{"id":"W2951648000","doi":"10.1093/molbev/msz098","title":"Transposable Elements Are Important Contributors to Standing Variation in Gene Expression in Capsella Grandiflora","year":2019,"lang":"en","type":"article","venue":"Molecular Biology and Evolution","topic":"Chromosomal and Genetic Variations","field":"Agricultural and Biological Sciences","cited_by":57,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; National Science Foundation","keywords":"Biology; Genetics; Expression quantitative trait loci; Single-nucleotide polymorphism; Gene; Genome; Population; Transposable element; Quantitative trait locus; Enhancer; Gene expression; Regulation of gene expression; 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":[0.0002260301,0.00008247854,0.0001294894,0.00003298775,0.00005659793,0.000009796436,0.00005322352,0.0001149566,0.0000560951],"category_scores_gemma":[0.00002086232,0.0000411732,0.00002327682,0.0002399018,0.00001031752,0.00003625773,0.00002051683,0.00005974492,0.000008116313],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005314597,"about_ca_system_score_gemma":0.000006151351,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001989818,"about_ca_topic_score_gemma":0.001093318,"domain_scores_codex":[0.9991934,0.00008720141,0.0002175642,0.0002452935,0.00005565857,0.000200863],"domain_scores_gemma":[0.9998217,0.00002369173,0.00005712555,0.0000343791,0.00001937466,0.00004370516],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00002859949,0.00002248222,0.4243782,0.000001617839,0.000001826884,0.000001699786,0.00004685034,0.00006325152,0.5749891,0.0003512139,0.000001357891,0.0001137796],"study_design_scores_gemma":[0.0005711202,0.0001910861,0.9735844,0.00003474781,0.000004606193,0.000002074777,0.00007527592,0.0006343026,0.01997986,0.004586586,0.0002101004,0.0001258534],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983688,0.0002494757,0.0005315987,0.0003545576,0.0000938867,0.0003100798,0.0000481418,0.00001028768,0.00003319199],"genre_scores_gemma":[0.99953,0.00003680402,0.0002159535,0.00006483527,0.00002173379,0.00002001317,0.00009711446,6.336309e-7,0.00001295067],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5550092,"threshold_uncertainty_score":0.1678995,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005775333734877377,"score_gpt":0.2159982787100479,"score_spread":0.2102229449751706,"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."}}