ArticleMolecular cell2014
Chromatin immunoprecipitation indirect peaks highlight long-range interactions of insulator proteins and Pol II pausing.
Article in Molecular cell, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers.
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Who cites it
78 citing papers in PubMed.
- Nuclear exosome targeting complexes modulate cohesin binding and enhancer-promoter interactions in 3D.Nature communications · 2026Article
- Article
- TheGenes · 2026Article
- Characterization of core promoter activation by the Drosophila insulator-binding protein BEAF.Scientific reports · 2025Article
- Insulator BEAF32 regulates expression of tissue-specific genes and piRNA source loci in Drosophila ovaries.Epigenetics & chromatin · 2025Article
- Su(Hw) interacts with Combgap to establish long-range chromatin contacts.Epigenetics & chromatin · 2024Article
- Development of a New Model System to Study Long-Distance Interactions Supported by Architectural Proteins.International journal of molecular sciences · 2024Article
- Protein-intrinsic properties and context-dependent effects regulate pioneer factor binding and function.Nature structural & molecular biology · 2024Article
- Crosstalk between chromatin and Shavenbaby defines transcriptional output along the Drosophila intestinal stem cell lineage.iScience · 2024Article
- Interpretable predictive models of genome-wide aryl hydrocarbon receptor-DNA binding reveal tissue-specific binding determinants.Toxicological sciences : an official journal of the Society of Toxicology · 2023Article
- Condensin positioning at telomeres by shelterin proteins drives sister-telomere disjunction in anaphase.eLife · 2023Article
- Chromatin in 3D distinguishes dMes-4/NSD and Hypb/dSet2 in protecting genes from H3K27me3 silencing.Life science alliance · 2023Article
- 3D chromatin interactions involving Drosophila insulators are infrequent but preferential and arise before TADs and transcription.Nature communications · 2023Article
- Functionally distinct promoter classes initiate transcription via different mechanisms reflected in focused versus dispersed initiation patterns.The EMBO journal · 2023Article
- Protein-intrinsic properties and context-dependent effects regulate pioneer-factor binding and function.bioRxiv : the preprint server for biology · 2023Article
- Mechanisms of Interaction between Enhancers and Promoters in ThreeInternational journal of molecular sciences · 2023Review
- The chromatin factor ROW cooperates with BEAF-32 in regulating long-range inducible genes.EMBO reports · 2022Article
- Mod(mdg4) variants repress telomeric retrotransposon HeT-A by blocking subtelomeric enhancers.Nucleic acids research · 2022Article
- The Drosophila BEAF insulator protein interacts with the polybromo subunit of the PBAP chromatin remodeling complex.G3 (Bethesda, Md.) · 2022Article
- A Tremendous Reorganization Journey for the 3D Chromatin Structure from Gametes to Embryos.Genes · 2022Review
18 more citing papers are in PubMed but not listed here.
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18 authors.
Funding
Abstract
Eukaryotic chromosomes are partitioned into topologically associating domains (TADs) that are demarcated by distinct insulator-binding proteins (IBPs) in Drosophila. Whether IBPs regulate specific long-range contacts and how this may impact gene expression remains unclear. Here we identify "indirect peaks" of multiple IBPs that represent their distant sites of interactions through long-range contacts. Indirect peaks depend on protein-protein interactions among multiple IBPs and their common cofactors, including CP190, as confirmed by high-resolution analyses of long-range contacts. Mutant IBPs unable to interact with CP190 impair long-range contacts as well as the expression of hundreds of distant genes that are specifically flanked by indirect peaks. Regulation of distant genes strongly correlates with RNAPII pausing, highlighting how this key transcriptional stage may trap insulator-based long-range interactions. Our data illustrate how indirect peaks may decipher gene regulatory networks through specific long-range interactions.
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