GSM3230396: tumor C3-1 basal SOX10 high sample1 (ATAC-seq); Mus musculus; ATAC-seq
The normal cells were dissected and FACS isolated from primary mammary tissue. The PY230 cells were transplanted into syngeneic mice to form tumors, and the tumors were dissected and FACS isolated. The C3-1-Tag cells were dissected and FACS isolated from spontaneous tumors. See the Methods section of the manuscript for details of isolation and FACS markers. Around 2x10^4 nuclei from each normal and tumor cell type were used in each reaction with 20 μl of transposition mix (10 μl 2x TD, 2 μl TDE1, 8 μl H2O; Illumina Nextera FC-121-1030) and incubated at 37°C for 30 minutes. qPCR was performed to determine the cycle number for 25% library saturation. Typically, 10-14 total cycles were performed. The library was purified with AMPure XP beads (Beckman A63881), and then analyzed by Agilent TapeStation, and 50-125 bp paired-end sequencing was performed with Illumina HiSeq 2500.
GEO Accession
GSM3230396