{"id":"W3135981208","doi":"10.1038/s41467-021-21867-0","title":"CRISPRi screens reveal a DNA methylation-mediated 3D genome dependent causal mechanism in prostate cancer","year":2021,"lang":"en","type":"article","venue":"Nature Communications","topic":"Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities","field":"Biochemistry, Genetics and Molecular Biology","cited_by":65,"is_retracted":false,"has_abstract":true,"ca_institutions":"Vancouver General Hospital; University of British Columbia; Vector Institute; Ontario Institute for Cancer Research; University Health Network; University of Toronto; Princess Margaret Cancer Centre","funders":"National Institute of General Medical Sciences; Canadian Institutes of Health Research; Terry Fox Research Institute; Fudan University; National Natural Science Foundation of China; National Institute of Diabetes and Digestive and Kidney Diseases; Prostate Cancer Canada; National Cancer Institute; National Institutes of Health; Jane ja Aatos Erkon Säätiö; Ontario Institute for Cancer Research; Natural Sciences and Engineering Research Council of Canada; Princess Margaret Cancer Foundation","keywords":"CTCF; DNA methylation; Biology; Epigenetics; Genetics; Single-nucleotide polymorphism; Carcinogenesis; Computational biology; Locus (genetics); Epigenomics; Enhancer; Transcription factor; Gene; Gene expression","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":[0.0001884246,0.0001376737,0.0001578503,0.00004729436,0.000144743,0.00003402988,0.0004435551,0.0002791539,0.00009800267],"category_scores_gemma":[0.0002183778,0.0001385576,0.00006763306,0.0001895608,0.00008394825,0.000007761333,0.0003667457,0.0004511253,0.00001452977],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000301519,"about_ca_system_score_gemma":0.0002039259,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003804805,"about_ca_topic_score_gemma":0.003126205,"domain_scores_codex":[0.9988396,0.0001786271,0.0003271911,0.0002859138,0.0001626619,0.0002060563],"domain_scores_gemma":[0.9986204,0.0000669533,0.00009748514,0.0008374172,0.0002916247,0.00008612828],"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":[0.000106618,0.0008995052,0.01146467,0.00006090276,0.0002494586,0.00005902952,0.0007537556,0.0001290938,0.9684401,0.0103262,0.001353617,0.00615711],"study_design_scores_gemma":[0.005422792,0.0005962492,0.243911,0.000186183,0.0002323296,0.0001633328,0.004425319,0.0009417814,0.3991001,0.005426054,0.3375878,0.002007097],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9651268,0.01987452,0.0001741815,0.00870729,0.0002303541,0.0003781374,0.0003231525,0.00003755293,0.005148059],"genre_scores_gemma":[0.9874297,0.005060776,0.002514237,0.001445433,0.00007950883,0.00008728643,0.0009403698,0.00001703316,0.002425694],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.56934,"threshold_uncertainty_score":0.5650215,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01565187867080554,"score_gpt":0.3076724072654244,"score_spread":0.2920205285946189,"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."}}