{"id":"W4388667244","doi":"10.1093/nar/gkad1059","title":"JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles","year":2023,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1043,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Children's Hospital; University of British Columbia","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Universitetet i Oslo; Norges Forskningsråd; Agence Nationale de la Recherche; Wellcome Trust; Novo Nordisk; Kreftforeningen; Helse Sør-Øst RHF; Novo Nordisk Fonden; Kræftens Bekæmpelse","keywords":"Biology; Transcription factor; DNA binding site; Computational biology; Transcription (linguistics); Genetics; Database; Promoter; Gene; Gene expression; Computer science","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":[0.0004571193,0.00008048953,0.0001245274,0.000116929,0.0001209941,0.00006297156,0.00121171,0.00008389982,0.0001639033],"category_scores_gemma":[0.0002130808,0.00006481687,0.000065107,0.0005646491,0.0002189401,0.00001814596,0.00139076,0.0001506623,0.00001265702],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002382141,"about_ca_system_score_gemma":0.0002532401,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003135527,"about_ca_topic_score_gemma":0.00006987196,"domain_scores_codex":[0.9988958,0.0001009029,0.000175684,0.0002626804,0.0003080547,0.000256852],"domain_scores_gemma":[0.9991482,0.00004641818,0.00005990227,0.0005020971,0.0001842603,0.00005907904],"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":[0.000118641,0.00004901321,0.009792984,0.00009570591,0.00003038778,0.000002147502,0.0001130544,0.00002808755,0.9609643,0.0001891596,0.02725627,0.001360211],"study_design_scores_gemma":[0.0005908837,0.0002289061,0.0298228,0.00008611,0.00001017927,0.000001280873,0.0005341692,0.0001873942,0.9352296,0.00009959079,0.0330923,0.0001167941],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9956781,0.0002490213,0.00003504132,0.0002714721,0.0001905937,0.0004262031,0.0009496579,0.000004266122,0.002195597],"genre_scores_gemma":[0.9965673,0.001450263,0.00008871269,0.00002187814,0.00008434503,0.00002090133,0.0001586729,0.00001962085,0.001588304],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02573474,"threshold_uncertainty_score":0.2643155,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1118856686822317,"score_gpt":0.4000876850288127,"score_spread":0.288202016346581,"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."}}