GSM3579319: Hi-C_seq_CTCF_siRNA_LNCaP_Rep2.1; Homo sapiens; OTHER
Cells were cross-linked with formaldehyde, lysed and the nuclei were permeabilized. DNA was then cut with BglII restriction enzyme, the overhangs filled in incorporating a biotinylated base and the free ends were then ligated together. Crosslinks were reversed, the DNA was sheared to 300-500bp and the biotinylated ligation junctions were pulled down with streptavidin beads. Custom library construction protocol was followed. Briefly, DNA was end-repaired and dA-tailing was performed using the NEBNext DNA Master Mix kit and the ligation of universal adapters was performed on Streptavidin-bound DNA using the NEBNext Ultra DNA Library Prep kit. After adapter ligation DNA was PCR amplified with indexed Illumina primers for 8-12 cycles and library fragments of at least 200bp were purified using SPRI beads. The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Illumina HiSeq 2500 following the manufacturer's protocols. Libraries were prepared using TruSeq ChIP sample Preparation Kit (Catalog # IP-202-900).
GEO Accession
GSM3579319