Cited by 586Genomics and Chromatin DynamicsChromatin Remodeling and CancerNuclear Structure and Function

The DOI matches its Crossref record; 56 of the 57 references it cites were found in a registry or an index.

The Energetics and Physiological Impact of Cohesin Extrusion

Open access

Vian, Laura, Pękowska, Aleksandra, Rao, Suhas S.P., Kieffer-Kwon, Kyong-Rim, Jung, Seolkyoung, Baranello, Laura, Huang, Su-Chen, El Khattabi, Laila, Dose, Marei, Pruett, Nathanael, Sanborn, Adrian L., Canela, Andres, Maman, Yaakov, Oksanen, Anna, Resch, Wolfgang, Li, Xingwang, Lee, Byoungkoo, Kovalchuk, Alexander L., Tang, Zhonghui, Nelson, Steevenson, Di Pierro, Michele, Cheng, Ryan R., Machol, Ido, St Hilaire, Brian Glenn, Durand, Neva C., Shamim, Muhammad S., Stamenova, Elena K., Onuchic, José N., Ruan, Yijun, Nussenzweig, Andre, Levens, David, Aiden, Erez Lieberman, Casellas, Rafael·2018·Cell

DOI 10.1016/j.cell.2018.03.072PMC PMC6251724

Open this paper in CoChat — free account Open PDF

Abstract

Cohesin extrusion is thought to play a central role in establishing the architecture of mammalian genomes. However, extrusion has not been visualized in vivo, and thus, its functional impact and energetics are unknown. Using ultra-deep Hi-C, we show that loop domains form by a process that requires cohesin ATPases. Once formed, however, loops and compartments are maintained for hours without energy input. Strikingly, without ATP, we observe the emergence of hundreds of CTCF-independent loops that link regulatory DNA. We also identify architectural "stripes," where a loop anchor interacts with entire domains at high frequency. Stripes often tether super-enhancers to cognate promoters, and in B cells, they facilitate Igh transcription and recombination. Stripe anchors represent major hotspots for topoisomerase-mediated lesions, which promote chromosomal translocations and cancer. In plasmacytomas, stripes can deregulate Igh-translocated oncogenes. We propose that higher organisms have coopted cohesin extrusion to enhance transcription and recombination, with implications for tumor development.

Integrity signals

Registry

Crossref · 10.1016/j.cell.2018.03.072

Cites

56 of 56 references verified0 citation errors · 0 not checkable

Statistics

Recomputing p-values needs the paper’s full text.

