{"id":"W2118596665","doi":"10.1093/bioinformatics/btk027","title":"ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation","year":2006,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":123,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre","funders":"Genome British Columbia; Genome Canada","keywords":"Ensembl; Annotation; License; Database; Transcription factor; dbSNP; Computer science; DNA binding site; Promoter; World Wide Web; Computational biology; Biology; Gene; Bioinformatics; Genetics; Genomics; Genotype","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":[0.005279498,0.00195305,0.002177166,0.01660062,0.001787922,0.003527296,0.003479408,0.001142292,0.03100793],"category_scores_gemma":[0.01718513,0.0008631179,0.001196708,0.01240717,0.0006781581,0.00307618,0.005302124,0.001441262,0.02492405],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009936776,"about_ca_system_score_gemma":0.006359649,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00297203,"about_ca_topic_score_gemma":0.003890099,"domain_scores_codex":[0.9975574,0.0004121445,0.0005740113,0.0006978765,0.0006024865,0.0001561057],"domain_scores_gemma":[0.9923716,0.002615361,0.001320901,0.001455893,0.001365045,0.0008712513],"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":[0.001421621,0.0002124093,0.00596565,0.009895573,0.0003767285,0.001482751,0.001307489,0.001777712,0.03298198,0.01553527,0.6113657,0.3176772],"study_design_scores_gemma":[0.00027765,0.0001156923,0.01021917,0.001135246,0.0002075338,0.001046276,0.0003019645,0.008571647,0.01092896,0.01465668,0.9522718,0.0002673882],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.008966615,0.002161416,0.1726666,0.000983355,0.0006302983,0.001491792,0.6069825,0.1880384,0.01807898],"genre_scores_gemma":[0.01643809,0.001383379,0.2982451,0.0004184428,0.0002402526,0.002878544,0.6587967,0.0143408,0.007258732],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.9965206,"threshold_uncertainty_score":0.1037318,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01912677982166692,"score_gpt":0.2672365525115915,"score_spread":0.2481097726899246,"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."}}