s41467-020-15951-0","title":"Non-coding somatic mutations converge on the PAX8 pathway in ovarian cancer","year":2020,"lang":"en","type":"article","venue":"Nature Communications","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":85,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; BC Cancer Agency","funders":"National Cancer Institute; Ovarian Cancer Research Fund Alliance; Cedars-Sinai Medical Center; Tower Cancer Research Foundation; Ovarian Cancer Research Alliance; Ovarian Cancer Research Fund","keywords":"Biology; Enhancer; Genetics; Gene; Epigenomics; Transcription factor; Computational biology; Transcriptome; Genome; PAX8; Epigenetics; Gene expression; DNA methylation","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":[],"consensus_categories":[],"category_scores_codex":[0.00008273442,0.00008550622,0.00007920704,0.00002117728,0.0001616491,0.00002607152,0.0005749919,0.0001361823,0.00002623937],"category_scores_gemma":[0.000248069,0.0000714101,0.00004635655,0.0001470201,0.00005860557,0.000002290551,0.0001973544,0.0003817833,0.00001655447],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000251027,"about_ca_system_score_gemma":0.0001292393,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004788168,"about_ca_topic_score_gemma":0.001012119,"domain_scores_codex":[0.999492,0.00004480053,0.0001436838,0.0001438055,0.00006278029,0.0001128944],"domain_scores_gemma":[0.9989775,0.0001321755,0.00005877122,0.0007353951,0.00004782373,0.00004834049],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001541116,0.000540996,0.02690196,0.00007167707,0.0002664453,0.000006674143,0.004573308,0.002495276,0.7492911,0.1572647,0.05469247,0.003741345],"study_design_scores_gemma":[0.002377324,0.0003732948,0.05407823,0.0001644084,0.00007627705,0.000005446195,0.001647589,0.01423974,0.2675436,0.001599585,0.6569877,0.0009067502],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6597917,0.01529762,0.001427995,0.2962829,0.0007654576,0.001818875,0.0007042701,0.00005208938,0.02385907],"genre_scores_gemma":[0.990859,0.001196486,0.00032598,0.007181216,0.0001019639,0.0001248099,0.0001655451,0.00001374452,0.0000311957],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6022953,"threshold_uncertainty_score":0.2912019,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02133243541547097,"score_gpt":0.2841497861577086,"score_spread":0.2628173507422377,"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."}}