title: GSM2929084: Liver_atac_wt_rep1; Mus musculus; ATAC-seq
library_construction_protocol: The ATAC-Seq protocol was carried out on WT or Tet2/3 DKO hepatocytes with the following modifications. Nuclei were washed with 150 μl of cold PBS, pelleted at 2,000 g at 4°C for 5 min, resuspended in 150 μl of cold lysis buffer and then re-pelleted for 2,000g at 4°C for 10 min. Nuclei were re-suspended in 150 μl of transposition reaction mix and incubated at 37 C for 30 min. DNA was isolated (Qiagen MinElute Reaction Cleanup Kit) and subjected to PCR amplification to make the library as described[Buenrostro, 2013 #6098]. Magnetic beads (AMPure XP) were used to purify an ATAC-Seq library as described (Ackermann AM et al.), followed by quality control with a high-sensitivity DNA bioanalysis chip (Agilent), quantification with KAPA (Illumina) and QuBit. The libraries were sequenced (75 bp paired-end) on Next-Seq (Illumina).