Genomic DNA was isolated from normal breast and breast cancer samples with a Qiagen Puregene kit following the manufacturer's protocol. Approximately 1 µg genomic DNA was sheared to 200- to 400-bp fragments using a Covaris LE220 sonicator. The sonicated genomic DNA was immunoprecipitated with human MBD2 protein coupled with paramagnetic Dynabeads M-280 Streptavidin via a biotin linker using a MethylMiner Methylated DNA Enrichment Kit. Libraries were prepared for sequencing using standard Illumina protocols.
GEO Accession
GSM3263243