Cohesin Disrupts Polycomb-Dependent Chromosome Interactions in Embryonic Stem Cells

Rhodes, James D.P., Feldmann, Angelika, Hernández-Rodríguez, Benjamín, Díaz, Noelia, Brown, Jill M., Fursova, Nadezda A., Blackledge, Neil P., Prathapan, Praveen +8 more·2020·Cell Reports

Cited by (185)

Items 101–185 of 185

  1. Attraction and disruption: how loop extrusion and compartmentalisation shape the nuclear genome
    Mikhail D. Magnitov, Elzo de Wit · 2024 · Current Opinion in Genetics & Development
  2. CDK-Mediator and FBXL19 prime developmental genes for activation by promoting atypical regulatory interactions
    Angelika Feldmann, Emilia Dimitrova, Alexander Kenney, Anna Lastuvkova, Robert J. Klose · 2020 · Nucleic Acids Research
  3. Implications of Dosage Deficiencies in CTCF and Cohesin on Genome Organization, Gene Expression, and Human Neurodevelopment
    Christopher T. Cummings, M. Jordan Rowley · 2022 · Genes
  4. Know when to fold ‘em: Polycomb complexes in oncogenic 3D genome regulation
    Emma J. Doyle, Lluís Morey, Eric Conway · 2022 · Frontiers in Cell and Developmental Biology
  5. Dispersal of PRC1 condensates disrupts polycomb chromatin domains and loops
    Iain Williamson, Shelagh Boyle, Graeme R. Grimes, Elias T. Friman, Wendy A. Bickmore · 2023 · Life Science Alliance
  6. Cohesin as an essential disruptor of chromosome organization
    Adrian Peter Bird · 2025 · Molecular Cell
  7. Through the lens of phase separation: intrinsically unstructured protein and chromatin looping
    Ling Cai, Gang Greg Wang · 2023 · Nucleus
  8. Reprogramming of three-dimensional chromatin organization in the early embryo
    Alexandra Theis, Melissa M. Harrison · 2023 · Current Opinion in Structural Biology
  9. Visualising three-dimensional genome organisation in two dimensions
    Elizabeth Ing‐Simmons, Juan M. Vaquerizas · 2019 · Development
  10. 3D chromatin structures precede genome activation in Drosophila embryogenesis
    Gabriel A. Dolsten, Evan M. Cofer, Xinyang Bing, Benjamin J. Brack, Marcus Curlin, Chandra L. Theesfeld, Olga G. Troyanskaya, Michael Levine, Yuri Pritykin · 2025 · Cell Genomics
  11. The role of heterochromatin in 3D genome organization during preimplantation development
    Franka J. Rang, Jop Kind, Isabel Misteli Guerreiro · 2023 · Cell Reports
  12. Principles of long-range gene regulation
    Sanyami S. Zunjarrao, Maria Cristina Gambetta · 2025 · Current Opinion in Genetics & Development
  13. De Novo Polycomb Recruitment and Repressive Domain Formation
    Itzel Alejandra Hernández-Romero, Víctor Julián Valdés · 2022 · Epigenomes
  14. Cohesin controls X chromosome structure remodeling and X-reactivation during mouse iPSC-reprogramming
    Serena Generoso, Maria Victoria Neguembor, Elliot A. Hershberg, Ruslan I. Sadreyev, Kazuki Kurimoto, Yukihiro Yabuta, Raffaele Ricci, Pauline N. C. B. Audergon, Moritz Bauer, Mitinori Saitou et al. · 2023 · Proceedings of the National Academy of Sciences
  15. STAG2 mutations regulate 3D genome organization, chromatin loops, and Polycomb signaling in glioblastoma multiforme
    Wanying Xu, Jung-Sik Kim, Tianyi Yang, Alvin Ya, Lisa Sadzewicz, Luke J. Tallon, Brent T. Harris, Jann Nagina Sarkaria, Fulai Jin, Todd A. Waldman · 2024 · Journal of Biological Chemistry
  16. Postmitotic transcription and 3D regulation show locus-specific and differentiation-specific sensitivity to cohesin depletion
