GSM6067825: Dox-minus-18D-Rep1 (ATAC-seq); Mus musculus; ATAC-seq
ATAC–seq of iHOT+ cells with different treatments were performed as previously described (Corces et al., 2017). Briefly, 50000 cells were pelleted, resuspended in 50 μl of lysis buffer (10 mM Tris-HCl, pH 7.4, 3 mM MgCl2, 10 mM NaCl, 0.1% NP-40 (Igepal CA-630)), and immediately centrifuged at 500g for 10 min at 4 °C. The nuclei pellets were resuspended in 50 μl of transposition buffer (25 μl of 2× TD buffer, 22.5 μl of distilled water, 2.5 μl of Illumina Tn5 transposase) and incubated at 37 °C for 30 min. Transposed DNA was purified with the MinElute PCR Purification kit (Qiagen), and eluted in 10 μl of EB buffer. Library fragments were amplified using NEBnext PCR master mix as previously described (Corces et al., 2017)