Genome-wide association studies (GWAS) have identified approximately 100 breast 
cancer risk loci. Translating these findings into a greater understanding of the 
mechanisms that influence disease risk requires identification of the genes or 
non-coding RNAs that mediate these associations. Here, we use Capture Hi-C 
(CHi-C) to annotate 63 loci; we identify 110 putative target genes at 33 loci. 
To assess the support for these target genes in other data sources we test for 
associations between levels of expression and SNP genotype (eQTLs), 
disease-specific survival (DSS), and compare them with somatically mutated 
cancer genes. 22 putative target genes are eQTLs, 32 are associated with DSS and 
14 are somatically mutated in breast, or other, cancers. Identifying the target 
genes at GWAS risk loci will lead to a greater understanding of the mechanisms 
that influence breast cancer risk and prognosis.