{"id":"W2950199429","doi":"10.1073/pnas.1814700116","title":"Gene activation precedes DNA demethylation in response to infection in human dendritic cells","year":2019,"lang":"en","type":"article","venue":"Proceedings of the National Academy of Sciences","topic":"Immune responses and vaccinations","field":"Immunology and Microbiology","cited_by":162,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Centre Hospitalier Universitaire Sainte-Justine","funders":"Fonds de Recherche du Québec - Santé; Canadian Institutes of Health Research; Canada Research Chairs; Government of Canada","keywords":"DNA methylation; DNA demethylation; Biology; Epigenetics; Methylation; Epigenomics; Demethylation; Epigenetics of physical exercise; Enhancer; Chromatin; DNA; Regulation of gene expression; Gene expression; Gene; Promoter; Innate immune system; Transcription (linguistics); CpG site; Molecular biology; Immune system; Genetics","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":[0.001860195,0.00006583479,0.000119052,0.0005960694,0.0001039195,0.000009449564,0.0002419426,0.0001183882,0.00003944608],"category_scores_gemma":[0.0005800846,0.00005275415,0.0000364781,0.0009503015,0.00009878044,0.0003517405,0.0000690313,0.0001526892,0.000009687648],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008853724,"about_ca_system_score_gemma":0.00003169392,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005741314,"about_ca_topic_score_gemma":0.000001646099,"domain_scores_codex":[0.9991993,0.00005106496,0.0003100678,0.0001721799,0.0001371752,0.0001302263],"domain_scores_gemma":[0.9993905,0.0002605533,0.0002024765,0.000008749109,0.0001316638,0.000006062352],"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":[0.0001517377,0.00005026815,0.04006316,0.00001439158,0.000004544432,8.741176e-10,0.0002704861,0.0003732495,0.955925,0.002935485,0.00003262486,0.0001790649],"study_design_scores_gemma":[0.0002130272,0.00004981961,0.4651852,0.00004897594,0.000001425461,0.000001062662,0.0000501376,0.000023979,0.532675,0.001654643,0.00006481051,0.00003189749],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998078,0.00003815784,0.000001447097,0.0009842772,0.00003665854,0.0003196547,0.00000328493,0.000006265616,0.0005321807],"genre_scores_gemma":[0.9993818,0.000009332324,0.0001127986,0.00006097105,0.000006851805,0.00001617348,4.255356e-7,0.000002861981,0.0004087742],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.425122,"threshold_uncertainty_score":0.2151252,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02782171225302098,"score_gpt":0.3105267086597385,"score_spread":0.2827049964067175,"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."}}