GSM3873093
GSM3873093: 117_ATAC_KI_Th1_rep1; Mus musculus; ATAC-seq
ATAC-seq was performed according to a published protocol (Buenrostro et al., 2013) with minor modification. Fifty thousand cells were pelleted and washed with 50 μl 1× PBS, followed by treatment with 50 μl lysis buffer (10 mM Tris-HCl [pH 7.4], 10 mM NaCl, 3 mM MgCl2, 0.1% IGEPAL CA-630). After pelleting the nuclei by centrifuging at 500 × g for 10 min, the pellets were re-suspended in a 40-μl transposition reaction with 2 μl Tn5 transposase (FC-121-1030; Illumina) to tag and fragmentalize accessible chromatin. The reaction was incubated at 37°C with shaking at 300 rpm for 30 min. The fragmentalized DNAs were then purified using a QIAGEN MinElute kit and amplified with 10 or 11 cycles of PCR based on the amplification curve. Libraries were purified using a QIAGEN PCR cleanup kit. Libraries were sequenced for 75 cycles (paired-end reads) on a Illumina HiSeq 2500.
GEO
GSM3873093
GEO Accession
GSM3873093