Table 1. Correlation of methylation with gene expression for matched CpGs.

Matched CpGs	total	positively correlated	negatively correlated to	ratio neg/pos
Altered CpGs matched to an mRNA	5423	2026	3397	1.68
Matched hypomethylated CpGs	1938	904	1034	1.14
Matched hypermethylated CpGs	3485	1122	2363	2.11

The differentially methylated CpGs that matched to differentially expressed genes are sorted above based on the direction with which gene expression correlated with methylation. A positive correlation indicates that hypermethylation matched with upregulation or hypomethylation matched with gene repression. A negative correlation indicates that hypermethylation matched to a repressed gene or that hypomethylation matched to an unregulated gene. The last column shows the ratio of negatively to positively correlated CpGs for each subgroup in the first column.