{"id":"W4321791415","doi":"10.1101/gr.276986.122","title":"The aberrant epigenome of <i>DNMT3B</i> -mutated ICF1 patient iPSCs is amenable to correction, with the exception of a subset of regions with H3K4me3- and/or CTCF-based epigenetic memory","year":2023,"lang":"en","type":"article","venue":"Genome Research","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":8,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; European Regional Development Fund; Edmond de Rothschild Foundation","keywords":"Biology; H3K4me3; DNMT3B; CTCF; Epigenetics; Epigenome; DNA methylation; Genetics; CRISPR; Epigenomics; Genome instability; Differentially methylated regions; Gene; Enhancer; Promoter; DNA; Gene expression; DNA damage","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001122742,0.0003235049,0.0002689394,0.0002278644,0.0001813276,0.0003219389,0.0001928361,0.0003374772,0.001903648],"category_scores_gemma":[0.00015528,0.0001382538,0.0002475126,0.0001129431,0.0002136813,0.0001177308,0.0001897695,0.0006088716,0.0004777455],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001795857,"about_ca_system_score_gemma":0.0001799208,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008447229,"about_ca_topic_score_gemma":0.001237058,"domain_scores_codex":[0.9998645,0.00001010641,0.0000139623,0.00004903591,0.00004065259,0.00002175397],"domain_scores_gemma":[0.999889,0.00001811818,0.00003641809,0.00002677486,0.0000106574,0.00001904932],"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":[0.00001733683,0.000005298897,0.000484443,0.00001280086,0.00000660126,0.0000831032,0.00001603035,0.0001082198,0.9968469,0.00009910833,0.00002923427,0.002290821],"study_design_scores_gemma":[0.00000383479,0.00005699233,0.01011334,0.000006360431,0.00002602083,0.001644524,0.00002705098,0.0006859325,0.9843318,0.00008923023,0.003010172,0.000004590356],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9773366,0.0007209544,0.01596158,0.0001108934,0.00002883171,0.0000397462,0.001399923,0.0004149176,0.0039867],"genre_scores_gemma":[0.9930472,0.0003234954,0.003296096,0.00005058394,0.000003662549,0.00002512157,0.001104807,0.00008529584,0.002063784],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001903648,"threshold_uncertainty_score":0.006368339,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03741396271489377,"score_gpt":0.3112123898468742,"score_spread":0.2737984271319804,"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."}}