{"id":"W2979623390","doi":"10.1186/s13059-019-1818-9","title":"Global impact of somatic structural variation on the DNA methylome of human cancers","year":2019,"lang":"en","type":"article","venue":"Genome biology","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":70,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Lethbridge","funders":"National Cancer Institute; National Human Genome Research Institute; National Institutes of Health","keywords":"Biology; DNA methylation; Genetics; Epigenetics; Methylation; CpG site; Gene; Epigenomics; Methyltransferase; Copy-number variation; Genome; 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":[0.0001954475,0.0001022766,0.0001713807,0.00002843754,0.0000296668,0.000003176562,0.0001662438,0.000126277,0.0001030895],"category_scores_gemma":[0.00003887698,0.00006688204,0.0001137708,0.00008562463,0.0000668135,0.000001310419,0.00004757458,0.00003299227,0.000004292815],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005221611,"about_ca_system_score_gemma":0.00008430308,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002843251,"about_ca_topic_score_gemma":0.00003209713,"domain_scores_codex":[0.9992725,0.0001156532,0.0002347063,0.0001767041,0.00005790496,0.0001425778],"domain_scores_gemma":[0.9993547,0.0000235056,0.0002130298,0.0003147868,0.00006900494,0.00002497285],"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":[0.00003142215,0.000007235947,0.03588108,0.000009537969,0.00008872904,3.365232e-8,0.00004896597,0.0007981114,0.9613968,0.001471079,0.000002978943,0.0002640234],"study_design_scores_gemma":[0.0003983098,0.001947065,0.780131,0.000005131892,0.00002150352,6.966245e-7,0.00002795571,0.00009114819,0.2118918,0.005233004,0.0001256725,0.0001266623],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9980918,0.0004728836,0.0001635458,0.00002242644,0.0001160519,0.0001939037,0.00009256198,0.000002489811,0.0008443777],"genre_scores_gemma":[0.9996207,0.00003263053,0.00008675165,0.00001939234,0.00006819921,0.000004461511,0.0001290158,0.000006452934,0.00003233609],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.749505,"threshold_uncertainty_score":0.2727371,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01148547559269623,"score_gpt":0.302772444721614,"score_spread":0.2912869691289178,"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."}}