{"id":"W4362696919","doi":"10.1016/j.xgen.2023.100294","title":"Genome graphs detect human polymorphisms in active epigenomic state during influenza infection","year":2023,"lang":"en","type":"article","venue":"Cell Genomics","topic":"HIV Research and Treatment","field":"Immunology and Microbiology","cited_by":14,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"Fonds de Recherche du Québec - Santé; Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Alliance de recherche numérique du Canada; Genome Canada; Canada Research Chairs; McGill University","keywords":"Epigenomics; Epigenome; Biology; Genetics; Epigenetics; Genome; Chromatin; Chromatin immunoprecipitation; Expression quantitative trait loci; International HapMap Project; Computational biology; Gene; Human genome; DNA methylation; Gene expression; Single-nucleotide polymorphism; Promoter; Genotype","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":[0.0001672096,0.0001601804,0.0001846005,0.0009266695,0.0001796811,0.0003613504,0.0001615441,0.0002483056,0.001381417],"category_scores_gemma":[0.001309755,0.0001350011,0.0002277211,0.0009423255,0.0001463847,0.0002990604,0.0002663046,0.0002051817,0.0001929841],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002094617,"about_ca_system_score_gemma":0.0001205305,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001900953,"about_ca_topic_score_gemma":0.002903239,"domain_scores_codex":[0.999863,0.00003052395,0.00000718254,0.00005864855,0.00002130586,0.00001934013],"domain_scores_gemma":[0.999306,0.0003507664,0.0001621872,0.00006916181,0.00006191247,0.00005008463],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00185801,0.0001190381,0.5577064,0.0004645454,0.0006427758,0.0005870736,0.0008711473,0.02444583,0.3011173,0.005246441,0.004857415,0.102084],"study_design_scores_gemma":[0.00003513438,0.0002179165,0.8763853,0.00003880407,0.0002178035,0.001050351,0.0006020341,0.07030115,0.03186698,0.009665877,0.00955265,0.00006598895],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9805188,0.0003548777,0.01250903,0.00008298009,0.00001221478,0.00001467629,0.005350087,0.0003209403,0.0008363263],"genre_scores_gemma":[0.9825027,0.0001696973,0.01069441,0.00004820747,0.0000101186,0.00002074006,0.00612317,0.0000692927,0.0003617354],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001900953,"threshold_uncertainty_score":0.004621327,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01797987208214317,"score_gpt":0.2580812433282336,"score_spread":0.2401013712460904,"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."}}