{"id":"W1759632117","doi":"10.1186/1471-2105-5-24","title":"Biochemical Network Stochastic Simulator (BioNetS): software for stochastic modeling of biochemical networks","year":2004,"lang":"en","type":"article","venue":"BMC Bioinformatics","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":150,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Defense Advanced Research Projects Agency; Alfred P. Sloan Foundation","keywords":"Computer science; Software; Stochastic modelling; Simulation; Programming language; Mathematics; Statistics","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":[0.001130643,0.001230264,0.0009002596,0.0007574348,0.0005132532,0.0009118228,0.002389461,0.001558877,0.01462912],"category_scores_gemma":[0.003648049,0.0009626082,0.00128351,0.0007436912,0.0005662946,0.001464544,0.001216923,0.001993223,0.003818016],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009513833,"about_ca_system_score_gemma":0.002272828,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005983202,"about_ca_topic_score_gemma":0.005694424,"domain_scores_codex":[0.9995765,0.0001178311,0.00004709302,0.00006490276,0.0001577944,0.00003597531],"domain_scores_gemma":[0.9984857,0.0008757886,0.0001405028,0.0001487075,0.0002556104,0.00009378025],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001099353,0.00008915698,0.002105997,0.0006602526,0.0001423225,0.0001870892,0.0001586032,0.8875412,0.006451505,0.04544745,0.03023312,0.02687342],"study_design_scores_gemma":[0.0000458064,0.00001301724,0.0001483329,0.00002473494,0.00001178465,0.00005195675,0.000006720777,0.9736805,0.001893039,0.008227409,0.01587951,0.00001718959],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.01101076,0.0003847245,0.9300786,0.0003198528,0.0001591385,0.0001833994,0.007042371,0.04341148,0.00740964],"genre_scores_gemma":[0.1940699,0.002042133,0.7515609,0.0005316566,0.0001359071,0.002637599,0.02221916,0.01449997,0.01230277],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.01462912,"threshold_uncertainty_score":0.04893929,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01449411906631034,"score_gpt":0.2385294678884628,"score_spread":0.2240353488221525,"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."}}