DNA quality was assessed with a NanoDrop ND-1000 spectrometer (NanoDrop Technologies, Wilmigton, USA) and gel electrophoresis. DNA was sheared with an S220 focused-ultrasonicator (Covaris Inc., Woburn, USA) to a size range of 200-400 bp and then incubated with 2 µg of recombinant MBD2-glutathion-S-transferase fusion protein with a histidine tag (H6). Methylated DNA fragments were then captured on NTA-agarose magnetic beads (Sigma, H9914) and following washing, eluted by 0.4 M NaCl. Library preparation of methylated DNA fragments and deep sequencing with Illumina technology (IlluminaInc., San Diego, USA) with a read length of 36 bases was performed at EMBL gene core facility (Heidelberg, Germany).
GEO Accession
GSM1462770