GSM5966539: CWnt4-lineage cells, ko atac, S14; Mus musculus; ATAC-seq
ATAC-seq was performed using FACS-purified tdTomato cells from control or Brg1cKO/cKO with previously published methods.28, 57, 58 Briefly, we obtained nuclei by resuspending 50000 cells in 0.5 ml of lysis buffer (0.1% Tween-20 in RSB buffer) and incubated them for 10 min on ice. Nuclei were pelleted by centrifugation for 10 min at 500g, resuspended in 50 μl of transposition mix [1× Tagmentation DNA buffer, 2.5 μl Tagment DNA enzyme (Illumina)], and incubated for 30 min at 37 °C. DNA was purified with a MinElute PCR purification kit (Qiagen), and libraries were amplified by PCR with barcoded Nextera primers (Illumina). For sequencing, libraries were size-selected with Agencourt AMPure XP (Beckman Coulter) for fragments between ~50 and 1,000 bp in length according to the manufacturer's instructions. Libraries were sequenced in paired-end mode on a NovaSeq Instrument (Illumina) targeting a depth of 5  104-1 105 reads per cell.