Claims the paper makes

We couldn’t retrieve this paper’s full text, so its claims and self-check weren’t run. The registry and citation checks still apply.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Multiplex Genome Engineering Using CRISPR/Cas Systems
Cong, L., Ran, F. A., Cox, D., Lin, S., Barretto, R., Habib, N., Hsu, P. D., Wu, X., Jiang, W., Marraffini, L. A., et al. (2013) · Science · doi:10.1126/science.1231143 · Cited by 15,339
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Rao, S. S. P., Huntley, M. H., Durand, N. C., Stamenova, E. K., Bochkov, I. D., Robinson, J. T., Sanborn, A. L., Machol, I., Omer, A. D., Lander, E. S., et al. (2014) · Cell · doi:10.1016/j.cell.2014.11.021 · Cited by 9,212
Self-citation
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
Lieberman-Aiden, E., van Berkum, N. L., Williams, L., Imakaev, M., Ragoczy, T., Telling, A., Amit, I., Lajoie, B. R., Sabo, P. J., Dorschner, M. O., et al. (2009) · Science · doi:10.1126/science.1181369 · Cited by 8,898
Self-citation
Topological domains in mammalian genomes identified by analysis of chromatin interactions
Dixon, J. R., Selvaraj, S., Yue, F., Kim, A., Li, Y., Shen, Y., Hu, M., Liu, J. S., & Ren, B. (2012) · Nature · doi:10.1038/nature11082 · Cited by 6,829
Spatial partitioning of the regulatory landscape of the X-inactivation centre
Nora, E. P., Lajoie, B. R., Schulz, E. G., Giorgetti, L., Okamoto, I., Servant, N., Piolot, T., van Berkum, N. L., Meisig, J., Sedat, J., et al. (2012) · Nature · doi:10.1038/nature11049 · Cited by 2,895
Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions
Lupiáñez, D. G., Kraft, K., Heinrich, V., Krawitz, P., Brancati, F., Klopocki, E., Horn, D., Kayserili, H., Opitz, J. M., Laxova, R., et al. (2015) · Cell · doi:10.1016/j.cell.2015.04.004 · Cited by 2,132
Formation of chromosomal domains by loop extrusion
Fudenberg, G., Imakaev, M., Lu, C., Goloborodko, A., Abdennur, N., & Mirny, L. A. (2016) · Cell Reports · doi:10.1016/j.celrep.2016.04.085 · Cited by 2,003
Three-dimensional folding and functional organization principles of the Drosophila genome
Sexton, T., Yaffe, E., Kenigsberg, E., Bantignies, F., Leblanc, B., Hoichman, M., Parrinello, H., Tanay, A., & Cavalli, G. (2012) · Cell · doi:10.1016/j.cell.2012.01.010 · Cited by 1,983
Mediator and cohesin connect gene expression and chromatin architecture
Kagey, M. H., Newman, J. J., Bilodeau, S., Zhan, Y., Orlando, D. A., van Berkum, N. L., Ebmeier, C. C., Goossens, J., Rahl, P. B., Levine, S. S., et al. (2010) · Nature · doi:10.1038/nature09380 · Cited by 1,939
Cohesin Loss Eliminates All Loop Domains
Rao, S. S. P., Huang, S.-C., Glenn St Hilaire, B., Engreitz, J. M., Perez, E. M., Kieffer-Kwon, K.-R., Sanborn, A. L., Johnstone, S. E., Bascom, G. D., Bochkov, I. D., et al. (2017) · Cell · doi:10.1016/j.cell.2017.09.026 · Cited by 1,883
Self-citation

Flagged first, then by citations

Show all 57 references

1 of the 57 references couldn’t be matched to a known paper.

