{"id":"W2060012727","doi":"10.1371/journal.pone.0009129","title":"High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences","year":2010,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":176,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Canadian Institutes of Health Research; Genome Canada; Ontario Genomics; Ontario Genomics Institute; Canadian Institute for Advanced Research; Howard Hughes Medical Institute","keywords":"Nucleosome; Chromatin; Enhancer; Promoter; Occupancy; Biology; Histone; Linker DNA; Chromatosome; Regulatory sequence; Genetics; Transcription factor; DNA; Computational biology; Gene; Gene expression","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":[0.0001821087,0.0001840757,0.0002279414,0.000253745,0.0002420939,0.0003068012,0.0001161434,0.0002037799,0.00223526],"category_scores_gemma":[0.0004747128,0.0001364285,0.0001246926,0.0002615644,0.0002424759,0.0001105946,0.000196089,0.0001493716,0.0006566262],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001926547,"about_ca_system_score_gemma":0.0002394007,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009270607,"about_ca_topic_score_gemma":0.002030612,"domain_scores_codex":[0.9997873,0.00002814199,0.00001099828,0.00009432829,0.00005016546,0.00002918982],"domain_scores_gemma":[0.9997311,0.00008751666,0.00006006121,0.00003116743,0.00004184552,0.00004823367],"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":[0.0002051272,0.00001842706,0.02390984,0.0001147921,0.00003882966,0.0001846516,0.00007545683,0.0001643218,0.9594904,0.0008652906,0.0002483815,0.0146845],"study_design_scores_gemma":[0.00002301292,0.0003137971,0.198922,0.00004162693,0.00006371791,0.004145939,0.0001059558,0.001141555,0.7809609,0.001262535,0.01299435,0.00002476756],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9772638,0.003661617,0.01332195,0.00009709197,0.00002326608,0.00001519559,0.001204007,0.000248711,0.004164411],"genre_scores_gemma":[0.9946204,0.0003982281,0.003288744,0.00004650754,0.000007706097,0.000005164155,0.0007943985,0.00001157693,0.0008272483],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00223526,"threshold_uncertainty_score":0.007477701,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01422035418086564,"score_gpt":0.2137346276742,"score_spread":0.1995142734933343,"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."}}