ArticleMolecular cell2019
Distinct Classes of Chromatin Loops Revealed by Deletion of an RNA-Binding Region in CTCF.
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Article in Molecular cell, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 182 papers, 1 of them a synthesis that pooled it.
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182citing papers in PubMed, 1 pooled it
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Who cites it
182 citing papers in PubMed, 1 synthesis or guideline pooled it.
- An updated catalog ofFrontiers in molecular neuroscience · 2023Pooled it
- Diverse Roles of Cohesin in Chromosome Dynamics and Stem Cells.Biotech (Basel (Switzerland)) · 2026Review
- Genome folding and nuclear speckles converge to orchestrate fibroblast activation.Science advances · 2026Article
- Nuclear exosome targeting complexes modulate cohesin binding and enhancer-promoter interactions in 3D.Nature communications · 2026Article
- Senescent cells cluster CTCF on nuclear speckles to instruct an alternative splicing program.Nature aging · 2026Article
- Mapping 3D genome organization at nucleosome-scale with Micro-C and Region Capture Micro-C (RCMC).Nature protocols · 2026Review
- Wiz regulates clustered protocadherin genes by restricting CTCF/cohesin loop extrusion in a genomic-distance biased manner.PLoS genetics · 2026Article
- Genome-wide absolute quantification of chromatin looping.Nature structural & molecular biology · 2026Article
- RAD21 regulation of the enhancer-promoter chromatin loop of RAD51 promotes PARPi resistance in ovarian cancer.Journal of translational medicine · 2026Article
- CTCF directly binds G-quadruplex structures to regulate genome topology and gene expression.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Direct roles of long non-coding RNAs in transcription activation.Nature structural & molecular biology · 2026Review
- RNA-induced PRC2 inhibition depends on the sequence of bound RNA.Nature communications · 2026Article
- CCDC137: A key hub for RNA and epigenetic regulation in cancer research (Review).International journal of oncology · 2026Review
- Dynamic three-dimensional chromatin remodeling in lung disease: mechanistic principles, pathogenic regulatory networks, and translational challenges.Frontiers in cell and developmental biology · 2026Review
- Integrated single-cell and multi-cohort analyses reveal CTCF as a key regulator of chemo-immunotherapy resistance in lung adenocarcinoma.Frontiers in cell and developmental biology · 2026Article
- Spatial Chromatin Organization Across the Cell Cycle: Insights from Auxin-Inducible Protein Depletion.Cells · 2025Review
- The METTL3-YTHDC1 axis mediates architectural RNA mMolecular cancer · 2025Article
- Dynamics of microcompartment formation at the mitosis-to-G1 transition.Nature structural & molecular biology · 2025Article
- CTCF-RNA interactions orchestrate cell-specific chromatin loop organization.Science advances · 2025Article
- RNA-induced PRC2 inhibition depends on the sequence of bound RNA.Research square · 2025Article
122 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors.
Anders S HansenDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Li Ka Shing Center for Biomedical and Health Sciences, Berkeley, CA 94720, USA; CIRM Center of Excellence, University of California, Berkeley, Berkeley, CA 94720, USA; Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA 94720, USA; Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02142, USA.
Tsung-Han S HsiehDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Li Ka Shing Center for Biomedical and Health Sciences, Berkeley, CA 94720, USA; CIRM Center of Excellence, University of California, Berkeley, Berkeley, CA 94720, USA; Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA 94720, USA.
Claudia CattoglioDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Li Ka Shing Center for Biomedical and Health Sciences, Berkeley, CA 94720, USA; CIRM Center of Excellence, University of California, Berkeley, Berkeley, CA 94720, USA; Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA 94720, USA.
Iryna PustovaDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Li Ka Shing Center for Biomedical and Health Sciences, Berkeley, CA 94720, USA; CIRM Center of Excellence, University of California, Berkeley, Berkeley, CA 94720, USA; Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA 94720, USA.
Ricardo Saldaña-MeyerDepartment of Biochemistry and Molecular Pharmacology, NYU School of Medicine, New York, NY 10016, USA; Howard Hughes Medical Institute, NYU Langone Health, New York, NY 10016, USA.
