{"id":"W4417194663","doi":"10.1186/s13059-025-03864-4","title":"RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood","year":2025,"lang":"en","type":"article","venue":"Genome biology","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia; Hospital for Sick Children; University of Manitoba; University of Alberta; Michael Smith Health Research BC; BC Children's Hospital","funders":"National Institute on Minority Health and Health Disparities; Canadian Institutes of Health Research; University of British Columbia; Mitacs; BC Children's Hospital","keywords":"DNA methylation; Context (archaeology); Human genetics; Cord blood; Epigenetics; Methylation; DNA; Microarray; Genomics","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007225627,0.0001544277,0.0002149336,0.0001149584,0.00008706898,0.0000211682,0.0001263207,0.000207286,0.00002809689],"category_scores_gemma":[0.0008381224,0.0001557271,0.00004341166,0.0001291855,0.00009559446,0.000003800375,0.0003042773,0.000127525,0.000005295584],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005481877,"about_ca_system_score_gemma":0.00006010927,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003846014,"about_ca_topic_score_gemma":0.00004811173,"domain_scores_codex":[0.9985443,0.0003415166,0.0002860749,0.0005168185,0.00004180434,0.0002695257],"domain_scores_gemma":[0.9993552,0.0001658198,0.00007604919,0.000245527,0.00007965365,0.00007774094],"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":[0.00009963715,0.0001049584,0.01379018,0.000005131767,0.0001275664,0.000001144234,0.0001282363,0.00002889668,0.9731396,0.0003740881,0.000007425672,0.0121931],"study_design_scores_gemma":[0.001140919,0.0009962884,0.2511745,0.00001267974,0.00008892333,0.000002746144,0.0002741217,0.0000203947,0.7153749,0.003552119,0.02701162,0.0003507737],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9792618,0.001115303,0.01816479,0.0002558269,0.0001644285,0.0004106612,0.0003605779,0.000009253695,0.0002574042],"genre_scores_gemma":[0.997452,0.0003683397,0.001326116,0.0002097199,0.00009695134,0.0001080149,0.0003695158,0.00001031219,0.00005908163],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2577647,"threshold_uncertainty_score":0.6350368,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007490654934524557,"score_gpt":0.2938473149812146,"score_spread":0.28635666004669,"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."}}