{"id":"W1993629674","doi":"10.1371/journal.pgen.1001279","title":"Global Analysis of the Impact of Environmental Perturbation on cis-Regulation of Gene Expression","year":2011,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":84,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; McGill University and Génome Québec Innovation Centre","funders":"National Center for Research Resources; National Institutes of Health; Uppsala Universitet; Georgia Clinical and Translational Science Alliance; Canadian Institutes of Health Research; Genome Canada; National Heart, Lung, and Blood Institute; McGill University; Brigham and Women's Hospital","keywords":"Biology; Expression quantitative trait loci; Genetics; Gene expression profiling; Transcriptome; Single-nucleotide polymorphism; Gene; SNP; Quantitative trait locus; Genome-wide association study; Gene expression; Genotyping; Regulation of gene expression; Computational biology; 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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00003851459,0.00008590693,0.0001381523,0.00002647869,0.00001760533,0.000001423559,0.0001524824,0.00008594822,0.00004088777],"category_scores_gemma":[0.000008360668,0.00006244817,0.0002062161,0.0001133549,0.00006217342,0.000001014529,0.00005964861,0.00001775138,2.725943e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002034442,"about_ca_system_score_gemma":0.00002547068,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000006925021,"about_ca_topic_score_gemma":0.000005663524,"domain_scores_codex":[0.9994057,0.00003260846,0.0002297094,0.0001274284,0.0001311996,0.00007337418],"domain_scores_gemma":[0.9993123,0.000003887956,0.0002538633,0.0003754534,0.00003185261,0.00002263814],"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":[0.00004414303,0.0002255959,0.09837255,0.00000582716,0.0003158657,2.339204e-8,0.0001033079,0.01132271,0.8894104,0.00001184661,0.000007453183,0.0001803247],"study_design_scores_gemma":[0.00009328476,0.000201996,0.4050102,0.000003962832,0.0001622729,2.226964e-7,0.00001633863,0.009948974,0.5844583,0.00006609274,7.077571e-7,0.000037681],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9987671,0.0001549718,0.000378783,0.000001366025,0.0000202362,0.00009458292,0.0002601167,9.761497e-7,0.000321844],"genre_scores_gemma":[0.9988286,0.00005020348,0.0009753734,0.000004063281,0.0000134468,0.000001682077,0.0001018401,0.000006959173,0.00001780964],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3066376,"threshold_uncertainty_score":0.2546563,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009778167621194789,"score_gpt":0.2136867805235613,"score_spread":0.2039086129023665,"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."}}