{"id":"W2798055326","doi":"10.1186/s12859-018-2118-1","title":"Encompassing new use cases - level 3.0 of the HUPO-PSI format for molecular interactions","year":2018,"lang":"en","type":"article","venue":"BMC Bioinformatics","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":63,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; University Health Network","funders":"FP7 Health; National Institute of General Medical Sciences; Biotechnology and Biological Sciences Research Council; National Institutes of Health; European Commission; Fondation pour la Recherche Médicale; Institut Français de Bioinformatique; EMBL Australia; British Heart Foundation; Wellcome Trust","keywords":"Computer science; Workgroup; XML; Suite; Data exchange; Collaboratory; Data format; Database; Information retrieval; World Wide Web","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":[0.0001584292,0.0001874395,0.0001788802,0.00005109338,0.0002029744,0.00008466953,0.0003496402,0.0001336301,0.00001364776],"category_scores_gemma":[0.0002267078,0.0001387676,0.0002271877,0.0001254971,0.0001736451,0.00004073227,0.0002201829,0.00009211234,0.00001160163],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002057439,"about_ca_system_score_gemma":0.0002320134,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000339177,"about_ca_topic_score_gemma":0.0002484004,"domain_scores_codex":[0.9988508,0.00001693678,0.0005911231,0.0001066935,0.0001388146,0.000295676],"domain_scores_gemma":[0.9987059,0.00007191827,0.0003657346,0.0005732833,0.000187384,0.00009575503],"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":[0.001710595,0.0005109208,0.007318649,0.001944386,0.0011314,0.000001954822,0.007704413,0.006940003,0.113094,0.01843817,0.7121925,0.129013],"study_design_scores_gemma":[0.002637011,0.0009102959,0.002696868,0.000293341,0.0002250731,0.0002655006,0.001601816,0.2848297,0.2185122,0.001222036,0.4858415,0.0009646618],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.08230955,0.00008963735,0.9143545,0.0001152968,0.0007663959,0.000581563,0.0002099136,0.00001560093,0.001557553],"genre_scores_gemma":[0.6812174,0.00002477568,0.3153954,0.00101631,0.0004656353,0.00002170707,0.0001561988,0.00003393232,0.001668606],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.5989591,"threshold_uncertainty_score":0.565878,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09992559651893787,"score_gpt":0.30643933956922,"score_spread":0.2065137430502821,"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."}}