GSM8694902: K562 CTCF MNase HiChIP Rep2; Homo sapiens; OTHER
CTCF MNase HiChIP was performed as described in the Dovetail HiChIP MNase Kit protocol v.2.0. Briefly, 5 million K562 cells per sample were crosslinked with 3mM DSG and 1% formaldehyde and digested with 1ul MNase (“YET” samples) or 2ul MNase (“GW” samples) in 100ul of 1X nuclease digestion buffer. Cells were lysed with 1X RIPA containing 0.1% SDS, and CTCF ChIP was performed using 1500ng of chromatin (40-70% mononucleosomes) and 500 ng of CTCF antibody (Cell Signaling, cat #: 3418). Protein A/G beads pull-down, proximity ligation, and library preparation were done according to the protocol. Libraries were sequenced to a read depth of ~172 million paired end reads per sample on the Illumina Nextseq 2000 platform.
GEO
GSM8694902_r1