GSM9080182: ATAC-seq_DKO_rep_2; Homo sapiens; ATAC-seq
ATAC-seq was performed using the Omni-ATAC protocol (Corces et al., 2017) with minor modifications. Briefly, viable cells were lysed in cold ATAC resuspension buffer containing NP-40, Tween-20, and digitonin. After incubation on ice, cells were washed with resuspension buffer containing Tween-20, and nuclei were pelleted by centrifugation. Nuclei were resuspended in transposition mix containing Tn5 transposase and incubated at 37°C for 30 minutes with agitation. Transposed DNA was purified using AMPure XP beads and eluted. Libraries were pre-amplified for 5 PCR cycles, and the optimal number of additional cycles was determined by qPCR using a 10% side reaction. Final amplification was performed, followed by a two-step AMPure XP cleanup. Libraries were eluted and quality-checked using a Bioanalyzer to assess fragment size distribution.