GSM6311130: ESC_B77_CRISPRoff_untransfected; Mus musculus; Bisulfite-Seq
Genomic DNA was extracted from cells using the DNeasy Blood and Tissue kit (QIAGEN, 69506) following the manufacturer's instructions. For each condition, 1 μg genomic DNA was subjected to bisulfite conversion and cleanup according to manufacturer's instructions using the EpiTect Bisulfite kit (Qiagen_#59104), eluting to 40 μl. 3 μl eluate was used for individual amplicons PCR amplification using AccuPrime™ Taq DNA Polymerase System (Invitrogen_#12346086). Amplicons were then purified using a MinElute PCR Purification Kit (Qiagen_#28006) and eluted to 15 μl. The Sox2 super enhancer amplicons were amplified using the primer pairs listed in Supplementary Table 8. Amplicons were sequenced on the Illumina NextSeq 500 Platform.