{"id":"W3080928337","doi":"10.1186/s13059-020-02110-3","title":"Cis and trans effects differentially contribute to the evolution of promoters and enhancers","year":2020,"lang":"en","type":"article","venue":"Genome biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":74,"is_retracted":false,"has_abstract":true,"ca_institutions":"SickKids Foundation; University of Toronto","funders":"Life Sciences Research Foundation; Ministerio de Ciencia, Innovación y Universidades; Howard Hughes Medical Institute","keywords":"Enhancer; Biology; Promoter; Genetics; Gene; Regulation of gene expression; Regulatory sequence; Trans-acting; Gene expression; Mutant","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0007158246,0.0003674568,0.0003245726,0.000475938,0.0002064491,0.000617677,0.0003619548,0.0004229271,0.001750561],"category_scores_gemma":[0.0008626029,0.0003145717,0.0003540537,0.0002722849,0.0005478042,0.0005314549,0.0007182895,0.0008465803,0.0006116576],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003167197,"about_ca_system_score_gemma":0.0002671062,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002164939,"about_ca_topic_score_gemma":0.0005408986,"domain_scores_codex":[0.9994562,0.00006971069,0.00003286885,0.0002502617,0.0001271727,0.00006380373],"domain_scores_gemma":[0.9988297,0.0004263304,0.0003148066,0.0001584207,0.0001453999,0.0001254003],"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":[0.0001430414,0.00001775113,0.01219945,0.00008223882,0.00002407031,0.0000822142,0.00007615414,0.0003765123,0.9803505,0.000787161,0.00003183117,0.005829063],"study_design_scores_gemma":[0.00003002912,0.0003899126,0.2204361,0.00008750011,0.000208234,0.002009893,0.0002497069,0.006955119,0.7576969,0.002981872,0.008897306,0.00005759972],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9684396,0.002510071,0.0253818,0.0001483302,0.00003959221,0.00002584855,0.0003605543,0.0002628091,0.002831409],"genre_scores_gemma":[0.990254,0.000563137,0.007352302,0.00009584313,0.00002371922,0.00002183488,0.0004606586,0.00007965309,0.00114885],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001750561,"threshold_uncertainty_score":0.005856216,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.003298030067420566,"score_gpt":0.1936216491295338,"score_spread":0.1903236190621132,"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."}}