{"id":"W2152406028","doi":"10.1038/ng.2416","title":"Breast cancer risk–associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression","year":2012,"lang":"en","type":"article","venue":"Nature Genetics","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":377,"is_retracted":false,"has_abstract":false,"ca_institutions":"Princess Margaret Cancer Centre; University of Toronto; University Health Network","funders":"U.S. National Library of Medicine; National Institute of Diabetes and Digestive and Kidney Diseases; National Cancer Institute","keywords":"Single-nucleotide polymorphism; Biology; FOXA1; Genome-wide association study; Epigenomics; Genetics; Breast cancer; Locus (genetics); Chromatin; Epigenome; Imputation (statistics); SNP; 1000 Genomes Project; Gene; Genotype; Cancer; DNA methylation; Gene expression","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0003538405,0.0002235939,0.0002496445,0.0004018557,0.000181809,0.0002602261,0.0002552711,0.0003671241,0.003575502],"category_scores_gemma":[0.0006258324,0.00029032,0.0002709068,0.0002900242,0.0002544287,0.0001347764,0.000246131,0.0003778954,0.0003654797],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002368958,"about_ca_system_score_gemma":0.0001108067,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001821943,"about_ca_topic_score_gemma":0.003330929,"domain_scores_codex":[0.9997436,0.00006488069,0.00001436045,0.00007709389,0.00004996269,0.00005016456],"domain_scores_gemma":[0.9996172,0.0001572372,0.0001076042,0.00004894904,0.00002355458,0.0000453696],"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":[0.001185404,0.00006892447,0.08643597,0.0000596495,0.0003330925,0.0002116017,0.0001436685,0.0005134959,0.9026594,0.001141186,0.0003792206,0.00686838],"study_design_scores_gemma":[0.0001005969,0.0002682106,0.7967306,0.00002087181,0.0003027812,0.0009869691,0.0001384954,0.004158431,0.1926412,0.001417979,0.003204738,0.0000290943],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.996452,0.0005537916,0.001609827,0.000180557,0.00002611321,0.000004256694,0.0002836979,0.00004949641,0.0008402028],"genre_scores_gemma":[0.9986828,0.00009713724,0.0004610526,0.00006059893,0.000007661529,0.000004585033,0.00009179821,0.00001644515,0.0005778738],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003575502,"threshold_uncertainty_score":0.01196128,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008287996979253618,"score_gpt":0.2735177124095517,"score_spread":0.2652297154302981,"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."}}