title: GSM8801222: E6_21d_Dox 2; Mus; OTHER
library_construction_protocol: Genomic DNA (gDNA) from >1M NPC was extracted using column-based DNeasy Blood & Tissue Kit (Qiagen). DNA integrity was tested on a 0.8% agarose gel and 200 ng of high-quality gDNA was used to prepare libraries according to the NEBNext® Enzymatic Methyl-seq Kit following the section for large insert libraries with minor modifications. A total of 55-100 ng of DNA was used per library, including a spike-in of pUC and Lambda DNA as a control for methylation efficiency. Samples were fragmented using the Covaris S2 System to achieve an average fragment size of 350-400 bp and barcoded using 5 PCR cycles for 100 ng input and 6 PCR cycles for 55 ng input.