There are several tools for investigating the methylation status of genomic DNA; many of these are expensive, do not allow for quantification or are unable to distinguish intermediary methylation metabolites such as 5-hydroxymethylation. Since significant changes in methylation status can be very small, the development of highly sensitive techniques is important for validating high throughput base resolution techniques. To this end, we developed a quantitative methyl specific PCR method based on oxidative bisulfite converted DNA. By designing primers specific for methylated and unmethylated DNA we are able to quantify the "real" methylation (5mC) and the hydroxymethylation (5hmC) at specific loci. This technique is important for understanding the methylation status of a region quickly and also as a tool for validating methyl-seq data.