{"id":"W2211682249","doi":"10.1186/s13059-015-0856-1","title":"Population whole-genome bisulfite sequencing across two tissues highlights the environment as the principal source of human methylome variation","year":2015,"lang":"en","type":"article","venue":"Genome biology","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":107,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill Genome Centre; McGill University and Génome Québec Innovation Centre; McGill University","funders":"Division of Mathematical Sciences; Seventh Framework Programme; Fonds de Recherche du Québec - Santé; NIHR Biomedical Research Centre, Royal Marsden NHS Foundation Trust/Institute of Cancer Research; National Institutes of Health; King's College London; Université de Genève; University of Oxford; National Institute for Health and Care Research; McGill University; Génome Québec; Canadian Institutes of Health Research; Wellcome; Queen Mary University of London; Wellcome Trust","keywords":"Biology; DNA methylation; Genetics; CpG site; Epigenetics; Bisulfite sequencing; Methylation; Genetic variation; Population; Enhancer; Gene; 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":[0.0005591441,0.0001980206,0.0002817664,0.0003786105,0.0002794631,0.0004355477,0.0003057063,0.0003247781,0.0009859829],"category_scores_gemma":[0.0008595003,0.000135929,0.0002984272,0.000421877,0.0002496621,0.0001579174,0.0004807019,0.0004525779,0.0002219674],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000261422,"about_ca_system_score_gemma":0.0004197131,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002497154,"about_ca_topic_score_gemma":0.005617596,"domain_scores_codex":[0.9997098,0.0000692031,0.00001310876,0.0001317674,0.00005702979,0.00001907197],"domain_scores_gemma":[0.9996836,0.0001109465,0.00006244981,0.00007089155,0.00004885253,0.00002319992],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0004854223,0.0000651399,0.1026363,0.0002882166,0.0004113599,0.0002135393,0.0004837837,0.003356858,0.8261546,0.00254968,0.0005915253,0.06276353],"study_design_scores_gemma":[0.00004102813,0.0005784007,0.6394076,0.00008818792,0.0005782724,0.001734757,0.0002203167,0.02076158,0.3063809,0.007106875,0.02304069,0.00006145961],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8795003,0.001588856,0.1141115,0.0002588572,0.00002598588,0.0000620826,0.002300289,0.0002823783,0.001869658],"genre_scores_gemma":[0.9506978,0.0005794619,0.04560432,0.0001777237,0.00001519484,0.00006416052,0.001700648,0.00007426742,0.001086314],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002497154,"threshold_uncertainty_score":0.004965186,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03126932285189862,"score_gpt":0.3071811783947347,"score_spread":0.2759118555428361,"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."}}