Overview of global DNA methylation across 186 amplicons in 89 unrelated individuals in the MHC. A high degree of variation in DNA methylation can be observed. (A) Extent of DNA methylation for different amplicon types in the MHC. (CGI) CpG islands, (5PRIM) 5′ regions of gene (nonCGI), (CNC) conserved noncoding sequence, (RAND) random. Y-axis: 0.0 unmethylated, 1.0 complete methylation; x-axis: position of CpG sites along the MHC. (B) Distributions of DNA methylation values for different region types showing that regions have different methylation patterns (all pairwise comparisons are significantly different). (C) Distribution of variance for methylation for region types. CGI and 5PRIM are significantly different from CNC and RAND (Kolmogorov-Smirnoff test, p < 0.02) (Supplemental Table S3).
