Table 2. Correlation of methylation with gene expression based on gene context.

Matched CpGs by Gene Context	total	positively correlated	negatively correlated	ratio neg/pos	p-value
TSS1500	690	275	415	1.51	0.15418
TSS200	171	57	114	2.00	0.29707
5′UTR	726	259	467	1.80	0.28532
1stExon	149	22	127	5.77	<0.00001
Body	3327	1256	2071	1.65	0.43776
3′UTR	360	157	203	1.29	0.01584

The matched CpGs are sorted by their genomic context and then based upon the direction with which gene expression correlated with methylation. The p-value comes from a test of proportions on the Spearman rank correlation coefficient obtained for the ratios of positively and negatively correlated CpGs at each location.