Selected 450K microarray findings were replicated using pyrosequencing in an independent cohort (240 established IBD cases, 98 controls, Supplementary Table 12) with the same direction of methylation change for the most significant DMP (RPS6KA2, IBD versus controls P=1 × 10−9, Wilcoxon Rank Sum,) and DMRs (VMP1 P=1 × 10−6, IGTB2 P=2 × 10−7 and TXK P=4 × 10−10, Wilcoxon Rank Sum, Supplementary Fig. 9A). This evidence concerns the gene TXK and inflammatory bowel disease.