{"id":"W2981350712","doi":"10.1093/nar/gkz946","title":"Pathway Commons 2019 Update: integration, analysis and exploration of pathway data","year":2019,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":331,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Cancer Institute; National Human Genome Research Institute; Defense Advanced Research Projects Agency; National Institutes of Health","keywords":"Biology; Computational biology; Data integration; Genetics; Evolutionary biology; Data science; Bioinformatics; Data mining; Computer science","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.006141199,0.002607553,0.001893798,0.007510396,0.001120075,0.007119274,0.004588549,0.001357596,0.05362307],"category_scores_gemma":[0.02062995,0.002077095,0.002616198,0.008197763,0.0005834472,0.004443137,0.005694508,0.002399156,0.04560881],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001549026,"about_ca_system_score_gemma":0.006501756,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.01006877,"about_ca_topic_score_gemma":0.01510281,"domain_scores_codex":[0.9969776,0.0005722545,0.0004416066,0.0005781417,0.001114306,0.0003160409],"domain_scores_gemma":[0.991269,0.003276159,0.000687682,0.002024037,0.001876592,0.0008664295],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0009980397,0.00009386442,0.004424558,0.003907674,0.0005549466,0.0004551594,0.0002304798,0.002712077,0.002638788,0.006873728,0.9079365,0.06917418],"study_design_scores_gemma":[0.0003235166,0.00006296094,0.005252355,0.0007885444,0.0002278445,0.0005683734,0.0001194996,0.004635079,0.003992449,0.008187567,0.9756923,0.0001495117],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.003146241,0.00199029,0.03397926,0.001160529,0.0006540124,0.0003989309,0.8165717,0.1313411,0.01075802],"genre_scores_gemma":[0.006378422,0.001990487,0.03654127,0.0003540274,0.00009698862,0.0006276564,0.9353745,0.01444738,0.004189231],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.05362307,"threshold_uncertainty_score":0.1793871,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04507245269159469,"score_gpt":0.3184225766611605,"score_spread":0.2733501239695658,"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."}}