{"id":"W2911510951","doi":"10.1016/j.cell.2018.12.036","title":"The cis-Regulatory Atlas of the Mouse Immune System","year":2019,"lang":"en","type":"article","venue":"Cell","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":438,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of British Columbia; University of British Columbia Hospital","funders":"National Institute of Allergy and Infectious Diseases; National Institutes of Health","keywords":"Biology; Enhancer; Epigenome; Chromatin; Chromatin immunoprecipitation; Transcription factor; Computational biology; Genetics; Regulatory sequence; Gene; Regulation of gene expression; Transcriptome; Promoter; Gene expression; DNA methylation","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":[0.0001062786,0.00006559532,0.00006871769,0.000004157327,0.00006566643,0.00001010111,0.0003085922,0.00006375927,0.000003314208],"category_scores_gemma":[0.000003627726,0.00003797525,0.0000894941,0.00002425676,0.00004682342,4.861989e-7,0.0001397928,0.00004200361,0.00002405739],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001045543,"about_ca_system_score_gemma":0.00003523541,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000008742403,"about_ca_topic_score_gemma":0.000005496971,"domain_scores_codex":[0.9995644,0.00002588857,0.000133496,0.000105152,0.00006502871,0.0001060015],"domain_scores_gemma":[0.9992493,0.000006387314,0.00009483001,0.0006028189,0.00003201496,0.0000146165],"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":[0.000007620542,0.000009380016,0.0003491052,0.00003685315,0.00001190043,6.04321e-8,0.00002003629,0.0001388401,0.9987159,0.000336402,0.0003239863,0.0000498714],"study_design_scores_gemma":[0.0001945382,0.00004002631,0.002215815,0.000006327965,0.000007285676,0.000002256949,0.0002081547,0.0004931623,0.9837997,0.0000118651,0.01295731,0.00006354356],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9931428,0.0008685017,0.0000174152,0.0000266889,0.0002264544,0.0001316889,0.000007222829,0.000003340907,0.005575928],"genre_scores_gemma":[0.9904748,0.00004240354,0.00002789764,0.00001514818,0.00003472206,0.000003171043,0.000009708199,0.00001226593,0.009379889],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01491623,"threshold_uncertainty_score":0.1548586,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.002009430377513708,"score_gpt":0.161065721558251,"score_spread":0.1590562911807373,"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."}}