{"id":"W4303646871","doi":"10.1093/bib/bbac439","title":"Computational methods to explore chromatin state dynamics","year":2022,"lang":"en","type":"review","venue":"Briefings in Bioinformatics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":5,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre; University Health Network","funders":"Canadian Institutes of Health Research","keywords":"Chromatin; Epigenomics; Computational biology; Histone; Enhancer; Genome; Biology; ChIA-PET; ChIP-sequencing; Histone code; DNA; Genetics; Chromatin remodeling; Nucleosome; Gene; DNA methylation; 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":[0.001244426,0.001479613,0.002636895,0.001579828,0.0005895427,0.002082265,0.002494159,0.001828285,0.007383544],"category_scores_gemma":[0.004012919,0.0008006831,0.002298906,0.00207694,0.0008694233,0.001529628,0.001490943,0.001996369,0.002162541],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008826114,"about_ca_system_score_gemma":0.002034985,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.006624399,"about_ca_topic_score_gemma":0.005526924,"domain_scores_codex":[0.9994671,0.0002139339,0.00004197466,0.000112699,0.0001207973,0.00004356763],"domain_scores_gemma":[0.9979139,0.001709695,0.00008457642,0.0000909606,0.0001484134,0.00005242512],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001179819,0.0001463713,0.003358377,0.004150198,0.0009722395,0.000343047,0.0001990915,0.6849219,0.002255197,0.1203819,0.01775523,0.1653984],"study_design_scores_gemma":[0.00008283936,0.00004218876,0.0008313171,0.0004541909,0.0001411181,0.0001518705,0.00008429593,0.8084635,0.0009621583,0.1438118,0.04491547,0.0000591911],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"review","genre_scores_codex":[0.01194891,0.05070398,0.9096437,0.002664378,0.000834326,0.0002385612,0.004815887,0.003354399,0.01579587],"genre_scores_gemma":[0.1820065,0.08222438,0.7011603,0.002290095,0.001170161,0.003004079,0.01419983,0.002046388,0.01189814],"genre_candidate":"review","genre_consensus":null,"teacher_disagreement_score":0.007383544,"threshold_uncertainty_score":0.02470046,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04215468755397037,"score_gpt":0.3479342505241135,"score_spread":0.3057795629701431,"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."}}