{"id":"W4403533811","doi":"10.1101/gr.278418.123","title":"Chromatin interaction maps identify oncogenic targets of enhancer duplications in cancer","year":2024,"lang":"en","type":"article","venue":"Genome Research","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; McGill University Health Centre","funders":"Fonds de Recherche du Québec - Santé","keywords":"Biology; Gene duplication; Enhancer; Tandem exon duplication; Genetics; Gene; Chromatin; Enhancer RNAs; Genome; Carcinogenesis; Computational biology; Transcription factor","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00008673472,0.0001491426,0.0001661603,0.0005996496,0.0001270258,0.0001632325,0.0001405381,0.0001606575,0.001263447],"category_scores_gemma":[0.0001153063,0.0001553118,0.0001687547,0.0003870831,0.0001209101,0.00009292839,0.0002339834,0.0001818414,0.0002825842],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001804881,"about_ca_system_score_gemma":0.0001098096,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004903023,"about_ca_topic_score_gemma":0.001444302,"domain_scores_codex":[0.9999293,0.000005766588,0.000003409849,0.00002546923,0.00001972629,0.00001637756],"domain_scores_gemma":[0.9999177,0.00002509848,0.00002098093,0.00001138603,0.000008479665,0.00001627418],"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":[0.00009631418,0.00001158914,0.007172318,0.0000540016,0.00001642547,0.00008656864,0.00003123016,0.0003110003,0.9862221,0.0001756224,0.00006160199,0.005761231],"study_design_scores_gemma":[0.00001635267,0.0002306792,0.4341627,0.00001106067,0.00008221701,0.001663498,0.0001044498,0.00509877,0.5516875,0.0005553373,0.006372745,0.00001476157],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.987802,0.001735943,0.007957705,0.00003725265,0.000007884923,0.00001834041,0.0007590265,0.0001667657,0.001515206],"genre_scores_gemma":[0.9919484,0.0004339044,0.005523051,0.00003133819,0.000005275464,0.00001861449,0.001046637,0.00001477179,0.0009779125],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001263447,"threshold_uncertainty_score":0.004226625,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0405215649606188,"score_gpt":0.4122234931415885,"score_spread":0.3717019281809696,"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."}}