{"id":"W3087330846","doi":"10.1101/2020.09.01.20180406","title":"Genomic and phenomic insights from an atlas of genetic effects on DNA methylation","year":2020,"lang":"en","type":"preprint","venue":"medRxiv","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":36,"is_retracted":false,"has_abstract":true,"ca_institutions":"Holland Bloorview Kids Rehabilitation Hospital; SickKids Foundation; Hospital for Sick Children; University of Toronto","funders":"Economic and Social Research Council; Medical Research Council","keywords":"dNaM; Biology; Quantitative trait locus; DNA methylation; Genetics; Genetic architecture; Evolutionary biology; 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":[0.00009699404,0.0002949696,0.0003554678,0.0000741679,0.00004279782,0.00003020157,0.0002408519,0.0003993085,0.000005934741],"category_scores_gemma":[0.00007225739,0.0002939455,0.00009954487,0.00004388829,0.0000568172,0.000002076468,0.0003395478,0.0002041817,0.000007881796],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001757287,"about_ca_system_score_gemma":0.00007390545,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00006448336,"about_ca_topic_score_gemma":0.00003857347,"domain_scores_codex":[0.9983258,0.0002464196,0.0003690552,0.000761396,0.0001555099,0.000141785],"domain_scores_gemma":[0.9988535,0.0000548012,0.0002882777,0.0006044174,0.00005882406,0.0001401548],"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":[0.00007535014,0.00002592064,0.01455951,0.00009565523,0.0000914823,0.000002757414,0.0001622636,0.0004350189,0.9789947,0.00003024585,0.000009964479,0.005517188],"study_design_scores_gemma":[0.0003114804,0.0003767424,0.3343731,0.00003375393,0.00006962136,1.488099e-7,0.000007069503,0.0005390036,0.6595088,0.003794326,0.0007619206,0.000224062],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.987729,0.00945427,0.001801114,0.00006907982,0.0003393364,0.0003789889,0.00004747343,0.00001356736,0.0001672067],"genre_scores_gemma":[0.9949077,0.00204871,0.001658873,0.00008332498,0.0006218089,0.00002501144,0.0005874867,0.00005340882,0.00001371607],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3198135,"threshold_uncertainty_score":0.9999512,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01435204682075377,"score_gpt":0.2567282282203235,"score_spread":0.2423761813995698,"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."}}