{"id":"W2151991601","doi":"10.1093/database/bau095","title":"WholeCellSimDB: a hybrid relational/HDF database for whole-cell model predictions","year":2014,"lang":"en","type":"article","venue":"Database","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":43,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Prince Edward Island","funders":"National Center for Chronic Disease Prevention and Health Promotion; U.S. National Library of Medicine; National Institute of General Medical Sciences; National Institutes of Health","keywords":"Computer science; Python (programming language); JSON; Metadata; JavaScript; Database; Interface (matter); Relational database; Graphical user interface; Interoperability; SQL; Relational database management system; Information retrieval; World Wide Web; Programming language","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":[0.002235265,0.002107939,0.001837841,0.003760273,0.001178708,0.00425246,0.007038932,0.001861524,0.0513484],"category_scores_gemma":[0.006913113,0.001439292,0.002271835,0.003959368,0.000434652,0.003948003,0.002701328,0.001758827,0.03147141],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001707325,"about_ca_system_score_gemma":0.00320716,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0145599,"about_ca_topic_score_gemma":0.01181837,"domain_scores_codex":[0.9989324,0.0001170495,0.0001984406,0.0002431886,0.0004105032,0.0000984577],"domain_scores_gemma":[0.9975074,0.0006635917,0.0001736049,0.0007773874,0.0006663784,0.0002116663],"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":[0.0006875378,0.0002521817,0.005319727,0.002635956,0.0004746834,0.0007597134,0.0004618887,0.0512798,0.01681794,0.04239077,0.7760544,0.1028653],"study_design_scores_gemma":[0.0004517836,0.00009301658,0.003177538,0.0003257517,0.0002291367,0.000476252,0.0002975454,0.1972071,0.03024114,0.0391105,0.7281273,0.0002629341],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.006457326,0.001233804,0.3206121,0.0005848356,0.0002656872,0.0002839362,0.4355426,0.2190854,0.0159344],"genre_scores_gemma":[0.0323242,0.001337848,0.1436854,0.0003951326,0.00006888282,0.0009738806,0.7918278,0.0232622,0.006124611],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.0513484,"threshold_uncertainty_score":0.1717775,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01507083620479464,"score_gpt":0.2365658045377128,"score_spread":0.2214949683329181,"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."}}