CTCF: An Architectural Protein Bridging Genome Topology and Function

By Chin-Tong Ong, V. Corces. Nature reviews genetics, 2014

1,032 citations recorded by the source corpus.

The eukaryotic genome is organized in the three-dimensional nuclear space in a specific manner that is both a cause and a consequence of its function. This organization is partly established by a special class of architectural proteins, of which CCCTC-binding factor (CTCF) is the best characterized. Although CTCF has been assigned various roles that are often contradictory, new results now help to draw a unifying model to explain the many functions of this protein. CTCF creates boundaries between topologically associating domains in chromosomes and, within these domains, facilitates interactions between transcription regulatory sequences. Thus, CTCF links the architecture of the genome to its function.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/0e146180b5255408631aeb159059ac7d239569fb

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Citations in the corpus

CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data (2015, background): “We first assessed the enrichment of promoter-interacting fragments for histone marks associated with active (H3K4me1, H3K4me3, H3K27ac) and repressed (H3K27me3, H3K9me3) chromatin, as well as for the binding sites of CTCF that has a well-established role in shaping nuclear architecture [23].”
CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function (2015, neutral): “Insulators function to ensure proper interactions between remote enhancers and cognate promoters in vivo by blocking enhancers from targeting non-cognate promoters (Ong and Corces, 2014).”
Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes (2014, neutral): “…an exceptional amount of transcription apparatus and CTCF has been associated with insulator activity (Essafi et al., 2011; Handoko et al., 2011; Ong and Corces, 2014; Phillips and Corces, 2009; Phillips-Cremins and Corces, 2013), we postulated that SD structures might be necessary for proper…”
CTCF Binding Polarity Determines Chromatin Looping. (2015, background): “, 2008) that plays a central role in the folding and segmentation of mammalian chromosomes (Ong and Corces, 2014).”
Activation of proto-oncogenes by disruption of chromosome neighborhoods (2015, background): “Because control of 3D chromosome structure involves binding of specific sites by CTCF and cohesin, which is affected by protein cofactors, DNA methylation and local RNA synthesis (25), future advances in our understanding of these regulatory processes may provide new approaches to therapeutics that ”
Cell-free DNA comprises an in vivo nucleosome footprint that informs its tissues-of-origin (2016, neutral): “However, we also observe a strong signal in the short fraction WPS (S-WPS) coincident with the CTCF site itself (Ong and Corces, 2014) (Figures 4A and 4B).”
The physics of epigenetics (2015, background): “…is recognized as a biochemical tag by dedicated chromatin proteins, either architectural (Zentner and Henikoff, 2013; Gosalia et al., 2014; Ong and Corces, 2014; Mulligan, Koslover, and Spakowitz, 2015) or remodeling proteins ((Becker and Hrz, 2002); (ii) there is considerable cross talk…”
Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes (2015, positive): “CTCF is an architectural protein that creates topological boundaries throughchromatin loopingand therebygoverns interactions between various regulatory regions, such as promoters and enhancers (Ong and Corces, 2014).”
CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription. (2015, methodology): “CTCF is the master weaver of genome organization (Ong and Corces, 2014), and Hi-C studies further correlated CTCF binding at TAD boundaries (Dixon et al., 2012; Rao et al., 2014).”
Regulation of disease-associated gene expression in the 3D genome (2016, neutral): “81 ).”
How do lncRNAs regulate transcription? (2017, background): “C.-T. Ong, V. G. Corces, CTCF: An architectural protein bridging genome topology and function.”