GSM5930173: COX354A425_Medium_prdm1 fl/fl maf fl/fl_Day 2; Mus musculus; ATAC-seq
50,000 cells were lysed with cold ATAC-seq lysis buffer containing 10mM Tris-HCl, pH 7.4, 10mM NaCl, 3mM MgCl2, 0.1% Nonidet™ P40 substitute (all Sigma) and the nuclei incubated for 2 hours at 37°C with 50μl of TDE1/TD transposase reaction mix (Illumina). Tagmented DNA was purified using the MinElute kit (Qiagen) and amplified under standard ATAC PCR conditions: 72°C for 5 min; 98°C for 30s and thermocycling at 98°C for 10s, 63 °C for 30s and 72°C for 1 min for 12 cycles. Following amplification, ATAC-seq libraries were cleaned up using 90μl of AMPure XP beads (Beckman Coulter) and two 80% Ethanol washes whilst being placed on a magnetic plate stand, before being eluted in 1mM (0.1x) Tris-EDTA buffer, pH8 (Sigma) diluted with DEPC-treated water (Ambion).