    UkJin Lee, Alejandra Laguillo-Diego, Daniela Magliulo, Wilfred Wong, Kritika Kasliwal, Zhangli Ni, Lingling Cheng, Jieru Li, Bobbie Pelham‐Webb, Alexandros Pertsinidis et al. · 2026 · Nature Genetics
  17. Regulation of the heterochromatin spreading reaction by trans- acting factors
    Bulut Hamali, Ahmed A. A. Amine, Bassem Al‐Sady · 2023 · Open Biology
  18. From 3D organization of the genome to gene expression
    Aviv Elimelech, Ramon Y. Birnbaum · 2020 · Current Opinion in Systems Biology
  19. Neuregulin1 Nuclear Signaling Influences Adult Neurogenesis and Regulates a Schizophrenia Susceptibility Gene Network within the Mouse Dentate Gyrus
    Prithviraj Rajebhosale, Alice Jone, Kory R. Johnson, Rohan Hofland, Camille Palarpalar, Samara Khan, Lorna W. Role, David A. Talmage · 2024 · Journal of Neuroscience
  20. Transient promoter interactions modulate developmental gene activation
    Sylvia Mahara, Sonja Prüssing, Valeriia Smialkovska, Samuel Krall, Susannah Holliman, Belinda Blum, Victoria Dachtler, Helena Borgers, Etienne Sollier, Christoph Plass et al. · 2024 · Molecular Cell
  21. PRC1 and PRC2 proximal interactome in mouse embryonic stem cells
    Dick W. Zijlmans, Suzan Stelloo, Danique J. C. Bax, Yavor Yordanov, Pien Toebosch, Maximilian W.D. Raas, Sigrid Verhelst, Lieke A. Lamers, Marijke P. A. Baltissen, Pascal W.T.C. Jansen et al. · 2025 · Cell Reports
  22. Multi-layered transcriptional control of cranial neural crest development
    Ivan Candido-Ferreira, Martyna Lukoseviciute, Tatjana Sauka‐Spengler · 2022 · Seminars in Cell and Developmental Biology
  23. The Cohesin Complex and Its Interplay with Non-Coding RNAs
    Merve Kuru-Schors, Monika Hämmerle, Tony Gutschner · 2021 · Non-Coding RNA
  24. AP-2δ Is the Most Relevant Target of AP-2 Family-Focused Cancer Therapy and Affects Genome Organization
    Damian Kołat, Lin-Yong Zhao, Mateusz Kciuk, Elżbieta Płuciennik, Żaneta Kałuzińska‐Kołat · 2022 · Cells
  25. The first embryo, the origin of cancer and animal phylogeny. I. A presentation of the neoplastic process and its connection with cell fusion and germline formation
    Jaime Cofré, Kay Saalfeld · 2023 · Frontiers in Cell and Developmental Biology
  26. Cohesin mutations and chromatin changes in cancer
    Ariel D. Swett, Zuzana Tóthová · 2025 · International Journal of Cancer
  27. The Functions and Mechanisms of the Cohesin Complex in Regulating the Fate Determinations of Stem Cells
    J.-W. Xiang, Yihan Lai, Zuping He · 2025 · Research
  28. The mitotic STAG3–cohesin complex shapes male germline nucleome
    Masahiro Nagano, Bo Hu, Kosuke Ogata, Fumiya Umemura, Yukiko Ishikura, Shinnosuke Suzuki, Christos C. Katsifis, Masanori Yoshinaga, Gabriele Litos, Kota Nagasaka et al. · 2025 · Nature Structural & Molecular Biology
  29. A Tremendous Reorganization Journey for the 3D Chromatin Structure from Gametes to Embryos
    Zhenping Chen, Xuepeng Chen · 2022 · Genes
  30. Bystander activation across a TAD boundary supports a cohesin-dependent transcription cluster model for enhancer function
    Iain Williamson, Katy A Graham, Matthew Woolf, Hannes Becher, Robert E. Hill, Wendy A. Bickmore, Laura A. Lettice · 2025 · Genes & Development
  31. PHF19 drives the formation of PRC2 clusters to enhance motility in TNBC cells
