This application note describes how to use Agilent’s Tiling Microarray Technology to monitor genome-wide methylation patterns in CpG islands.
This document details a method for observing genome-wide methylation patterns across CpG islands using methyl DNA immunoprecipitation (mDIP) combined with Agilent's tiling microarray technology. The technique allows researchers to compare relative methylation levels between different samples, such as normal versus cancer cell lines or male versus female cells.
The note outlines the experimental workflow, including the use of an antibody against 5-methyl-cytosine to enrich for methylated DNA, followed by competitive hybridization on a Human CpG Island Microarray. It presents validation results demonstrating higher methylation levels on the X-chromosome in female samples compared to males and identifies specific hypermethylated regions associated with lung cancer.
The microarray is used to monitor genome-wide CpG island methylation patterns across multiple samples.
The average spacing between probes is approximately 100 base pairs.