{"id":"W4317360541","doi":"10.1101/gr.277037.122","title":"A temporal in vivo catalog of chromatin accessibility and expression profiles in pineoblastoma reveals a prevalent role for repressor elements","year":2023,"lang":"en","type":"article","venue":"Genome Research","topic":"Glioma Diagnosis and Treatment","field":"Medicine","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; University Health Network","funders":"Conseil National de la Recherche Scientifique; American University of Beirut","keywords":"Biology; Chromatin; Enhancer; Epigenetics; Genetics; SMARCA4; Regulation of gene expression; Epigenomics; Histone; Repressor; Gene; Gene expression; Transcriptome; H3K4me3; Computational biology; DNA methylation; Chromatin remodeling; Promoter","routes":{"ca_aff":true,"ca_fund":false,"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":[0.002280847,0.0001135425,0.000363235,0.0006002419,0.00005180622,0.00001763057,0.0001229485,0.00007670528,0.00006964091],"category_scores_gemma":[0.0005124786,0.00008916585,0.00004734012,0.0006952868,0.00007819098,0.00007308664,0.0002671568,0.0001396561,0.000008086348],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001547545,"about_ca_system_score_gemma":0.0001032167,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003024774,"about_ca_topic_score_gemma":0.0001331685,"domain_scores_codex":[0.9979001,0.0001919606,0.0005090242,0.0004595774,0.0004802202,0.0004590891],"domain_scores_gemma":[0.9989847,0.000271632,0.00008380917,0.0004166375,0.0001296941,0.0001135303],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0003718665,0.0006196244,0.505421,0.001220879,0.00001748938,0.00005151662,0.0008238355,0.000003601775,0.4895952,0.000007401646,0.0003783432,0.001489194],"study_design_scores_gemma":[0.003244578,0.0006027501,0.843448,0.0007029843,0.000007607192,0.000003882814,0.0004671967,0.0003756977,0.1502593,0.0006241121,0.0001921298,0.00007177703],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9952971,0.0008984977,0.000001154288,0.0003693151,0.00001034534,0.003135249,0.0001402169,0.00001857114,0.0001295096],"genre_scores_gemma":[0.9968816,0.0001694279,0.0007520744,0.000005168993,0.00002629609,0.001855222,0.00008424639,0.00001735062,0.0002086328],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3393359,"threshold_uncertainty_score":0.3636078,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07852422058579607,"score_gpt":0.4118145150808463,"score_spread":0.3332902944950502,"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."}}