Danny ReinbergDepartment of Biochemistry and Molecular Pharmacology, NYU School of Medicine, New York, NY 10016, USA; Howard Hughes Medical Institute, NYU Langone Health, New York, NY 10016, USA.
Xavier DarzacqDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Li Ka Shing Center for Biomedical and Health Sciences, Berkeley, CA 94720, USA; CIRM Center of Excellence, University of California, Berkeley, Berkeley, CA 94720, USA. Electronic address: darzacq@berkeley.edu.
Robert TjianDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA; Li Ka Shing Center for Biomedical and Health Sciences, Berkeley, CA 94720, USA; CIRM Center of Excellence, University of California, Berkeley, Berkeley, CA 94720, USA; Howard Hughes Medical Institute, University of California, Berkeley, Berkeley, CA 94720, USA. Electronic address: jmlim@berkeley.edu.
Funding
Center for 3D Structure and Physics of the GenomeU54DK107980 · NIDDK · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI DEKKER, JOB, MIRNY, LEONID A · 2015 to 2019
$14.9MRepression via Facultative HeterochromatinR01CA199652 · NCI · UNIVERSITY OF MIAMI SCHOOL OF MEDICINE · PI REINBERG, DANNY · 2015 to 2025
$4.2MUnderstanding CTCF Boundaries Controlling Hox Gene ExpressionR01NS100897 · NINDS · UNIVERSITY OF MIAMI SCHOOL OF MEDICINE · PI Esteban Orlando Mazzoni, DANNY REINBERG · 2018 to 2026
$4.1MTools For Imaging the Functional Genome in Living Cells and TissuesU01EB021236 · NIBIB · ALBERT EINSTEIN COLLEGE OF MEDICINE, INC · PI DARZACQ, XAVIER, SINGER, ROBERT H · 2015 to 2017
$2.5MTools For Imaging the Functional Genome in Living Cells and TissuesU01DA047729 · NIDA · ALBERT EINSTEIN COLLEGE OF MEDICINE, INC · PI DARZACQ, XAVIER, SINGER, ROBERT H · 2018 to 2019
$1.7MMolecular mechanisms regulating chromatin looping in time and spaceR00GM130896 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI HANSEN, ANDERS SEJR · 2020 to 2022
$747kPacific Biosciences PacBio RS Single Molecule Real Time SequencerS10OD018174 · OD · UNIVERSITY OF CALIFORNIA BERKELEY · PI ROKHSAR, DANIEL SOLEYMAN · 2014 to 2014
$600kMolecular mechanisms regulating chromatin looping in time and spaceK99GM130896 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI HANSEN, ANDERS SEJR · 2019 to 2019
$94kHoward Hughes Medical InstituteNCI NIH HHS R01 CA199652NIBIB NIH HHS U01 EB021236NIDA NIH HHS U01 DA047729NIDDK NIH HHS U54 DK107980NIGMS NIH HHS K99 GM130896NIGMS NIH HHS R00 GM130896NIH HHS S10 OD018174NINDS NIH HHS R01 NS100897
Abstract
Mammalian genomes are folded into topologically associating domains (TADs), consisting of chromatin loops anchored by CTCF and cohesin. Some loops are cell-type specific. Here we asked whether CTCF loops are established by a universal or locus-specific mechanism. Investigating the molecular determinants of CTCF clustering, we found that CTCF self-association in vitro is RNase sensitive and that an internal RNA-binding region (RBR
Indexed as
AnimalsCCCTC-Binding FactorCell LineChromatinGene Expression Regulation, DevelopmentalMaleMiceMice, TransgenicMouse Embryonic Stem CellsMutationNucleic Acid ConformationProtein BindingProtein Interaction Domains and MotifsStructure-Activity RelationshipCCCTC-Binding FactorChromatinCtcf protein, mousecohesinCTCFgenome organizationlooploop extrusionMicro-CRNAsuper-resolution imagingTAD
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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.