{"id":"W1988933877","doi":"10.1016/j.ygeno.2010.01.002","title":"Conservation and regulatory associations of a wide affinity range of mouse transcription factor binding sites","year":2010,"lang":"en","type":"article","venue":"Genomics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":47,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Toronto","funders":"National Human Genome Research Institute; Eunice Kennedy Shriver National Institute of Child Health and Human Development; Health Canada; National Institutes of Health; Canadian Institute for Advanced Research; Ontario Genomics Institute; Canadian Institutes of Health Research; Genome Canada","keywords":"Biology; DNA binding site; Gene; Regulatory sequence; Genome; Genetics; Transcription factor; Conserved sequence; Computational biology; Binding site; DNA; Regulation of gene expression; Negative selection; Promoter; Gene expression; Peptide sequence","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0001260222,0.00007360337,0.0001178472,0.00003451891,0.0000413732,0.000007928545,0.00006946374,0.0001342799,0.00000561519],"category_scores_gemma":[0.00006929711,0.00008260857,0.00004919525,0.00003321086,0.00006324428,0.000003791851,0.00002671394,0.00006179223,5.013024e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001126572,"about_ca_system_score_gemma":0.00005296202,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002583379,"about_ca_topic_score_gemma":0.0003592557,"domain_scores_codex":[0.9995193,0.00001706988,0.0002072228,0.0001205454,0.00005115115,0.00008467923],"domain_scores_gemma":[0.9995285,0.0000182304,0.000178603,0.0001663349,0.00007803385,0.0000303238],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.00001161914,0.00002504185,0.08633549,0.00002136458,0.00002551208,4.162738e-8,0.0001623167,0.00001873259,0.913057,0.0001770765,0.00003817145,0.000127611],"study_design_scores_gemma":[0.0004980102,0.00007841289,0.2771938,0.000003498712,0.00002785481,0.000001686575,0.0001046226,0.0005590126,0.7208208,0.0001487926,0.0004336271,0.0001298568],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9990943,0.00006167258,0.0002254447,0.00004218387,0.00006780923,0.0001072702,0.0003481139,0.000004095946,0.00004912024],"genre_scores_gemma":[0.9968775,0.00008949212,0.002698981,0.00003196782,0.00002866971,0.000002599523,0.0001864554,0.00001207227,0.00007226947],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1922362,"threshold_uncertainty_score":0.336868,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0146008132428814,"score_gpt":0.2207408091502283,"score_spread":0.2061399959073469,"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."}}