{"id":"W2111801210","doi":"10.1016/j.stem.2011.04.004","title":"DNA Methylation and SETDB1/H3K9me3 Regulate Predominantly Distinct Sets of Genes, Retroelements, and Chimeric Transcripts in mESCs","year":2011,"lang":"en","type":"article","venue":"Cell stem cell","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":548,"is_retracted":false,"has_abstract":false,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; BC Cancer Agency; University of British Columbia","funders":"Canadian Institutes of Health Research","keywords":"Biology; Methyltransferase; DNA methylation; Gene; Genetics; DNMT3B; Retrotransposon; Epigenetics; Methylation; Heterochromatin protein 1; Histone methylation; Molecular biology; Transposable element; Heterochromatin; Gene expression; Chromatin; Genome","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":[0.0002856834,0.0001655896,0.0001982683,0.00006116727,0.00004074899,0.00001000599,0.00008222507,0.0001428525,0.000009832455],"category_scores_gemma":[0.000003736051,0.0001618355,0.00004029349,0.00009052225,0.00006654325,0.000006988756,0.00005401157,0.00005576908,7.383252e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008474159,"about_ca_system_score_gemma":0.00002276313,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005524806,"about_ca_topic_score_gemma":0.00004963746,"domain_scores_codex":[0.9989133,0.0001043636,0.0003344265,0.0003548625,0.0001017332,0.0001913078],"domain_scores_gemma":[0.9994757,0.00001070367,0.0001629421,0.0002350492,0.00004244498,0.00007317038],"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":[0.00008594315,0.00007298145,0.03220096,0.0001397885,0.00001172621,0.000001766552,0.0004826923,0.000006342097,0.9541757,0.000007321001,0.00001311593,0.01280166],"study_design_scores_gemma":[0.0008091801,0.0002912324,0.1054544,0.00001363987,0.00003522254,9.66017e-7,0.00007437237,0.0001316964,0.8913858,0.00008436608,0.001557872,0.0001613075],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9832014,0.0130519,0.0006482035,0.000005735806,0.00007279183,0.000268707,0.00002311099,0.000004651118,0.002723476],"genre_scores_gemma":[0.9963685,0.002185787,0.0009021504,0.000007243206,0.00001949693,0.000009479212,0.00007231349,0.00002229087,0.0004127967],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0732534,"threshold_uncertainty_score":0.6599461,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01582783042181004,"score_gpt":0.215271324043931,"score_spread":0.199443493622121,"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."}}