{"id":"W3214187076","doi":"10.1016/j.xpro.2021.100934","title":"Identifying tumorigenic non-coding mutations through altered cis-regulation","year":2021,"lang":"en","type":"article","venue":"STAR Protocols","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University","funders":"Canadian Cancer Society","keywords":"Computational biology; Genetics; Biology; Carcinogenesis; Gene; Genotyping; Genome; 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":[0.001524432,0.0006562912,0.001000443,0.002330686,0.0006946361,0.001524301,0.0007888464,0.0007699857,0.006495195],"category_scores_gemma":[0.00240499,0.0007847957,0.0009054327,0.001622239,0.0004375142,0.0006854555,0.001209862,0.001271543,0.004014957],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006093793,"about_ca_system_score_gemma":0.001114488,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001948874,"about_ca_topic_score_gemma":0.008349866,"domain_scores_codex":[0.9988819,0.00007146921,0.00008188345,0.0004905661,0.0003740578,0.000100135],"domain_scores_gemma":[0.9986971,0.0005452248,0.0002550553,0.0002407602,0.0001607676,0.0001012524],"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":[0.0009397363,0.00008784464,0.0707159,0.001996361,0.0003448045,0.0008475523,0.0004378481,0.004452073,0.8055807,0.00569871,0.01822403,0.09067442],"study_design_scores_gemma":[0.0001231426,0.0002409772,0.137604,0.0002792033,0.000413567,0.002957546,0.0002872916,0.03567858,0.6957659,0.01602611,0.1104686,0.000155043],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"protocol","genre_scores_codex":[0.3752119,0.00576694,0.3699597,0.001516151,0.000308763,0.0005611299,0.1943895,0.03920772,0.01307814],"genre_scores_gemma":[0.4939733,0.00320036,0.3188286,0.00123403,0.00007612719,0.0005781527,0.1662662,0.005502697,0.0103406],"genre_candidate":"protocol","genre_consensus":null,"teacher_disagreement_score":0.006495195,"threshold_uncertainty_score":0.02172863,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0346533326962072,"score_gpt":0.3384741761870368,"score_spread":0.3038208434908297,"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."}}