Sorted by citations

Items 501–586 of 586

Synergy of Topoisomerase and Structural-Maintenance-of-Chromosomes Proteins Creates a Universal Pathway to Simplify Genome TopologyPreprint
Orlandini, E., Marenduzzo, D., & Michieletto, D. (2018) · arXiv (Cornell University) · doi:10.48550/arxiv.1809.01267
A statistical modelling reveals bi-directional chromatin scanning by RAG in the human TCR-α locusPreprint
O’Connor, C. G., McNamara, D. A., & Nakagome, S. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.02.21.959197
Mechanistic Modelling of Chromatin Folding to Understand FunctionPreprint
Brackley, C. A., Marenduzzo, D., & Gilbert, N. (2020) · arXiv (Cornell University) · doi:10.48550/arxiv.2010.06413
Effects of forced cohesin eviction and retention on X-inactivation and autosomesPreprint
Kriz, A. J., Colognori, D., Sunwoo, H., Nabet, B., & Lee, J. T. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.01.13.426565
Eukaryotic Genome in Three Dimensions
Razin, S. V., Gavrilov, A. A., & Ulianov, S. V. (2020) · Springer eBooks · doi:10.1007/978-3-030-62532-0_2
Slow chromatin dynamics enhances promoter accessibility to transcriptional condensatesPreprint
Yamamoto, T., Sakaue, T., & Schießel, H. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.02.16.431394
The Changes of the Nuclear Landscape Upon Stimulation of Neuronal Cells are Dependent on the Histone Deacetylase HSAC1Preprint
Grabowska, A. K., Sas‐Nowosielska, H., Holm-Kaczmarek, D., Januszewicz, E., Yushkevich, Y., Czaban, I., Trzaskoma, P., Krawczyk, K., Wojtaś, B., Gielniewski, B., et al. (2021) · SSRN Electronic Journal · doi:10.2139/ssrn.3802029
DNA loop organization in dorsal root ganglion neurons: effects of peripheral inflammation
Afanasieva, K. S., Duzhyy, D. E., Belan, P. V., Voitenko, N. V., & Sivolob, A. (2021) · Biopolymers and Cell · doi:10.7124/bc.000a4f
3D cytogenomics: Structural variation in the three-dimensional genome
Yumiceba, V., Melo, U. S., & Spielmann, M. (2021) · Elsevier eBooks · doi:10.1016/b978-0-12-823579-9.00020-5
Characterization of DNA extrusion scenarios underlying aggregate Hi-C patterns by a new computational frameworkPreprint
Zhang, X., Gogoshin, G., & Branciamore, S. (2021) · bioRxiv · doi:10.1101/2021.06.28.450073
Possibility of Uncoding Structural Organization of Genome in Rice Research: Prospects and Approaches by 3D Genome Sequencing
Bhowmick, B. K. (2021) · Springer eBooks · doi:10.1007/978-981-16-3997-5_1
Faculty Opinions recommendation of Loop extrusion as a mechanism for formation of DNA damage repair foci.
Polo, S. E. (2021) · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature · doi:10.3410/f.739571582.793583855
Chromatin reorganization, signaling responses and non-coding RNA regulators in homeostasis and senescence
Josipović, N. (2022) · eDiss (Georg-August-Universität Göttingen) · doi:10.53846/goediss-9136
Faculty Opinions recommendation of Organizational principles of 3D genome architecture.
Goll, M. G. (2020) · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature · doi:10.3410/f.734288427.793573571
Faculty Opinions recommendation of Human cohesin compacts DNA by loop extrusion.
Xie, W. (2020) · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature · doi:10.3410/f.737001350.793571504
Faculty Opinions recommendation of Human cohesin compacts DNA by loop extrusion.
Cavalli, G., & Jerković, I. (2020) · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature · doi:10.3410/f.737001350.793571323
Exploring the roles of RNAPII in genome organization
Zhang, S. (2022) · eDiss (Georg-August-Universität Göttingen) · doi:10.53846/goediss-9632
Structural modeling of the 3D genome using machine learning
Highsmith, M. R. (2021) · MOspace Institutional Repository (University of Missouri) · doi:10.32469/10355/93230
Analysis of Chromatin Interaction and Accessibility by Trac-Looping
Liu, S., Tang, Q., & Zhao, K. (2023) · Methods in molecular biology · doi:10.1007/978-1-0716-2899-7_7
Contribution of the IGCR1 regulatory element and the 3’Igh CBEs to Regulation of Igh V(D)J RecombinationPreprint
