{"id":"W4283026547","doi":"10.1101/gad.349489.122","title":"Transcriptional regulation and chromatin architecture maintenance are decoupled functions at the <i>Sox2</i> locus","year":2022,"lang":"en","type":"article","venue":"Genes & Development","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":51,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada Research Chairs; University of Toronto","funders":"H2020 European Research Council; Agence Nationale de la Recherche; National Human Genome Research Institute; Institute of Genetics; National Institutes of Health; Oncode Institute; Canadian Institutes of Health Research; KWF Kankerbestrijding; Canada Foundation for Innovation; Institut National de la Santé et de la Recherche Médicale; Ontario Ministry of Research and Innovation; Natural Sciences and Engineering Research Council of Canada; European Commission","keywords":"Biology; Chromatin; Locus (genetics); Genetics; Architecture; SOX2; Regulation of gene expression; Computational biology; Transcription factor; Evolutionary biology; Cell biology; Gene","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":[0.0001602212,0.0001258996,0.0000832743,0.00002237242,0.0006604873,0.00001965116,0.0001266547,0.00003962834,0.0001431721],"category_scores_gemma":[0.000005457188,0.0001035298,0.00004201433,0.00006465597,0.00005004695,0.00000143058,0.0002118617,0.00007119436,0.000005902552],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007573204,"about_ca_system_score_gemma":0.00009632161,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000004458834,"about_ca_topic_score_gemma":0.0002983375,"domain_scores_codex":[0.9991753,0.00003877473,0.0001809171,0.0002690641,0.0001569753,0.0001790384],"domain_scores_gemma":[0.9996347,0.00000711194,0.0000870302,0.0001952689,0.00003415773,0.00004174815],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00009432606,0.00005642489,0.003000178,0.00002864473,0.0001044278,0.000002736443,0.0005264521,0.01805395,0.9489126,0.0001108391,0.005702016,0.02340741],"study_design_scores_gemma":[0.000798043,0.00009334374,0.1063694,0.00001076227,0.00002618468,0.000226558,0.0006583773,0.0008632286,0.02799711,0.0003189509,0.8622543,0.0003837879],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9915159,0.002178879,0.004832829,0.0008593338,0.0001819234,0.0002008315,0.00005534092,0.00001052625,0.0001644692],"genre_scores_gemma":[0.9921899,0.0001342053,0.002297121,0.0004727843,0.00007254309,0.0001726353,0.0005530016,0.00002019867,0.004087591],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9209155,"threshold_uncertainty_score":0.5080001,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.004825319255560043,"score_gpt":0.1803223806972752,"score_spread":0.1754970614417151,"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."}}