{"id":"W3124083892","doi":"10.1038/s41467-020-20830-9","title":"Large organized chromatin lysine domains help distinguish primitive from differentiated cell populations","year":2021,"lang":"en","type":"article","venue":"Nature Communications","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre; Ontario Institute for Cancer Research; University of Toronto","funders":"Terry Fox Research Institute; Ontario Institute for Cancer Research; Princess Margaret Cancer Foundation; Government of Ontario; Canadian Cancer Society Research Institute; Canadian Institutes of Health Research; Cancer Research Society","keywords":"Chromatin; Biology; CTCF; Bivalent chromatin; ChIA-PET; Genome; Polycomb-group proteins; Histone; H3K4me3; Genetics; Enhancer; Locus control region; Gene; Bivalent (engine); Computational biology; Cell biology; Histone H1; Promoter; Chromatin remodeling; Transcription factor; Gene expression; Repressor; Chemistry","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":[0.0001115783,0.0001371391,0.0001540402,0.0005769438,0.0001598083,0.000466387,0.0001580355,0.0002719549,0.001335186],"category_scores_gemma":[0.0002475105,0.0001271155,0.0001221448,0.0002931234,0.0003361187,0.0003350734,0.0003820879,0.0002740988,0.0003374453],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001615612,"about_ca_system_score_gemma":0.00009035652,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003892633,"about_ca_topic_score_gemma":0.0009777346,"domain_scores_codex":[0.9999298,0.000006320575,0.000005463422,0.00002926662,0.00001544193,0.00001365459],"domain_scores_gemma":[0.9997168,0.00007072832,0.00008711728,0.00002963708,0.0000229766,0.00007272767],"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":[0.0002998843,0.00001261192,0.04301797,0.00008725608,0.00002288528,0.00009023871,0.0001457775,0.0001199067,0.9452493,0.0004668511,0.0000788117,0.01040856],"study_design_scores_gemma":[0.00002034818,0.0002746541,0.7328384,0.00001989937,0.00004852013,0.001186043,0.0003253641,0.001058088,0.25893,0.001294768,0.003981459,0.00002247539],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9899113,0.001436913,0.006543078,0.00005979554,0.000009158914,0.00001309769,0.0006684497,0.00006250403,0.001295753],"genre_scores_gemma":[0.9957294,0.0003467375,0.002879392,0.00004835343,0.000006483385,0.000005883327,0.0004831402,0.000009997717,0.0004906197],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001335186,"threshold_uncertainty_score":0.004466593,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01007328083944647,"score_gpt":0.2615564493156124,"score_spread":0.251483168476166,"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."}}