{"id":"W3138996175","doi":"10.1101/2021.03.16.435708","title":"DNA Methylation Networks Underlying Mammalian Traits","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":30,"is_retracted":false,"has_abstract":true,"ca_institutions":"LGL (Canada); University of Manitoba; Fisheries and Oceans Canada","funders":"Paul G. Allen Frontiers Group","keywords":"Biology; Phylogenetic tree; Epigenetics; DNA methylation; Evolutionary biology; Genetics; Methylation; DNA; Computational biology; Gene; Gene expression","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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.000648128,0.0005381599,0.0004361241,0.0001352274,0.000184691,0.0003012327,0.000400775,0.001093023,0.00003272483],"category_scores_gemma":[0.0001929389,0.0006418142,0.0002574127,0.0002902567,0.00007511841,0.0000117659,0.0004656764,0.0005357106,0.000008059333],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009358273,"about_ca_system_score_gemma":0.000435783,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002179795,"about_ca_topic_score_gemma":0.00001386563,"domain_scores_codex":[0.9971399,0.0002623914,0.0005603621,0.001182033,0.0003168007,0.0005385484],"domain_scores_gemma":[0.9977979,0.00002620242,0.000404743,0.001022965,0.0004949039,0.0002532657],"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":[0.00001757926,0.00006256792,0.001441695,0.0001049164,0.0001391636,0.00001416026,0.000005395984,0.00363097,0.9944211,0.00007569538,0.00005504025,0.00003173663],"study_design_scores_gemma":[0.0004013598,0.00008225281,0.09437916,0.0001341979,0.0001211864,9.276386e-9,0.000005500829,0.001120762,0.8986714,0.000003144805,0.004231305,0.0008496531],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.913737,0.008594584,0.07592326,0.00009438529,0.001043862,0.0004422541,0.00004884493,0.00008467429,0.00003113419],"genre_scores_gemma":[0.9913178,0.001173526,0.006220946,0.000137501,0.0008754494,0.00009552986,0.00001094486,0.0001523697,0.00001590553],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09574961,"threshold_uncertainty_score":0.9996033,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02205455247013172,"score_gpt":0.2489205231996254,"score_spread":0.2268659707294937,"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."}}