GSM9286218: VCaP, si025, replicate1; Homo sapiens; OTHER
Chromatin from 5 million of VCaP cells was crosslinked with 1% formaldehyde for 10 minutes, digested with the MboI restriction enzyme, end-repaired with dNTP including biotin-labeled dATP, and ligated with T4 DNA ligase. Ligated chromatin was sonicated with Qsonica Q800 (1.5 minutes total sonication time, 50% amplitude) and processed with ChIP using an CTCF antibody (Cell Signaling, #3418, 15ul per HiChIP). ChIP-enriched DNA was de-crosslinked, purified, and processed with streptavidin beads to enrich ligated DNA fragments Sequencing libraries were prepared using Illumina Tagment DNA Enzyme and Buffer Kit, and subjected to high-throughput sequencing.