fully methylated. In silico identified CpG islands were defined by genomic regions of at least 700bp length, an CpG observed vs. expected ratio of greater than 0.6 and a GC content greater or equal than 0.5. For the SNP analysis, we obtained the CEPH SNP set from USCS. GWAS SNPs were retrieved from the GWAS catalog, while most of the GWAS SNP grouping was taken from Maurano et al.24. For TFBS analysis, we retrieved peak files from the ENCODE projects and collapsed replicates. Motif analysis was carried out using FIMO.
