Whole Genome Bisulfite sequencing of iPSCs
Whole Genome Bisulfite Sequencing data was prepared from 300-600k cells using the xGen Methyl-Seq DNA Library Prep Kit (IDT, 10009860). DNA was extracted sing the Zymo Quick-DNA Microprep Kit (Zymo Research, R3020). DNA was sheared on BioRuptor PICO, 9 cycles with 30 seconds on, 30 seconds off to achieve fragments distributed around 300 bp. Sheared DNA was purified using the Zymo DNA Clean and Concentrator-5 kit (Zymo Research, D4014).   50-100 ng of DNA fragments mixed with 0.5% unmethylated lambda DNA were bisulfite converted using EZ DNA Methylation-Gold Kit (Zymo, D5005). WGBS libraries were sequenced on the Illumina NovaSeq 6000 platform