{"id":"W2126561976","doi":"10.1186/gb-2007-8-10-r207","title":"PAZAR: a framework for collection and dissemination of cis-regulatory sequence annotation","year":2007,"lang":"en","type":"article","venue":"Genome biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":104,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Canadian Institutes of Health Research; Michael Smith Health Research BC; Genome Canada","keywords":"Biology; Annotation; Human genetics; Genome Biology; Computational biology; Sequence (biology); Genetics; Genomics; Genome; Gene","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":[0.0002647371,0.00007713695,0.00009783714,0.00004892628,0.00005659816,0.000004367595,0.00005993532,0.0001989579,0.000003353701],"category_scores_gemma":[0.0001346058,0.000078982,0.0000340033,0.00006236207,0.0000841371,0.000001638602,0.00002961823,0.00003164273,3.904894e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001802476,"about_ca_system_score_gemma":0.00002460142,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00000483289,"about_ca_topic_score_gemma":0.00001885603,"domain_scores_codex":[0.9994415,0.00001595684,0.0001811502,0.0001945715,0.00002661893,0.0001401962],"domain_scores_gemma":[0.9995718,0.00005614733,0.000119101,0.0001294946,0.00009173132,0.00003170297],"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":[0.00007610083,0.00001563509,0.002157887,0.00002343399,0.00001884572,1.063026e-7,0.00009744149,0.00001198845,0.9884697,0.004388051,0.00001867707,0.004722145],"study_design_scores_gemma":[0.001155456,0.004147983,0.4036378,0.00008028121,0.00009726479,0.00007215248,0.0008433904,0.002515527,0.5261922,0.04401107,0.01629075,0.0009562094],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8433363,0.0004624729,0.1557777,0.0000343594,0.00009870197,0.000173681,0.00004731898,0.000004478278,0.00006493505],"genre_scores_gemma":[0.9839553,0.0001376123,0.01539516,0.00003797946,0.00009751978,0.00001451055,0.000273764,0.000009945796,0.00007823224],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4622775,"threshold_uncertainty_score":0.3220792,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00843230345218716,"score_gpt":0.2820041965576759,"score_spread":0.2735718931054887,"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."}}