    Nina Pelzer, Teodora Lukic, Wanwan Ge, Nina Schnabel, Peter Teufel, Monilola A. Olayioye, Zeynab Najafova, Cristiana Lungu · 2025 · Cell Reports
  32. Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation
    Shoin Tei, Masashige Bando, Toyonori Sakata, Atsunori Yoshimura, Toyoaki Natsume, Masato T. Kanemaki, T. Sutani, K. Shirahige · 2026 · bioRxiv
  33. cPRC1.2 and CTCF-mediated transition from poised to active chromatin loops at bivalent genes
    Aflah Hanafiah, Zhuangzhuang Geng, Tingting Liu, Yen Teng Tai, Wenjie Cai, Q Y Wang, Neil Christensen, Yan Liu, Feng Yue, Zhonghua Gao · 2026 · EMBO Reports
  34. Coolpup.py – a versatile tool to perform pile-up analysis of Hi-C data
    Ilya M. Flyamer, Robert Scott Illingworth, Wendy A. Bickmore · 2019 · Figshare
  35. Chromatin folding by the Polycomb group proteins and its elusive role in epigenetic repression
    Ludvig Lizana, Yuri B. Schwartz · 2025 · FEBS Journal
  36. Position Effect Variegation: Role of the Local Chromatin Context in Gene Expression Regulation
    Lidiya V. Boldyreva, Evgeniya N. Andreyeva, Alexey V. Pindyurin · 2022 · Molecular Biology
  37. The first embryo, the origin of cancer and animal phylogeny. II. The neoplastic process as an evolutionary engine
    Jaime Cofré · 2023 · Journal of Biosciences
  38. The establishment of the 3D genome structure during zygotic genome activation
    Anastasiia L. Sivkina, Olga V. Iarovaia, Sergey V. Razin, Sergey V. Ulianov · 2025 · Annals of the New York Academy of Sciences
  39. Acute Protein Depletion Strategies to Functionally Dissect the 3D Genome
    Michela Maresca, Ning Qing Liu, Elzo de Wit · 2022 · Methods in molecular biology
  40. Recent advances in chromosome capture techniques unraveling 3D genome architecture in germ cells, health, and disease
    Nuruliarizki Shinta Pandupuspitasari, Faheem Ahmed Khan, Chunjie Huang, Azhar Ali, Muhammad Rizwan Yousaf, Farwa Shakeel, Ezi Masdia Putri, Windu Negara, Anis Muktiani, Bambang Waluyo Hadi Eko Prasetiyono et al. · 2023 · Functional & Integrative Genomics
  41. Setting new boundaries with transcription and CTCF
    Erika C. Anderson, Elphège Pierre Nora · 2020 · Nature Genetics
  42. The role of insulators and transcription in 3D chromatin organisation of flies
    Keerthi T. Chathoth, Liudmila A Mikheeva, Gilles Crevel, Jareth C. Wolfe, Ioni Hunter, Saskia Beckett-Doyle, Sue Cotterill, Hongsheng Dai, Andrew Harrison, Nicolae Radu Zabet · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
  43. Engineering the Link: From Genome Interaction Maps to Functional Insight
    Frido Petersen, Simon Westermann, Valeriia Smialkovska, Jan Mathony, Angelika Feldmann, Dominik Niopek · 2025 · Advanced Biology
  44. Spatial Chromatin Organization Across the Cell Cycle: Insights from Auxin-Inducible Protein Depletion
    Artem R. Nurislamov, Anastasia Yunusova · 2025 · Cells
  45. A genetic screen for modifiers of cohesin clustering identifies regulators of genome folding
    Wonho Kim, Daniel S. Park, Son C. Nguyen, Rachel Yang, Eric F. Joyce, Rajan Jain · 2026 · Science Advances
  46. Polycomb-mediated 3D chromatin interactions in gene regulation
    Sumin Kim, Miles K. Huseyin, Anders S. Hansen · 2026 · Current Opinion in Genetics & Development
  47. 2-Cell-like Cells: An Avenue for Improving SCNT Efficiency
