It is now well understood that epigenetic alterations occur frequently in sporadic breast carcinogenesis, but little is known about the epigenetic alterations associated with familial breast tumors. We performed genome-wide DNA methylation profiling on familial breast cancers (n=33) to identify patterns of methylation specific to the different mutation groups (BRCA1, BRCA2 and BRCAx) or intrinsic subtypes of breast cancer (basal, luminal A, luminal B, HER2 and normal-like). We used methylated DNA immunoprecipitation (meDIP) on Affymetrix human promoter chips to interrogate methylation profiles across 25,500 distinct transcripts. Overall design: MeDIP of familial breast tumor DNA ("b"=MeC antibody bound) compared to input DNA ("i" = input) for each sample