Abstract
Abstract CpG islands are stretches of high GC content DNA containing multiple CpG dinucleotides. When CpG dinucleotides within these islands are methylated, especially in promoter regions, expression of the corresponding downstream genes is often repressed. Aberrant CpG island methylation is implicated in cancer. We have refined a protocol for methylated DNA immunoprecipitation (mDIP) and coupled it with microarray detection. DNA isolated by mDIP is fluorescently labeled and hybridized to an oligonucleotide microarray that specifically represents putative methylation target regions in the human genome. This microarray contains ∼237,000 oligo probes tiling ∼28,000 CpG islands along with ∼5000 recently identified regions determined to be undermethylated across multiple tissue types. As proof of concept we perform mDIP and microarray analysis of human genomic DNA samples from normal tissues. We compare our mDIP array data with bisulfite sequencing data. Performing analysis with Agilent Genomic Workbench we demonstrate the ability to distinguish probes corresponding to methylated regions from probes corresponding to unmethylated regions. We then apply the assay to tumor and normal DNA and identify differential methylation patterns. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 142.
Published Version
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