Liang, Z., Zhao, L.-J., Ye, A. Y., Lin, S. G., Zhang, Y., Guo, C.-G., Dai, H.-Q., Ba, Z.-Q., & Alt, F. (2023) · bioRxiv · doi:10.1101/2023.04.21.537836
Dependency of 3D chromatin folding on RNA polymerase II at different cell cycle stages
Übelmesser, N. (2023) · eDiss (Georg-August-Universität Göttingen) · doi:10.53846/goediss-9998
Additional file 2 of Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index
Shi, M., You, K., Chen, T., Hou, C., Liang, Z., Liu, M., Wang, J., Wei, T., Qin, J., Chen, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.15184562
Additional file 5 of Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index
Shi, M., You, K., Chen, T., Hou, C., Liang, Z., Liu, M., Wang, J., Wei, T., Qin, J., Chen, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.15184571
Additional file 3 of Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index
Shi, M., You, K., Chen, T., Hou, C., Liang, Z., Liu, M., Wang, J., Wei, T., Qin, J., Chen, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.15184565
Additional file 2 of Contribution of variant subunits and associated factors to genome-wide distribution and dynamics of cohesin
Cuadrado, A., Giménez-Llorente, D., Koninck, M. D., Ruiz‐Torres, M., Kojic, A., Rodríguez-Corsino, M., & Losada, A. (2022) · Figshare · doi:10.6084/m9.figshare.21622962
Improved cohesin HiChIP protocol and bioinformatic analysis for robust detection of chromatin loops and stripesPreprint
Jodkowska, K., Parteka-Tojek, Z., Agarwal, A., Denkiewicz, M., Korsak, S., Chiliński, M., Banecki, K. H., & Plewczyński, D. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.05.16.594268
Long-Range Enhancer Networks Gradually Emerge as Key Regulators During Human Cortical NeurogenesisPreprint
Jia, L., Hou, Y., Cui, Z., Luo, X., Duan, J., Guo, J., Shi, M., Chen, H., Li, T., Zhang, F., et al. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.07.24.605026
CWL-Based Analysis Pipeline for Hi-C Data: From FASTQ Files to Matrices
Miura, H., Cerbus, R., Noda, I., & Hiratani, I. (2024) · Methods in molecular biology · doi:10.1007/978-1-0716-4136-1_6
DiCARN-DNase: Enhancing Cell-to-Cell Hi-C Resolution Using Dilated Cascading ResNet with Self-Attention and DNase-seq Chromatin Accessibility DataPreprint
Olowofila, S., & Oluwadare, O. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.10.31.621380
Cohesin-dependent loop extrusion: molecular mechanics and role in cell physiology
Golov, A. K., & Gavrilov, A. A. (2024) · Biochemistry (Moscow) · doi:10.31857/s0320972524040024
DNA methylation insulates genic regions from CTCF loops near nuclear specklesPreprint
Roseman, S. A., Siegenfeld, A. P., Lee, C., Lue, N. Z., Waterbury, A. L., & Liau, B. B. (2024) · eLife · doi:10.7554/elife.102930.1
Polaris: a universal tool for chromatin loop annotation in bulk and single-cell Hi-C dataPreprint
Hou, Y., Baguette, A., Blanchette, M., & Zhang, Y. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.12.24.630215
COCOA: A Framework for Fine-scale Mapping of Cell-type-specific Chromatin Compartments Using Epigenomic Information
Li, K., Zhang, P., Xu, J., Wen, Z., Zhang, J., Zi, Z., & Li, L. (2024) · Genomics Proteomics & Bioinformatics · doi:10.1093/gpbjnl/qzae091 · Cited by 1
Context-Dependent and Gene-Specific Role of Chromatin Architecture Mediated by Histone Modifiers and Loop-extrusion MachineryPreprint
Tastemel, M., Jussila, A., Saravanan, B., Huang, H., Xie, Y., Zhu, Q. K., Jiang, Y., Armand, E. J., & Ren, B. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.02.21.639596 · Cited by 2
BINDER achieves accurate identification of hierarchical TADs by comprehensively characterizing consensus TAD boundariesPreprint
Liu, Y., Liu, B., & Liu, J. (2025) · Genome Research · doi:10.1101/gr.279647.124
EPB41L4A-AS1 long noncoding RNA acts in both cis- and trans-acting transcriptional regulation and controls nucleolar biology
Monziani, A., Unfried, J. P., Cvetanovic, T., & Ulitsky, I. (2026) · eLife · doi:10.7554/elife.106846.3
