CTCF: an architectural protein bridging genome topology and function

No abstract is available for this paper.

• Publication year

  2014

• Venue

  Nature reviews genetics

• Publication date

  2014-03-11

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1038/nrg3663PMID 24614316PMCID PMC4610363
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Cohesin-based chromatin interactions enable regulated gene expression within pre-existing architectural compartments

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• Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments

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• The genomic landscape of cohesin-associated chromatin interactions

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• Dynamic trans-acting factor colocalization in human cells.

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• Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming.

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• Jpx RNA activates Xist by evicting CTCF.

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• Genomic and Proteomic Analyses of Prdm5 Reveal Interactions with Insulator Binding Proteins in Embryonic Stem Cells

  2013cited by this paper
• Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells

  2013cited by this paper
• Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives.

  2013cited by this paper
• A genome-wide map of CTCF multivalency redefines the CTCF code.

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• Promoter-proximal CCCTC-factor binding is associated with an increase in the transcriptional pausing index

  2013cited by this paper
• Organization of the Mitotic Chromosome

  2013cited by this paper
• Topological Domains in Mammalian Genomes Identified by Analysis of Chromatin Interactions

  2012cited by this paper
• The BEAF-32 insulator coordinates genome organization and function during the evolution of Drosophila species

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• Tcra gene recombination is supported by a Tcra enhancer- and CTCF-dependent chromatin hub

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• 3C-based technologies to study the shape of the genome.

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• Integrated analysis identifies a class of androgen-responsive genes regulated by short combinatorial long-range mechanism facilitated by CTCF

  2012cited by this paper
• Three-dimensional folding and functional organization principles of the Drosophila genome.

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• Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages

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• Role of CCCTC binding factor (CTCF) and cohesin in the generation of single-cell diversity of Protocadherin-α gene expression

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• The long-range interaction landscape of gene promoters

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• A map of the cis-regulatory sequences in the mouse genome

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• Spatial partitioning of the regulatory landscape of the X-inactivation centre

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• Chromatin topology and the regulation of antigen receptor assembly.

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• Faculty Opinions recommendation of Global changes in the nuclear positioning of genes and intra- and interdomain genomic interactions that orchestrate B cell fate.

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• Gene density, transcription, and insulators contribute to the partition of the Drosophila genome into physical domains.

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• The chromatin insulator CTCF and the emergence of metazoan diversity

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• CTCF/cohesin-mediated DNA looping is required for protocadherin α promoter choice

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• Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome.

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• Nature and function of insulator protein binding sites in the Drosophila genome

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• Widespread plasticity in CTCF occupancy linked to DNA methylation

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• Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages

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• Comprehensive Identification and Annotation of Cell Type-Specific and Ubiquitous CTCF-Binding Sites in the Human Genome

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• Drosophila CTCF tandemly aligns with other insulator proteins at the borders of H3K27me3 domains

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• CTCF is required for neural development and stochastic expression of clustered Pcdh genes in neurons.

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• Nuclear organization and genome function.

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• CTCF-Mediated Functional Chromatin Interactome in Pluripotent Cells

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• CTCF Binding Elements Mediate Control of V(D)J Recombination

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• Tet Proteins Can Convert 5-Methylcytosine to 5-Formylcytosine and 5-Carboxylcytosine

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• Genomic binding of Pol III transcription machinery and relationship with TFIIS transcription factor distribution in mouse embryonic stem cells

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• CCCTC-binding factor (CTCF) and cohesin influence the genomic architecture of the Igh locus and antisense transcription in pro-B cells

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• Control of embryonic stem cell lineage commitment by core promoter factor, TAF3.

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• Dynamic long‐range chromatin interactions control Myb proto‐oncogene transcription during erythroid development

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• Two forms of loops generate the chromatin conformation of the immunoglobulin heavy-chain gene locus.

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• The DNA-binding protein CTCF limits proximal Vκ recombination and restricts κ enhancer interactions to the immunoglobulin κ light chain locus.

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• Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity.

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• Specific Sites in the C Terminus of CTCF Interact with the SA2 Subunit of the Cohesin Complex and Are Required for Cohesin-Dependent Insulation Activity

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• ADP-ribose polymers localized on Ctcf–Parp1–Dnmt1 complex prevent methylation of Ctcf target sites

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• Conserved, developmentally regulated mechanism couples chromosomal looping and heterochromatin barrier activity at the homeobox gene A locus

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• Regulatory elements required for the activation and repression of the protocadherin-α gene cluster

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• Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution.

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• Regulation of chromatin organization and inducible gene expression by a Drosophila insulator.

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• Identification of CTCF as a master regulator of the clustered protocadherin genes

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• Human tRNA genes function as chromatin insulators

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• A wt1-controlled chromatin switching mechanism underpins tissue-specific wnt4 activation and repression.

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• CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing

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• Mapping of INS promoter interactions reveals its role in long-range regulation of SYT8 transcription

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• Genomic Binding Profiles of Functionally Distinct RNA Polymerase III Transcription Complexes in Human Cells

  2010cited by this paper
• Insulators, Not Polycomb Response Elements, Are Required for Long-Range Interactions between Polycomb Targets in Drosophila melanogaster

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• CTCF is a DNA methylation-sensitive positive regulator of the INK/ARF locus.

  2010cited by this paper
• Human RNA Polymerase III transcriptomes and relationships to Pol II promoters, enhancer-binding factors and chromatin domains

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• DNA methylation prevents CTCF-mediated silencing of the oncogene BCL6 in B cell lymphomas

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• Mediation of CTCF transcriptional insulation by DEAD-box RNA-binding protein p68 and steroid receptor RNA activator SRA.

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• CTCF Controls Expression and Chromatin Architecture of the Human Major Histocompatibility Complex Class II Locus

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• Nicotinamide adenine dinucleotide (NAD)–regulated DNA methylation alters CCCTC-binding factor (CTCF)/cohesin binding and transcription at the BDNF locus

  2010cited by this paper
• Cell type specificity of chromatin organization mediated by CTCF and cohesin

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• CTCF and its protein partners: divide and rule?

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• Cohesin Is Required for Higher-Order Chromatin Conformation at the Imprinted IGF2-H19 Locus

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• The Nuclear DNA Base 5-Hydroxymethylcytosine Is Present in Purkinje Neurons and the Brain

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• Cohesins localize with CTCF at the KSHV latency control region and at cellular c‐myc and H19/Igf2 insulators

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• CTCF physically links cohesin to chromatin

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• CCCTC-binding Factor Activates PARP-1 Affecting DNA Methylation Machinery

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• Cohesins functionally associate with CTCF on mammalian chromosome arms.

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

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• Cohesin mediates transcriptional insulation by CCCTC-binding factor

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• Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome.

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• Developmentally Regulated Activation of a SINE B2 Repeat as a Domain Boundary in Organogenesis

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• Visualization of chromatin domains created by the gypsy insulator of Drosophila

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• Protein:protein interactions and the pairing of boundary elements in vivo.

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