DNA hypermethylation at the sites cg47596828-EPCAM (OR = 1.84 [1.46–2.32], 95% CI, p < 0.001), cg47630224-MSH2 (OR = 4.17 [2.05–8.48], 95% CI, p < 0.001), cg23652916-PALB2 (OR = 2.83 [1.71–4.66], 95% CI, p < 0.001), and cg89786999-FANCI (OR = 1.65 [1.24–2.20], 95% CI, p = 0.001) was associated with an increased risk of BC, using the raw methylation data (Fig. 6a). This evidence concerns the gene MSH2 and breast cancer.