DNA methylation insulates genic regions from CTCF loops near nuclear specklesPreprint
Roseman, S. A., Siegenfeld, A. P., Lee, C., Lue, N. Z., Waterbury, A. L., & Liau, B. B. (2025) · eLife · doi:10.7554/elife.102930.2
MIA-Jet: Multi-scale Identification Algorithm of Chromatin JetsPreprint
Kim, S., & Kim, M. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.08.27.672730
Pan-cancer 3D genomic analysis revealed extremely long Polycomb loops as the biomarker for sensitivity to Polycomb inhibitionPreprint
Moran, S., Fan, Z., Zanovello, M., Feng, F., Wang, X. Q. D., Lü, C., Liu, J., & Zhang, X. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.10.30.685561
Yeast condensin acts as a transient intermolecular crosslinker in entangled DNA
Conforto, F., Valdés, A., Vanderlinden, W., & Michieletto, D. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag044 · Cited by 2
Additional file 1 of Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation
Ardakany, A. R., Gezer, H. T., Lonardi, S., & Ay, F. (2020) · Figshare · doi:10.6084/m9.figshare.13031597
Additional file 1 of Contribution of variant subunits and associated factors to genome-wide distribution and dynamics of cohesin
Cuadrado, A., Giménez-Llorente, D., Koninck, M. D., Ruiz‐Torres, M., Kojic, A., Rodríguez-Corsino, M., & Losada, A. (2022) · Figshare · doi:10.6084/m9.figshare.21622959
Additional file 1 of Tandem CTCF sites function as insulators to balance spatial chromatin contacts and topological enhancer-promoter selection
Jia, Z., Li, J., Ge, X., Wu, Y., Guo, Y., & Wu, Q. (2020) · Figshare · doi:10.6084/m9.figshare.12211295
Additional file 3 of Contribution of variant subunits and associated factors to genome-wide distribution and dynamics of cohesin
Cuadrado, A., Giménez-Llorente, D., Koninck, M. D., Ruiz‐Torres, M., Kojic, A., Rodríguez-Corsino, M., & Losada, A. (2022) · Figshare · doi:10.6084/m9.figshare.21622965
Additional file 2 of Tandem CTCF sites function as insulators to balance spatial chromatin contacts and topological enhancer-promoter selection
Jia, Z., Li, J., Ge, X., Wu, Y., Guo, Y., & Wu, Q. (2020) · Figshare · doi:10.6084/m9.figshare.12211298
Additional file 6 of Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index
Shi, M., You, K., Chen, T., Hou, C., Liang, Z., Liu, M., Wang, J., Wei, T., Qin, J., Chen, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.15184574
Additional file 2 of Mustache: multi-scale detection of chromatin loops from Hi-C and Micro-C maps using scale-space representation
Ardakany, A. R., Gezer, H. T., Lonardi, S., & Ay, F. (2020) · Figshare · doi:10.6084/m9.figshare.13031600
Additional file 5 of Contribution of variant subunits and associated factors to genome-wide distribution and dynamics of cohesin
Cuadrado, A., Giménez-Llorente, D., Koninck, M. D., Ruiz‐Torres, M., Kojic, A., Rodríguez-Corsino, M., & Losada, A. (2022) · Figshare · doi:10.6084/m9.figshare.21622974
Additional file 1 of Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index
Shi, M., You, K., Chen, T., Hou, C., Liang, Z., Liu, M., Wang, J., Wei, T., Qin, J., Chen, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.15184559
Additional file 2 of The zinc finger protein CLAMP promotes long-range chromatin interactions that mediate dosage compensation of the Drosophila male X-chromosome
Jordan, W. T., & Larschan, E. (2021) · Figshare · doi:10.6084/m9.figshare.14880935
Additional file 3 of Tandem CTCF sites function as insulators to balance spatial chromatin contacts and topological enhancer-promoter selection
Jia, Z., Li, J., Ge, X., Wu, Y., Guo, Y., & Wu, Q. (2020) · Figshare · doi:10.6084/m9.figshare.12211304
Additional file 4 of Quantifying the phase separation property of chromatin-associated proteins under physiological conditions using an anti-1,6-hexanediol index
Shi, M., You, K., Chen, T., Hou, C., Liang, Z., Liu, M., Wang, J., Wei, T., Qin, J., Chen, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.15184568
Additional file 4 of Contribution of variant subunits and associated factors to genome-wide distribution and dynamics of cohesin
