ArticleProceedings of the National Academy of Sciences of the United States of America2010
Cell type specificity of chromatin organization mediated by CTCF and cohesin.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 151 papers.
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Who cites it
151 citing papers in PubMed, 247 citations in OpenAlex.
- AlphaGenome Atlas:medRxiv : the preprint server for health sciences · 2026Article
- Histone H4 acetyl-methyllysine marks accessible chromatin that resists compaction.bioRxiv : the preprint server for biology · 2026Article
- CTCF Regulates Erythroid Differentiation Through Control of Core Erythroid Transcription Factors.Biomolecules · 2026Article
- EpiXFormer: a cross-attention neural network for predicting cell type-specific transcription factor binding sites.Briefings in bioinformatics · 2026Article
- Olfactory receptor OR51B5 suppressed esophageal cancer progression through activates Calcium / N-Ras signaling.Cell death & disease · 2025Article
- Unraveling the Complex Genomic Interplay of Sickle Cell Disease Among the Saudi Population: A Case-Control GWAS Analysis.International journal of molecular sciences · 2025Article
- The Long-Range Chromosomal Interaction Controlling Klotho Gene Expression in Human Chronic Kidney Disease.ACS omega · 2024Article
- Article
- Understanding fundamental principles of enhancer biology at a model locus: Analysing the structure and function of an enhancer cluster at the α-globin locus.BioEssays : news and reviews in molecular, cellular and developmental biology · 2023Review
- RNA polymerase II pausing regulates chromatin organization in erythrocytes.Nature structural & molecular biology · 2023Article
- High-throughput Pore-C reveals the single-allele topology and cell type-specificity of 3D genome folding.Nature communications · 2023Article
- Interrogating cell type-specific cooperation of transcriptional regulators in 3D chromatin.iScience · 2021Article
- CGGBP1-dependent CTCF-binding sites restrict ectopic transcription.Cell cycle (Georgetown, Tex.) · 2021Article
- Chromatin interaction neural network (ChINN): a machine learning-based method for predicting chromatin interactions from DNA sequences.Genome biology · 2021Article
- Suv4-20h2 protects against influenza virus infection by suppression of chromatin loop formation.iScience · 2021Article
- A comparative analysis of chromatin accessibility in cattle, pig, and mouse tissues.BMC genomics · 2020Article
- CGGBP1-regulated cytosine methylation at CTCF-binding motifs resists stochasticity.BMC genetics · 2020Article
- BICORN: An R package for integrative inference of de novo cis-regulatory modules.Scientific reports · 2020Article
- MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data.PLoS computational biology · 2020Article
- Construction of a High-Density Genetic Linkage Map and QTL Mapping for Growth-Related Traits in Takifugu bimaculatus.Marine biotechnology (New York, N.Y.) · 2020Article
91 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
CTCF sites are abundant in the genomes of diverse species but their function is enigmatic. We used chromosome conformation capture to determine long-range interactions among CTCF/cohesin sites over 2 Mb on human chromosome 11 encompassing the beta-globin locus and flanking olfactory receptor genes. Although CTCF occupies these sites in both erythroid K562 cells and fibroblast 293T cells, the long-range interaction frequencies among the sites are highly cell type specific, revealing a more densely clustered organization in the absence of globin gene activity. Both CTCF and cohesins are required for the cell-type-specific chromatin conformation. Furthermore, loss of the organizational loops in K562 cells through reduction of CTCF with shRNA results in acquisition of repressive histone marks in the globin locus and reduces globin gene expression whereas silent flanking olfactory receptor genes are unaffected. These results support a genome-wide role for CTCF/cohesin sites through loop formation that both influences transcription and contributes to cell-type-specific chromatin organization and function.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.