title: GSM9256778: OS742_siRUNX2_2; Homo sapiens; ATAC-seq
library_construction_protocol: Cell lines were harvested using trypsin and used as input in ATAC-seq libraries. ATAC-seq libraries were prepared with minor modifications as previously described. Briefly, 1x10^5 cells were lysed on ice to isolate nuclei, which were then incubated with Tn5 transposase (Illumina) at 37 °C for 30 minutes with shaking. Libraries were amplified by PCR for 6-11 cycles, purified using SPRI beads, and sequenced at the UCSF CAT facility using HiSeq 4000 with 100-bp paired-end reads. Fresh/frozen PDXs or patient samples followed the same preparation method.