Cuadrado, A., Giménez-Llorente, D., Koninck, M. D., Ruiz‐Torres, M., Kojic, A., Rodríguez-Corsino, M., & Losada, A. (2022) · Figshare · doi:10.6084/m9.figshare.21622971
A compendium of chromatin interaction maps in the Giant Panda genome
Liu, P., Zhang, J., Cai, K., Wang, J., Liu, H., Zhang, L., Xu, W. F., Liu, Y., Shen, F., Hou, R., et al. (2026) · Communications Biology · doi:10.1038/s42003-026-09522-0
Dynamic Reorganization of Developmental to Adult Genome Topology Controls the Initiation and Stabilization of the Human Muscle Stem Cell StatePreprint
Romero, M. A., Chien, P., Nicoletti, C., Liliom, H. L., Cox, G., Skuratovsky, E., Saleh, K. K., Gibbs, D., Gane, L., Hoang, D.-H., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.01.23.701436
HiCInterpolate: 4D Spatiotemporal Interpolation of Hi-C Data for Genome Architecture AnalysisPreprint
Chowdhury, H. M. A. M., & Oluwadare, O. (2026) · bioRxiv · doi:10.64898/2026.02.06.704438
Impaired cohesin loading disrupts pancreatic differentiation by Polycomb-driven chromatin rewiring and loop collapse
Yu, L., Liu, Y., Zhang, J., Huang, C., Feng, H., Zhao, X., Feng, S., Gong, W., & Lyu, X. (2026) · Communications Biology · doi:10.1038/s42003-026-09838-x
Chiron3D: an interpretable deep learning framework for understanding the DNA code of chromatin loopingPreprint
Hönig, S., Grover, A., Neri, P., Surdez, D., & Boeva, V. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.03.20.713211
Zebraﬁsh as a model to determine conserved gene regulatory mechanisms in vertebrates
Perez-Rico, Y. A. (2018) · theses.fr (ABES) · doi:10.70675/3b7b3dc7z2a68z4c2czbdefz57bf4abbe1cc
Étude du repliement tridimensionnel de la chromatine en domaines topologiques
Szabo, Q. (2019) · theses.fr (ABES) · doi:10.70675/9e85f517z331cz4cbbz9a3ez3466456f5839
Imaging the dynamic architecture of chromatin at the single cell level
Caccianini, L. (2019) · theses.fr (ABES) · doi:10.70675/e076dcc3z7b39z461fza4f2zed50f4384ae5
Organisation du génome par le complexe cohésine chez la levure Saccharomyces cerevisiae
Dauban, L. (2019) · theses.fr (ABES) · doi:10.70675/37a54d4bzd7f4z45d9zadf8z7f69bffedeba
Study of Polycomb target genes architecture in Drosophila using multiplexed optical microscopy
Gurgo, J. (2021) · theses.fr (ABES) · doi:10.70675/76851c7cze064z4a84zad9az9bff13a50553
Etude des éléments cis-régulateurs dans les pathologies associées au gène CFTR
Collobert, M. (2021) · theses.fr (ABES) · doi:10.70675/88d0128fzfaa1z423czbbe8z64062873c0a2
Analyse de données et modèle pour l'étude de la chromatine, des G-quadruplexes et de la réparation de l'ADN
Rocher, V. (2021) · theses.fr (ABES) · doi:10.70675/217850a9z3e46z4daazadc6zb1bce2ccfe54
Distinct conformational dynamics of human Cohesin SMC1A and SMC3 ATPase domains
Gomes, M. V. (2021) · theses.fr (ABES) · doi:10.70675/b0a37a44z9d12z495azbd91z8bc22047db45
An analytically tractable framework for transcription-extrusion coupling in chromatin loop formation.
Chen, L.-Y., Zhang, Z.-Q., Wang, Z.-H., Yu, X.-C., & Zhang, J.-J. (2026) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2026.112472
Igh nuclear speckle association promotes V(D)J recombination
Priyadarshi, S., Bhat, K. H., Drake, E. B., Naiyer, S., Farooq, H., Qu, X.-Y., Cantillo, J., Lei, X., Ermiş, E., Kleiman, E., et al. (2026) · Nature Communications · doi:10.1038/s41467-026-71577-8
“7B, C) 16,23,33 .”
Sequence design for three-dimensional genome folding using Akita Semifreddo
Smaruj, P. N., Kelley, D. R., & Fudenberg, G. (2026) · Genome biology · doi:10.64898/2026.04.28.721368
Cohesin variants associated with human reproductive and developmental disorders
Liu, Y., & Zhou, J. (2026) · Journal of genetics and genomics/Journal of Genetics and Genomics · doi:10.1016/j.jgg.2026.04.024
Transcription and cohesin direct domain boundary spatial positioning and are linked to Friedreich’s ataxia
Karnay, A. M., Linares-Saldana, R., Wang, Q., Gardner, Z., Liang, J. A., Santini, G. T., Haridhasapavalan, K. K., Nguyen, S. C., Hugelier, S., Shewale, B., et al. (2026) · Molecular Cell · doi:10.1016/j.molcel.2026.04.019 · Cited by 1
