GSM5940004: 72 hours reprogramming, Control, rep1; Mus musculus; ATAC-seq
DNA extraction and transposition from 50,000 startinng cells was performed according to the Omni-ATAC protocol. Briefly cells were lysed on ice in lysis buffer for 3 minutes before 1000ul resuspension buffer was added and tubes were centrifuged at 500 x g for 10 mins at 4oC. Supernatants were aspirated and pelleted nuclei were resuspended in 50ul transposition mix (2.5 ul Tn5 transposase, 25 ul 2x TD buffer (both Illumina), 0.5 ul 1% Digitonin (Promega), 0.5 ul 10% Tween-20 (Sigma), 16.5 ul 1x PBS, 5ul nuclease-free H2O) shaking at 37oC for 30mins at 1000rpm in a thermomixer. Tn5 transposed genomic DNA was then purified with the Zymo DNA Clean and Concentrator-5 kit (Zymo Research) and eluted in dH20 Purified and transposed DNA was PCR amplified with the NEBNext High Fidelity 2x MasterMix (NEB) . Illumina/Nextera i5/i7 common adaptors were used. PCR fragments  were purified with double-sided bead purification using AMPure XP magnetic beads (Beckman Coulter). Omni ATAC-Seq