{"id":"W2952255603","doi":"10.7554/elife.37513","title":"Genome-wide quantification of the effects of DNA methylation on human gene regulation","year":2018,"lang":"en","type":"article","venue":"eLife","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":147,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal","funders":"Eunice Kennedy Shriver National Institute of Child Health and Human Development; National Institute of General Medical Sciences; National Human Genome Research Institute; National Heart, Lung, and Blood Institute; Alfred P. Sloan Foundation; National Institute on Aging; National Institutes of Health; National Science Foundation","keywords":"DNA methylation; Biology; CpG site; Methylation; Chromatin; Genetics; Epigenomics; Epigenetics; Regulation of gene expression; Epigenetics of physical exercise; Gene; Regulatory sequence; Genome; Human genome; DNA; Differentially methylated regions; Computational biology; 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":[],"consensus_categories":[],"category_scores_codex":[0.0002510576,0.000075223,0.00008906364,0.00003916209,0.00007514619,0.000004522081,0.0001133517,0.00009423962,0.000006608857],"category_scores_gemma":[0.0002706643,0.0000604866,0.00006330886,0.0001054206,0.00008657442,0.000002347773,0.00003422315,0.00002971433,0.000003825967],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008935333,"about_ca_system_score_gemma":0.00002203504,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000008251475,"about_ca_topic_score_gemma":0.00001221194,"domain_scores_codex":[0.999236,0.000100147,0.0002350545,0.0001689786,0.0001816662,0.00007813844],"domain_scores_gemma":[0.9990953,0.00003108252,0.0002436893,0.0004048854,0.0002044873,0.00002057951],"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":[0.00001924894,0.00003418316,0.004815978,0.00002225825,0.00001589478,2.108077e-8,0.00005834428,0.0001107343,0.993946,0.0002282592,0.00002964709,0.0007194711],"study_design_scores_gemma":[0.0001332468,0.0002224187,0.3398836,0.000009808123,0.00001092999,5.623329e-8,0.000002689547,0.00002729619,0.6586385,0.0001837157,0.0008467819,0.00004103754],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9928885,0.0003153753,0.005766408,0.00003932838,0.0001821157,0.0002171621,0.000003773288,0.000004063497,0.0005833248],"genre_scores_gemma":[0.9991299,0.00005193701,0.0002911146,0.00003411703,0.0001966491,0.000006406673,0.0000783141,0.00001174949,0.000199801],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3353075,"threshold_uncertainty_score":0.2466572,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01793180004135048,"score_gpt":0.2847462976186833,"score_spread":0.2668144975773328,"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."}}