{"id":"W4396917703","doi":"10.1158/0008-5472.can-23-2397","title":"HiChIP-Based Epigenomic Footprinting Identifies a Promoter Variant of <i>UXS1</i> That Confers Genetic Susceptibility to Gastroesophageal Cancer","year":2024,"lang":"en","type":"article","venue":"Cancer Research","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; McGill University Health Centre","funders":"National Institute of General Medical Sciences; Fonds de Recherche du Québec - Santé; Institute of Cancer Research; National Cancer Institute; National Institutes of Health; McGill University; Génome Québec; Cancer Research Society","keywords":"Biology; Genetics; Linkage disequilibrium; Epigenomics; Computational biology; Gene; CpG site; Genome-wide association study; Genome; Cancer; Enhancer; Genetic association; DNA methylation; Single-nucleotide polymorphism; Transcription factor; Genotype; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002098329,0.000292403,0.0003252057,0.0004752887,0.0001660117,0.0002760231,0.0002423585,0.0003432553,0.002448809],"category_scores_gemma":[0.0002429464,0.0002278382,0.0005435101,0.0003079647,0.0002662805,0.0000838963,0.0003280131,0.0004275075,0.0003288102],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002399871,"about_ca_system_score_gemma":0.0001736663,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001909563,"about_ca_topic_score_gemma":0.004579693,"domain_scores_codex":[0.9997261,0.00003722811,0.00001106103,0.0001160736,0.00005067099,0.00005884949],"domain_scores_gemma":[0.999832,0.0000550327,0.00004995435,0.00002398082,0.00001182988,0.00002718891],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.000375829,0.00003122542,0.01498278,0.00007173014,0.00009687822,0.0001512613,0.00006665599,0.0003321659,0.9776096,0.0002127667,0.0003121106,0.005757075],"study_design_scores_gemma":[0.00006388844,0.0005562002,0.6055549,0.00002973435,0.0003868348,0.00180501,0.0001775383,0.008926119,0.3737078,0.0004469141,0.008295627,0.00004951424],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9849369,0.000615593,0.009805113,0.0001261453,0.00004055633,0.00002326374,0.002779265,0.0002552707,0.001417934],"genre_scores_gemma":[0.9906404,0.0002911478,0.004510587,0.0002069081,0.00001325228,0.00003778674,0.00284041,0.00005877045,0.001400858],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002448809,"threshold_uncertainty_score":0.008192062,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06031538829181084,"score_gpt":0.3878636648739068,"score_spread":0.327548276582096,"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."}}