    Bo Fu, Hong Ma, Di Liu · 2022 · Biomolecules
  48. Loop Extrusion Machinery Impairments in Models and Disease
    A. S. Ryzhkova, Ekaterina Maltseva, Нариман Рашитович Баттулин, Evelyn Kabirova · 2024 · Cells
  49. Enhancer‐dependent gene regulation in space, time, and malignancies
    Belinda Blum, Victoria Dachtler, Angelika Feldmann · 2025 · International Journal of Cancer
  50. Cohesin regulates promoter-proximal pausing of RNA Polymerase II by limiting recruitment of super elongation complex
    Shoin Tei, Toyonori Sakata, Atsunori Yoshimura, Toyoaki Natsume, Masato T. Kanemaki, Masashige Bando, Katsuhiko Shirahige · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  51. STAG2 regulates polycomb and differentiation in urothelial precursors and bladder cancer
    Youngrok Park, Wanying Xu, Tianyi Yang, Victoria K. Hill, Xiaoyuan He, Lisa Sadzewicz, Luke J. Tallon, Jung-Sik Kim, Fulai Jin, Todd A. Waldman · 2025 · PLoS ONE
  52. The first embryo, the origin of cancer and animal phylogeny. V. Cancer stem cells as the unifying biomechanical principle between embryology and oncology
    Jaime Cofré · 2024 · Mechanobiology in Medicine
  53. Differential regulation of mesoscale chromosome conformations in osteoblasts and osteosarcoma
    Madhoolika Bisht, Yu-Chieh Chung, Siou-Luan He, Sydney Willey, Benjamin D. Sunkel, Meng Wang, Benjamin Z. Stanton, Li‐Chun Tu · 2025 · Genome biology
  54. An SMN2 splicing-correcting antisense oligonucleotide promotes gene looping and transcription activation
    José N. Stigliano, Emilia Haberfeld, Luciano E. Marasco, Ana Fiszbein, Nick J. Proudfoot, Alberto Rodolfo Kornblihtt · 2026 · Molecular Cell
  55. RNAPII and DNA supercoiling regulate cohesin engagement in neurons
    Morgan Crewe, Ilse Delint‐Ramírez, Omar Halawa, Lance Heady, Ram Madabhushi · 2026 · Nucleic Acids Research
  56. Retrieving high-resolution chromatin interactions and decoding enhancer regulatory potential in silico
    Eduardo Gade Gusmao, Athanasia Mizi, Lilija Brant, Argyris Papantonis · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
  57. Chromatin reorganization, signaling responses and non-coding RNA regulators in homeostasis and senescence
    Nataša Josipović · 2022
  58. Exploring the roles of RNAPII in genome organization
    Shu Zhang · 2022
  59. Dependency of 3D chromatin folding on RNA polymerase II at different cell cycle stages
    Nadine Übelmesser · 2023
  60. Resolving chromatin interaction and transcriptional networks in mammalian nuclei
    Yajie Zhu · 2024
  61. Bystander activation across a TAD boundary supports a cohesin-dependent hub-model for enhancer function
    Iain Williamson, Katy A Graham, Hannes Becher, Robert E. Hill, Wendy A. Bickmore, Laura A. Lettice · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
  62. Is Enhancer Function Driven by Protein–Protein Interactions? From Bacteria to Leukemia
    Nicholas T. Crump, Thomas A. Milne · 2025 · BioEssays
  63. Poising and connectivity of emergent human developmental enhancers in the transition from naive to primed pluripotency
    Marina Charlotte Nocente, Monica Della Rosa, Andrew A. Malcolm, George Lister, Isabella Savin, Helen F. Ray-Jones, Sarah Elderkin, Ruilin Tian, Simon Andrews, Adam Bendall et al. · 2026 · Cell Reports
  64. Pan-cancer 3D genomic analysis revealed extremely long Polycomb loops as the biomarker for sensitivity to Polycomb inhibition
