{"id":"W2988716798","doi":"10.1093/nar/gkz1001","title":"JASPAR 2020: update of the open-access database of transcription factor binding profiles","year":2019,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"RNA modifications and cancer","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1923,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Children's Hospital; University of British Columbia","funders":"Biotechnology and Biological Sciences Research Council; Helse Sør-Øst RHF; Medical Research Council; Natural Sciences and Engineering Research Council of Canada; Lundbeckfonden; CHIST-ERA; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; Agence Nationale de la Recherche; Genome British Columbia; H. Lundbeck A/S; Western Canada Research Grid; Canadian Institutes of Health Research; Danmarks Frie Forskningsfond; Compute Canada; Weston Brain Institute; BC Children's Hospital; Michael Smith Health Research BC; Norges Forskningsråd; Kreftforeningen; Children's Hospital Foundation; Universitetet i Oslo; Genome Canada","keywords":"Biology; Transcription factor; DNA binding site; Computational biology; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":["open_science"],"consensus_categories":[],"category_scores_codex":[0.004789459,0.002616998,0.002185941,0.007242028,0.001344836,0.00328038,0.004324356,0.001347504,0.02486945],"category_scores_gemma":[0.01013784,0.001966704,0.002096919,0.00785448,0.0004600477,0.003062204,0.003964283,0.003327741,0.05000231],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008508713,"about_ca_system_score_gemma":0.002862465,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.005238759,"about_ca_topic_score_gemma":0.00794479,"domain_scores_codex":[0.9971864,0.0004195981,0.0003959063,0.0006128848,0.001077816,0.0003074331],"domain_scores_gemma":[0.995613,0.001006894,0.0006126084,0.000994615,0.001133684,0.0006391541],"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":[0.002286721,0.0001185016,0.00368672,0.003147456,0.0003997079,0.0004055378,0.0003772548,0.000760034,0.03672615,0.002339192,0.8675323,0.08222041],"study_design_scores_gemma":[0.0002059976,0.00007957001,0.009700891,0.0003248954,0.0002502162,0.0005509869,0.00008383119,0.002237577,0.01208841,0.002529014,0.9717248,0.0002237002],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"dataset","genre_scores_codex":[0.009848033,0.00329319,0.03505283,0.00104081,0.001018645,0.0001929425,0.8151047,0.1264399,0.008009116],"genre_scores_gemma":[0.005418354,0.001213945,0.034305,0.0005190688,0.000186246,0.0002691782,0.9379947,0.01702167,0.003071932],"genre_candidate":"dataset","genre_consensus":"dataset","teacher_disagreement_score":0.9956756,"threshold_uncertainty_score":0.08319658,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0868363027045841,"score_gpt":0.4024198451276514,"score_spread":0.3155835424230673,"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."}}