{"id":"W4407273598","doi":"10.1101/2025.02.06.636950","title":"Pan-cell type continuous chromatin state annotation of all epigenomes from the International Human Epigenome Consortium","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"","keywords":"Chromatin; Annotation; State (computer science); Computer science; Computational biology; Biology; Artificial intelligence; Genetics; Programming language; DNA","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000743481,0.0004850594,0.0005032502,0.001775677,0.000465333,0.0006889497,0.0003915207,0.0003785522,0.004262983],"category_scores_gemma":[0.0008224961,0.0002416686,0.0004753058,0.002144968,0.0001542536,0.0004668801,0.001065621,0.0006495871,0.00173673],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000243283,"about_ca_system_score_gemma":0.0005542128,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001957911,"about_ca_topic_score_gemma":0.005060615,"domain_scores_codex":[0.9996824,0.00003915409,0.00002199651,0.0001320575,0.00008786421,0.00003651738],"domain_scores_gemma":[0.9995354,0.00006799118,0.00004651672,0.0001736315,0.0001147716,0.00006169431],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.000984465,0.00007960812,0.04095753,0.0009820696,0.0003406007,0.0003754351,0.0004606262,0.004552116,0.705651,0.006026155,0.03689583,0.2026946],"study_design_scores_gemma":[0.00006693141,0.0001245901,0.1725457,0.0001115031,0.0003212178,0.0008887912,0.0002603904,0.02853181,0.4768234,0.008974831,0.3112397,0.0001112657],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.2374536,0.005075991,0.4686259,0.0006152922,0.0003048599,0.0002548267,0.2548316,0.01947649,0.01336154],"genre_scores_gemma":[0.2619742,0.00138903,0.4052666,0.0002649387,0.0000994547,0.0004004524,0.3201394,0.002365985,0.008099752],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.004262983,"threshold_uncertainty_score":0.01426113,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01340353374421882,"score_gpt":0.2445391221895546,"score_spread":0.2311355884453358,"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."}}