title: GSM4460560: EZH2KO_3_in_UN-KC6141; Mus musculus; ATAC-seq
library_construction_protocol: Cells were resuspended in nuclei permeabilization buffer followed by gentle Dounce homogenization on ice to release the nuclei from cells. The nuclei suspension was filtered through 40 µm BD Falcon Cell Strainers (Cat. # 352340), spun down and resuspended in the tagmentation buffer from Illumina Nextera DNA Sample Preparation Kit (FC-121-1031). The nuclei number was determined by quantification using a hemocytometer and 20000 to 50000 nuclei were used to perform the tagmentation reaction. The tagmented DNA was purified with the Qiagen DNA purification kit and amplified using NEBNext PCR MasterMix (M0541 NEB). DNA fragments of 200-500 bp size were selected using Ampure XP beads (A63880, Beckman Coulter).  After Qubit DNA quantification (Qubit dsDNA HS Assay Kit, Cat. # Q32851) and DNA ScreenTape Analysis, the bulk ATAC-Seq libraries were sequenced on Illumina HiSeq4000 system sequencer.