GSM2439556: HCC1806 cell line treated with LBH589 (10nM) for 28 days; Homo sapiens; ATAC-seq
50,000 intact cells were lysed and the nuclei were collected by centrifugation at 500 x g for 10 min at 4°C. The pellet was then incubated with transposition reaction mix for 30 min at 37°C and then purified using the MinElute PCR Purification kit (Qiagen, Hilden, Germany). The eluted transposed DNA was barcoded and amplified for 5 cycles, and then 5 µl of the product was used for a qPCR side-reaction to prevent amplification saturation. The optimal amount of additional PCR cycles was determined based on the number of cycles that represented one-third of maximum fluorescence intensity in the qPCR reaction after 20 cycles. The final transposed DNA was amplified for a total of 9-11 cycles. The final amplified library was purified using MinElute PCR Purification kit and eluted in 20ul elution buffer. The ATAC libraries were sequenced on the Illumina HiSeq 2500 in Rapid Mode using 50 bp paired-end.
GEO Accession
GSM2439556