{"id":"W3202981271","doi":"10.1101/2021.09.29.462206","title":"Genome graphs detect human polymorphisms in active epigenomic state during influenza infection","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"interferon and immune responses","field":"Immunology and Microbiology","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill Genome Centre; Ontario Genomics; McGill University","funders":"Canadian Institutes of Health Research; Compute Canada; Genome Canada; McGill University","keywords":"Epigenomics; Biology; Epigenome; Genome; Epigenetics; Genetics; Computational biology; Chromatin; Gene; Evolutionary biology; DNA methylation; 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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004758885,0.0007725043,0.0009465429,0.001080866,0.0003661177,0.0001577099,0.0005193957,0.001002868,0.0004777664],"category_scores_gemma":[0.0001443542,0.0008964502,0.0003350048,0.0005171898,0.0002691653,0.0002407946,0.0008165837,0.001980323,0.0002478199],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008208403,"about_ca_system_score_gemma":0.0005471227,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001058024,"about_ca_topic_score_gemma":0.00009218821,"domain_scores_codex":[0.9960762,0.0007679734,0.0009126163,0.001186548,0.00008941091,0.0009672845],"domain_scores_gemma":[0.9978176,0.00007022993,0.0005520373,0.001202232,0.0002782186,0.00007967199],"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":[0.0003962251,0.0001593795,0.008116812,0.0001404722,0.0004946447,0.00009657866,0.0001130806,0.00006205167,0.9903841,0.00002909516,0.000003992092,0.000003579163],"study_design_scores_gemma":[0.0007921706,0.00006796285,0.4670569,0.0002127748,0.00004261198,1.541295e-7,0.000005084382,5.599961e-7,0.5308321,0.000001469024,0.0004923525,0.0004958826],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.989467,0.007712642,0.00005076488,0.00001900281,0.001552686,0.0007148081,0.000157577,0.0003156936,0.000009878685],"genre_scores_gemma":[0.9986888,0.0006522041,0.00005646465,0.0001249463,0.00005967305,0.0002287855,0.000002957495,0.0001497882,0.00003636755],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.459552,"threshold_uncertainty_score":0.9993486,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01255597445468504,"score_gpt":0.2291401547072234,"score_spread":0.2165841802525384,"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."}}