Convergent evolution of cluster-wide Hox gene regulation in BilateriaPreprint
Davies, B. E., Martín-Zamora, F. M., Frankish, T., Parey, E., Ellis, N., Maziak, N., Guynes, K., Zolotarov, G., Luo, Y., Marlétaz, F., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.05.18.725834
Beyond TADs and Compartments: Mesoscale Chromatin Folding and Its Dynamics in Transcriptional Regulation
Zuo, W., & Risca, V. I. (2026) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-020525-015843
Chromatin folding and function
Moreira-Ferreira, D. N., Silva, J. L., & de Oliveira, G. A. P. (2026) · Elsevier eBooks · doi:10.1016/b978-0-323-99507-8.00070-6
Accurate and efficient HiChIP interaction detection by modeling restriction enzyme cut site density as biological signal
Ding, W.-Y., Zhou, Y., Liu, Q., Guo, Y.-Y., Zhang, C., & Jin, S. (2026) · Briefings Bioinform. · doi:10.1093/bib/bbag292
RepliSage: a stochastic graph-based framework for 3D chromatin modeling across the cell cycle
Korsak, S., Banecki, K. H., Agarwal, A., Borkowska, J., Górski, P. J., Chai, H., Ruan, Y., Jodkowska, K., & Plewczyński, D. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag618 · Cited by 2
Self-citation
Asymmetric condensin loop extrusion is regulated by RPA-coated single-stranded DNA in quiescent cellsPreprint
Al-Kurdi, B., Hernandez, J. A., Lewis, A. H., Snyder, L. M., Markus, S. M., & Swygert, S. G. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.07.10.737861
Single nucleosome imaging reveals loose genome chromatin networks via active RNA polymerase II（一分子ヌクレオソームイメージングによって明らかになった活性化型RNAポリメラーゼIIを介したゲノムクロマチンの緩いネットワーク構造）
Nagashima, R. (n.d.) · Institutional Repositories DataBase (IRDB)
High-resolution chromatin mapping reveals that CTCF anchors meiotic loops to the chromosome axis
Cheng, G., Li, X., Brick, K., Alleva, B., Huang, M., Lam, K.-W. G., Pratto, F., & Camerini‐Otero, R. D. (2026) · Nature Communications · doi:10.1038/s41467-026-73644-6 · Cited by 7
Self-citation
Chiron3D: an interpretable deep learning framework for understanding the DNA code of chromatin looping
Hönig, S., Grover, A., Neri, P., Surdez, D., & Boeva, V. (2026) · Bioinformatics · doi:10.1093/bioinformatics/btag492
Roles of meiotic and mitotic cohesin in stem cell gene regulation and genome stability
Cho, S. M., Kim, Y. E., & Choi, E.-H. (2026) · Molecular Therapy — Nucleic Acids · doi:10.1016/j.omtn.2026.103100
Regulatory-scale stripe analysis from single-cell Hi-C with scStripePreprint
Li, L., Liu, Y., Zhang, H., Gao, W., Lin, Z., Liu, D., Pan, G., Yao, C., & Tian, D. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.09.16.751930
Unraveling the lexicon of complex mutational phenomena in human cancers
Yang, T., Bergstrom, E. N., Clarke, S., Imielinski, M. B., & Alexandrov, L. B. (2026) · Nature Cancer · doi:10.1038/s43018-026-01242-y
“The colocalization of pyrgo with super-enhancers suggests that these initiating breaks may represent topoisomerase lesions and replication–transcription collisions at highly active genes, known as early-replicating fragile sites 96,97 .”
Emerging epigenetic therapies
Kopinski, P. K., Magi, I. J., & Dalvin, L. A. (2026) · Elsevier eBooks · doi:10.1016/b978-0-443-19001-8.00026-x
On the physics of chromatin molecular complex: from phase-separation to membrane adsorption
Fontana, A., & Chiariello, A. M. (2026) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2026.1951961
Condensins-mediated mitotic folding persists as a structural echo in interphase chromatin
Yunusova, A., Tsoi, E., Smirnov, A. V., Шнайдер, Т. А., Pristyazhnuk, I., Gridina, M. M., Евгений, Ф. К., Kireev, I. I., Myakinkov, I., Nuriddinov, M., et al. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag1014 · Cited by 1
“Even for cohesin and condensins under normal conditions, loop extrusion activity in vivo is inferred from indirect evidence, such as the appearance of characteristic Hi-C patterns (e.g. stripes and fountains) [ 75 , 76 ] and from polymer modeling studies [ 77 ].”

