{"id":"W3043743612","doi":"10.1038/s41467-020-17386-z","title":"Landscape of somatic single nucleotide variants and indels in colorectal cancer and impact on survival","year":2020,"lang":"en","type":"article","venue":"Nature Communications","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":94,"is_retracted":false,"has_abstract":true,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; University Health Network; Mount Sinai Hospital; University of Toronto; Ontario Institute for Cancer Research","funders":"Ontario Ministry of Research and Innovation; Canadian Institutes of Health Research; Centers for Disease Control and Prevention; National Cancer Institute; U.S. Department of Health and Human Services; National Institutes of Health; Fred Hutchinson Cancer Research Center","keywords":"Indel; MUTYH; Colorectal cancer; Biology; Somatic cell; Gene; Genetics; Mutation; DNA mismatch repair; Cancer; Cancer research; Germline mutation; Single-nucleotide polymorphism; Genotype","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":[0.0003971747,0.0001036721,0.0002375863,0.001030888,0.0001882758,0.0003826168,0.0001554891,0.0002500911,0.00123322],"category_scores_gemma":[0.001708875,0.00008618496,0.0002500794,0.0008277001,0.000223488,0.0001669733,0.0002469643,0.0002193724,0.0001692306],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001465802,"about_ca_system_score_gemma":0.0001153521,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001160635,"about_ca_topic_score_gemma":0.001881313,"domain_scores_codex":[0.999658,0.00008584058,0.0000236979,0.0001117379,0.00007055432,0.00005018007],"domain_scores_gemma":[0.9988074,0.0005273438,0.0003586157,0.00006931704,0.00007858875,0.0001586892],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0005932568,0.0000249534,0.9728495,0.00003403824,0.0002810636,0.0004847506,0.00006565299,0.0006385358,0.01178546,0.000113832,0.0001800494,0.01294877],"study_design_scores_gemma":[0.00000368736,0.00009616679,0.9972785,0.000005252524,0.000079625,0.0008407899,0.00005774375,0.0007370568,0.0004857244,0.0001674736,0.0002433002,0.000004602489],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983144,0.0007892583,0.0001998588,0.00004807106,0.000002677343,0.000001765999,0.0002926867,0.00001058738,0.0003407619],"genre_scores_gemma":[0.9995615,0.0001175942,0.00006785336,0.00001511435,0.000003914732,0.000001246495,0.0001593185,0.000002918864,0.00007049862],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00123322,"threshold_uncertainty_score":0.004125535,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01599976069084339,"score_gpt":0.2897065756572353,"score_spread":0.2737068149663919,"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."}}