Table 2. Differentially methylated loci in ovarian and endometrial cancer and human cell lines.

Probe	Gene	CpG locus (hg19)	Normal	Cancer	P value
cg21790626	ZNF154	chr19:58 220 494	0.18	0.94	3.11e-08
cg16869108	VHL	chr3:10 184 319	0.82	0.46	4.76e-02
cg25391023	BTNL2	chr6:32 374 754	0.53	0.08	1.37e-04
cg13897627	FLJ44674	chr16:49 378 497	0.59	0.09	4.19e-04
cg07014174	KRTAP11–1	chr21:32 253 760	0.60	0.07	1.59e-05
cg20312687	DEFB118	chr20:29 956 585	0.70	0.07	1.38e-05
cg26799474	CASP8	chr2:202 098 951	0.89	0.16	1.63e-04

The set of genomic loci that are differentially methylated in serous vs. controls, endometrioid vs. controls and also in cancer vs. normal cell lines from ENCODE. Columns show median methylation (β values) in cell lines labeled as normal and cancer. P values were computed using a two-sided Wilcoxon rank-sum test and adjusted using Holm’s correction for multiple hypotheses (for the 12 candidate probes shown in Table 1). Rows were ordered in decreasing order of difference between median in cancer minus median in normals.