{"id":"W2096589119","doi":"10.1093/bioinformatics/btt452","title":"The BioPAX Validator","year":2013,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Cancer Institute; National Human Genome Research Institute; National Institutes of Health","keywords":"Validator; Computer science; Programming language; Service (business); Consistency (knowledge bases); Java; World Wide Web; Information retrieval; Software engineering; Artificial intelligence","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":[0.0002032474,0.0001363786,0.00008516506,0.00001819053,0.0002600641,0.0001927483,0.0003407316,0.0001156844,0.00003741154],"category_scores_gemma":[0.00004084706,0.00008613562,0.00007764372,0.00007047559,0.0001061668,0.00001160949,0.0001609423,0.0000836703,0.0007042753],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009024925,"about_ca_system_score_gemma":0.00004714649,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000008125642,"about_ca_topic_score_gemma":0.000005578599,"domain_scores_codex":[0.999108,0.00001243192,0.0003587625,0.00007816991,0.0001248816,0.0003178156],"domain_scores_gemma":[0.9991919,0.00001815862,0.0001253675,0.0004793188,0.00008399202,0.0001012062],"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":[0.00003079641,0.00004793188,0.0008558053,0.00007495402,0.0001844142,5.053893e-7,0.0004270481,0.0001130238,0.009830173,0.006749925,0.7401536,0.2415319],"study_design_scores_gemma":[0.0004756272,0.0001825872,0.001075189,0.00001187641,0.00001473884,0.00003028056,0.0007523683,0.02076567,0.006328663,0.001364508,0.9686072,0.000391221],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6470738,0.004371859,0.10691,0.005602225,0.004395925,0.003986943,0.0001111556,0.0002676478,0.2272804],"genre_scores_gemma":[0.9622296,0.001027612,0.02406407,0.003506585,0.0008929382,0.000152336,0.0002477253,0.00005381708,0.007825282],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3151558,"threshold_uncertainty_score":0.9052268,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007486780389627012,"score_gpt":0.2108091162860064,"score_spread":0.2033223358963794,"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."}}