Confirmation of ASM in a subset of candidate cis-regulated ASM variants.

Results from microarray and next-generation bisulfite sequencing ASM assays of ten variant-containing regions. The table shows the CpG position, whether it is found within an MSRE site and the Bonferroni adjusted chi-square based p-values of the association of methylation at this CpG with either the reference of alternate alleles. The allele with the highest number percentage of methylated reads was designated the most frequently methylated allele (REF = reference, ALT = alternate) and compared to that from the microarray data; for all CpGs that were within MSRE sites and showed significant association of methylation with an allele in the sequencing assay the methylated allele matched that of the microarray assay. For more details, see Table S3.