{"id":"W4391212377","doi":"10.48550/arxiv.2401.12477","title":"Modular control of Boolean network models","year":2024,"lang":"en","type":"preprint","venue":"PubMed","topic":"Gene Regulatory Network Analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Advanced Research Projects Agency; Banff International Research Station for Mathematical Innovation and Discovery; American Association of Immunologists","keywords":"Modular design; Computer science; ENCODE; Biological network; Control (management); Boolean network; Gene regulatory network; Systems biology; Computational biology; Artificial intelligence; Boolean function; Biology; Gene","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0005278849,0.0003331308,0.0005292476,0.00007846797,0.00002997834,0.00003570961,0.0004508579,0.000539728,0.000006175517],"category_scores_gemma":[0.0000215484,0.0003328187,0.0005888712,0.0001309141,0.00008836284,0.000001062238,0.001000656,0.0003183885,0.000004698975],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002948935,"about_ca_system_score_gemma":0.00009538582,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001761369,"about_ca_topic_score_gemma":0.00001887053,"domain_scores_codex":[0.9979293,0.0001139361,0.0004574306,0.0007431804,0.0002448383,0.0005112895],"domain_scores_gemma":[0.9984229,0.000008504594,0.0002271031,0.001067638,0.0001213831,0.0001525301],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.00005453177,0.00003142149,0.0003478843,0.0001822411,0.001574105,0.000005437924,0.000009199272,0.9767171,0.001098332,0.0003674936,0.005727839,0.01388438],"study_design_scores_gemma":[0.003404106,0.0002067776,0.03224384,0.0004140345,0.007834099,0.00003914912,0.00005190903,0.5878897,0.03799632,0.2562335,0.06920195,0.004484572],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8555439,0.09746261,0.03408433,0.0005357859,0.002152177,0.002601733,0.0002521372,0.0001086385,0.007258642],"genre_scores_gemma":[0.9948696,0.0004471353,0.0002761632,0.0001207787,0.001502684,0.00102469,0.0002055496,0.00007564604,0.00147769],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3888274,"threshold_uncertainty_score":0.9999124,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01234163456436745,"score_gpt":0.2021447984206231,"score_spread":0.1898031638562557,"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."}}