{"id":"W2467728588","doi":"10.1093/bioinformatics/btw382","title":"ChAsE: chromatin analysis and exploration tool","year":2016,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":47,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Cancer Agency; Canada's Michael Smith Genome Sciences Centre; Simon Fraser University; University of British Columbia","funders":"Canadian Institutes of Health Research","keywords":"Chromatin; Computer science; Computational biology; Biology; Genetics; DNA","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":[0.0001128877,0.0001003289,0.0001078834,0.00006492795,0.00005529549,0.00003396563,0.00008236532,0.00007983921,0.00001843058],"category_scores_gemma":[0.00004141847,0.00007024739,0.00005762242,0.0001094878,0.00004239416,0.00001301693,0.00007435301,0.00001739838,0.00002183905],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001030268,"about_ca_system_score_gemma":0.00002249874,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000002119003,"about_ca_topic_score_gemma":0.00001929861,"domain_scores_codex":[0.9994365,0.000009707068,0.0002358606,0.0001046169,0.00008035253,0.0001329642],"domain_scores_gemma":[0.9995496,0.000007910967,0.000103213,0.0002525848,0.00004021656,0.00004652924],"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":[0.0000780824,0.0001262008,0.02125483,0.0001941827,0.001601052,0.000002808595,0.00102549,0.0001863132,0.7212062,0.00317907,0.004390471,0.2467553],"study_design_scores_gemma":[0.008712562,0.002309222,0.1422221,0.0001951831,0.002233688,0.0001226327,0.002012579,0.2679831,0.4622966,0.004654784,0.1031863,0.004071199],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8629081,0.00006693907,0.1359191,0.0001713115,0.00004346133,0.0001004619,0.00004573467,0.00001403243,0.000730889],"genre_scores_gemma":[0.9830996,0.0003316007,0.01571574,0.000111943,0.00006151866,0.00001193078,0.0001278285,0.000009617965,0.000530173],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2677968,"threshold_uncertainty_score":0.2864605,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007374422358469707,"score_gpt":0.2143001800496196,"score_spread":0.2069257576911499,"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."}}