Authors: Vian, L., Pękowska, A., Rao, S. S. P., Kieffer-Kwon, K.-R., Jung, S., Baranello, L., Huang, S.-C., El Khattabi, L., Dose, M., Pruett, N., Sanborn, A. L., Canela, A., Maman, Y., Oksanen, A., Resch, W., Li, X., Lee, B., Kovalchuk, A. L., Tang, Z., Nelson, S., Di Pierro, M., Cheng, R. R., Machol, I., St Hilaire, B. G., Durand, N. C., Shamim, M. S., Stamenova, E. K., Onuchic, J. N., Ruan, Y., Nussenzweig, A., Levens, D., Aiden, E. L., & Casellas, R.
Affiliations: National Institute of Arthritis and Musculoskeletal and Skin Diseases (US)
Baylor College of Medicine (US)
National Institutes of Health (US)
University of Connecticut (US)
Center for Theoretical Biological Physics (US)
Corresponding author: Aiden, Erez Lieberman
Casellas, Rafael
ORCID: Pękowska, Aleksandra
Rao, Suhas S.P.
Jung, Seolkyoung
Baranello, Laura
Dose, Marei
Pruett, Nathanael
Sanborn, Adrian L.
Maman, Yaakov
Resch, Wolfgang
Li, Xingwang
Lee, Byoungkoo
Kovalchuk, Alexander L.
Tang, Zhonghui
Cheng, Ryan R.
Machol, Ido
Durand, Neva C.
Shamim, Muhammad S.
Onuchic, José N.
Ruan, Yijun
Levens, David
Aiden, Erez Lieberman
Casellas, Rafael
Venue: Cell
Publisher: Elsevier BV
Published: 2018-05
Volume: 173
Issue: 5
Pages: 1165-1178.e20
ISSN: 0092-8674 (ISSN-L)
DOI: 10.1016/j.cell.2018.03.072
PMC: PMC6251724
OpenAlex: W2800216985
Cited by: 581
References: 57
Citations by year: 2026: 48 · 2025: 57 · 2024: 63 · 2023: 65 · 2022: 68 · 2021: 90 · 2020: 78 · 2019: 80 · 2018: 32
FWCI: 25.16
Type: journal article
Language: en
Update notices: erratum (2018-09-20)
Open access: bronze
doi.org
Licence: www.elsevier.com/tdm/userlicense/1.0/ (tdm)
www.elsevier.com/legal/tdmrep-license (tdm)
www.elsevier.com/open-access/userlicense/1.0/ (vor, 381 d)
Locations: Cell (publishedVersion)
UWA Profiles and Research Repository (UWA) (publishedVersion, cc-by-nc-nd)
PubMed (publishedVersion)
Europe PMC (PubMed Central) (acceptedVersion)
PubMed Central (acceptedVersion)
The Mouseion at the JAXlibrary (Jackson Laboratory) (submittedVersion)
Funders: NIAMS, NCI
NIAID
NIH Helix Systems
Paul and Daisy Soros Fellowship
Fannie and John Hertz Foundation Fellowship
Cornelia de Lange Syndrome Foundation
NIH New Innovator Award (1DP2OD008540-01)
NSF Physics Frontiers Center Award (PHY-1427654)
NHGRI Center for Excellence for Genomic Sciences (HG006193)
Welch Foundation (Q-1866, C-1792)
NVIDIA Research Center Award
IBM University Challenge Award
Google Research Award
Cancer Prevention Research Institute of Texas Scholar Award (R1304)
USDA Agriculture and Food Research Initiative Grant (2017-05741)
McNair Medical Institute Scholar Award
NIH Encyclopedia of DNA Elements Mapping Center Award (UM1HG009375)
President’s Early Career Award in Science and Engineering
NSF (PHY-1427654, CHE-1614101)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
Keywords: 3D genome organization, super-enhancers, chromosomal translocation, plasmacytoma, oncogene deregulation
MeSH terms: CCCTC-Binding Factor, Cohesins, Adenosine Triphosphate, Animals, B-Lymphocytes, Cell Line, Chromatin, Chromosomal Proteins, Non-Histone, Chromosomes, DNA-Binding Proteins, Humans, Nuclear Proteins, Phosphoproteins, Chondroitin Sulfate Proteoglycans, Transcription Factors, Transcription, Genetic, Mutagenesis, Genome, Cell Cycle Proteins, Mice

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review

The Energetics and Physiological Impact of Cohesin Extrusion

Abstract

Overview

Integrity signals

Verification

Claims the paper makes

Claims other papers make about this one

Citations

Cites

Cited by

Related

Metadata

Record

About these checks