{"id":"W3183799180","doi":"10.1101/2021.07.16.452533","title":"DNA methylation cues in nucleosome geometry, stability, and unwrapping","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University","funders":"National Institutes of Health; U.S. National Library of Medicine; Natural Sciences and Engineering Research Council of Canada; Queen's University; Compute Canada","keywords":"Nucleosome; Linker DNA; Histone octamer; Chromatosome; DNA methylation; Histone; Biophysics; DNA; Histone methylation; Epigenetics; Cytosine; Biology; Chemistry; Genetics; Gene","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":[0.0001163652,0.0001638523,0.0001508715,0.0001098981,0.0001765883,0.0002288267,0.0002254135,0.0002098373,0.0009867733],"category_scores_gemma":[0.000381595,0.0001770626,0.000176506,0.0001060965,0.0002434242,0.0002321733,0.0002311842,0.0002895788,0.0001022305],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003476198,"about_ca_system_score_gemma":0.0002395132,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001889339,"about_ca_topic_score_gemma":0.001915029,"domain_scores_codex":[0.9999546,0.000008020094,0.00000214163,0.00001133496,0.00001460084,0.000009360395],"domain_scores_gemma":[0.9999261,0.00002568139,0.00001350582,0.000008822341,0.0000117308,0.00001425853],"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":[0.0002183566,0.00006933092,0.006769759,0.00008871467,0.00006664755,0.0001521749,0.000118439,0.1991376,0.7850652,0.003260436,0.0001896681,0.004863704],"study_design_scores_gemma":[0.00005307662,0.0002711914,0.01546601,0.0000170012,0.00004517245,0.00009518932,0.0001014045,0.7702524,0.2094529,0.002766992,0.001439215,0.00003937269],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9949156,0.0001366787,0.004277376,0.00003208738,0.00000941196,0.000004645606,0.00008487139,0.00003592481,0.000503498],"genre_scores_gemma":[0.9983011,0.00007240642,0.001412486,0.000006322453,0.00000145449,0.000004286378,0.0000668569,0.00001353597,0.0001216803],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001889339,"threshold_uncertainty_score":0.003756702,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01675387275686698,"score_gpt":0.2366396512268412,"score_spread":0.2198857784699742,"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."}}