{"id":"W2142570576","doi":"10.1093/nar/gkp950","title":"JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles","year":2009,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":587,"is_retracted":false,"has_abstract":true,"ca_institutions":"Child and Family Research Institute; University of British Columbia","funders":"Seventh Framework Programme; Michael Smith Health Research BC; Bergens Forskningsstiftelse; Norges Forskningsråd; Novo Nordisk; Canadian Institutes of Health Research; Genome Canada","keywords":"Biology; Database; Computational biology; UniProt; Transcription factor; DNA binding site; Genome; Genetics; Computer science; Gene; Promoter; Gene expression","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":[0.000625842,0.0001249315,0.0001454983,0.0000810433,0.0002376449,0.0002352808,0.001573508,0.0001195179,0.0001195249],"category_scores_gemma":[0.00008079213,0.00009187784,0.00006182895,0.0002213265,0.00016198,0.00002634021,0.0004864942,0.0002207192,0.00001410564],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002574038,"about_ca_system_score_gemma":0.0001317346,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009239998,"about_ca_topic_score_gemma":0.00002927164,"domain_scores_codex":[0.9986089,0.0001533752,0.0002252513,0.0003353262,0.0003236681,0.0003534189],"domain_scores_gemma":[0.9990085,0.0000193189,0.00006253769,0.0006474554,0.0001791716,0.0000829624],"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":[0.0001119268,0.00009175133,0.001399175,0.00002647151,0.0000227182,0.000001910423,0.0001147926,0.000007966191,0.9909014,0.0004193405,0.00228696,0.00461559],"study_design_scores_gemma":[0.001280227,0.0009381543,0.04994583,0.00007833419,0.00001609181,0.00001573974,0.0006523352,0.001033098,0.9385968,0.0008432944,0.006282332,0.0003177478],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9961368,0.0002322768,0.0002706533,0.0004430774,0.00007629937,0.0005388511,0.0001639298,0.000006635847,0.002131424],"genre_scores_gemma":[0.9975277,0.0005167419,0.0005586406,0.000060684,0.00009565862,0.00002620004,0.0002206804,0.00001945861,0.0009742966],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05230458,"threshold_uncertainty_score":0.374667,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0995418793554497,"score_gpt":0.3920679599360671,"score_spread":0.2925260805806174,"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."}}