GSM6172221: ATAC WT d4 replicate 1; Mus musculus; ATAC-seq
ATAC was performed as previously described (Buenrostro, Giresi, Zaba, Chang, & Greenleaf, 2013). In short, nuclei of 60,000 cells per sample were extracted and centrifuged before resuspension in transposition buffer with Tn5 transposase. DNA was isolated using a MinElute kit (Qiagen). Libraries were amplified by PCR for 13 cycles using barcoded, Illumina-compatible primers. After amplification, DNA was size-selected for fragments between 100bp and 1000bp using AMPure XP beads (Beckman Coulter Life Sciences). Before sequencing, libraries for RNA- and ATAC-seq underwent analysis on Tapestation 2200 with High Sensitivity D1000 ScreenTape (Agilent).