Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains

• DOI: 10.1101/gr.082800.108
• Publication Date: 2008-12-04T03:13:55Z
• Authors: Suresh Cuddapah; Raja Jothi; Dustin E. Schones; Tae-Young Roh; Kairong Cui; Keji Zhao
• Keywords: CTCF; ChIA-PET

Insulators are DNA elements that prevent inappropriate interactions between the neighboring regions of genome. They can be functionally classified as either enhancer blockers or domain barriers. CTCF (CCCTC-binding factor) is only known major insulator-binding protein in vertebrates and has been shown to bind many enhancer-blocking elements. However, it not clear whether plays a role chromatin barriers active repressive domains. Here, we used ChIP-seq map genome-wide binding sites three cell types identified significant boundaries domains marked by H3K27me3. Although find an extensive overlapping CTCF-binding across types, its association with cell-type-specific. We further show nucleosomes flanking well positioned. Interestingly, found complementary pattern H3K27me3 H2AK5ac regions, which separated CTCF. Our data indicate may play important roles barrier activity insulators, this study provides resource for investigation function organizing human