{"id":"W2128612482","doi":"10.1101/gr.104356.109","title":"Locus co-occupancy, nucleosome positioning, and H3K4me1 regulate the functionality of FOXA2-, HNF4A-, and PDX1-bound loci in islets and liver","year":2010,"lang":"en","type":"article","venue":"Genome Research","topic":"Pancreatic function and diabetes","field":"Medicine","cited_by":118,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; Child and Family Research Institute; Sunny Hill Health Centre for Children; University of British Columbia; BC Children's Hospital; BC Cancer Agency","funders":"National Institutes of Health; Michael Smith Health Research BC; Genome British Columbia; Canadian Institutes of Health Research; Canada's Michael Smith Genome Sciences Centre; Genome Canada","keywords":"FOXA2; Enhancer; Biology; H3K4me3; Transcription factor; Nucleosome; DNA binding site; Promoter; Histone; PDX1; Binding site; Genetics; Gene expression; Gene; Cell biology","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":[],"consensus_categories":[],"category_scores_codex":[0.0001661111,0.000166285,0.0001856733,0.0003274251,0.0001582461,0.0003697304,0.0001617901,0.0001293578,0.0006506069],"category_scores_gemma":[0.0001633098,0.0002119664,0.0001963481,0.0001585224,0.0002945468,0.0001761929,0.000382289,0.0002536783,0.0001848787],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003364684,"about_ca_system_score_gemma":0.0001475728,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001960921,"about_ca_topic_score_gemma":0.003373121,"domain_scores_codex":[0.9998895,0.000008432637,0.000005956919,0.00004642544,0.00002362178,0.00002603355],"domain_scores_gemma":[0.9998752,0.00001670678,0.0000296493,0.00001450524,0.00001406057,0.00004989084],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001312394,0.000009272158,0.008062451,0.000008761675,0.000009293822,0.00002176051,0.00004400224,0.0001361079,0.9898202,0.0001236873,0.00002727896,0.001605922],"study_design_scores_gemma":[0.00002991688,0.0001077955,0.430765,0.000005953596,0.00003332257,0.0003106137,0.0001479831,0.004739639,0.5618187,0.0003804285,0.001641456,0.00001915144],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.997135,0.000397563,0.001736918,0.00002015508,0.000003723074,0.000003008078,0.0001467149,0.00004206753,0.0005149181],"genre_scores_gemma":[0.997304,0.0001286768,0.0009559441,0.00001966326,0.000002488073,0.000007595263,0.0002660976,0.00002106981,0.001294398],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001960921,"threshold_uncertainty_score":0.003899038,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04309563251233253,"score_gpt":0.346445542826439,"score_spread":0.3033499103141064,"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."}}