Dynamic interplay between locus-specific DNA methylation and hydroxymethylation regulates distinct biological pathways in prostate carcinogenesis

Clinical Epigenetics

Table 1 Locus-specific hydroxymethylation changes in cancer. 5hmC changes were described by the overlap of 5mC and/or 5hmC marks between cell lines. Overlapping 5mC or 5hmC marks were compared to the overall distribution of each mark within each cell line to determine significant differences

Differential 5mC/5hmC status in PCa	Prostate cell type (normal vs. cancer)	Overlapping methylation marks	Genomic region
Differential 5mC/5hmC status in PCa	Prostate cell type (normal vs. cancer)	Overlapping methylation marks	Intergenic	Genic	Exonic	Intronic	Promoter	CpG Island	RWPE-1 DNaseI hypersensitive sites
5hmC “Absent”	RWPE-1	5hmC	0.051	0.666	<0.0001^,*	0.005^,**	<0.0001^,*	<0.0001^,*	<0.0001^,*
5hmC “Absent”	22Rv1	5mC	<0.0001^*	0.311	0.002^,*	0.001^,**	<0.0001^,*	<0.0001^,*	<0.0001^,*
5hmC “Retained”	RWPE-1	5hmC	0.302	0.01	0.039	0.169	0.487	0.593	0.067
5hmC “Retained”	22Rv1	5hmC	0.013	0.547	0.452	0.834	0.115	0.001^*	0.944
5hmC “Gained”	RWPE-1	5mC	0.003^,**	0.975	0.175	0.834	0.5	<0.0001^,*	0.007^*
5hmC “Gained”	22Rv1	5hmC	<0.0001^,**	0.026	0.025	0.538	0.71	<0.0001^,*	0.511

*Significant p values as determined by the chi-square test with Bonferroni correction for multiple testing applied; **5hmC is significantly more likely to be absent, gained, or retained within the given region than expected; ***5hmC is significantly less likely to be absent, gained, or retained within the given region than expected