    Sean Moran, Zhong Fan, Miriam Zanovello, Fan Feng, Xue Qing David Wang, Chao Lü, Jie Liu, Xiaotian Zhang · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  65. Cohesin constrains histone modification-driven chromatin dynamics
    Takeshi Fujino, Yotaro Ochi, Susumu Goyama, Yuko Shimosato, Shiori Shikata, Ayana Kon, Takuto Mori, Toyonori Sakata, Hiroaki Honda, Haruhiko Koseki et al. · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
  66. Additional file 4 of RAD21 is the core subunit of the cohesin complex involved in directing genome organization
    Yuao Sun, Xu, Xin, Zhao, Wenxue, Zhang, Yu, Chen, Keyang, Li, Yongzheng, Wang, Xiaotian, Zhang, Mengling, Boxin Xue, Yu, Wanting et al. · 2024 · Figshare
  67. Additional file 2 of CTCF and cohesin promote focal detachment of DNA from the nuclear lamina
    Tom van Schaik, Ning Qing Liu, Stefano Giustino Manzo, Daan Peric‐Hupkes, Elzo de Wit, Bas van Steensel · 2022 · Figshare
  68. Additional file 2 of RAD21 is the core subunit of the cohesin complex involved in directing genome organization
    Yuao Sun, Xu, Xin, Wenxue Zhao, Zhang, Yu, Chen, Keyang, Li, Yongzheng, Wang, Xiaotian, Zhang, Mengling, Boxin Xue, Yu, Wanting et al. · 2024 · Figshare
  69. Additional file 1 of FAN-C: a feature-rich framework for the analysis and visualisation of chromosome conformation capture data
    Kai Kruse, Hug, Clemens B., Juan M. Vaquerizas · 2020 · Figshare
  70. Additional file 3 of CTCF and cohesin promote focal detachment of DNA from the nuclear lamina
    Tom van Schaik, Ning Qing Liu, Stefano Giustino Manzo, Daan Peric‐Hupkes, Elzo de Wit, Bas van Steensel · 2022 · Figshare
  71. Additional file 1 of CTCF and cohesin promote focal detachment of DNA from the nuclear lamina
    Tom van Schaik, Ning Qing Liu, Stefano Giustino Manzo, Daan Peric‐Hupkes, Elzo de Wit, Bas van Steensel · 2022 · Figshare
  72. Additional file 3 of RAD21 is the core subunit of the cohesin complex involved in directing genome organization
    Yuao Sun, Xu, Xin, Wenxue Zhao, Zhang, Yu, Chen, Keyang, Li, Yongzheng, Wang, Xiaotian, Zhang, Mengling, Boxin Xue, Yu, Wanting et al. · 2024 · Figshare
  73. Additional file 1 of RAD21 is the core subunit of the cohesin complex involved in directing genome organization
    Yuao Sun, Xu, Xin, Wenxue Zhao, Zhang, Yu, Chen, Keyang, Li, Yongzheng, Wang, Xiaotian, Zhang, Mengling, Boxin Xue, Yu, Wanting et al. · 2024 · Figshare
  74. Chromosome organization by Structural Maintenance of Chromosomes complexes in C. elegans
    Sinem Erkan, Kalyan Ghadage, Peter Meister · 2026 · Current Opinion in Genetics & Development
  75. LoopBin – a VaDE-based neural network for chromatin loop classification
    Yajie Zhu, Argyris Papantonis, Mariano Barbieri · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  76. Impaired cohesin loading disrupts pancreatic differentiation by Polycomb-driven chromatin rewiring and loop collapse
    Long-Tao Yu, Yayu Liu, Jie Zhang, Chaofan Huang, Huanyu Feng, XueXue Zhao, Shiyu Feng, Wenqian Gong, Xiaowen Lyu · 2026 · Communications Biology
  77. Importance of PRE interactions for the regulation of polycomb domains in Drosophila melanogaster development
    Sandrine Denaud · 2022
  78. Polycomb chromatin topology enables long-range enhancer recruitment during craniofacial development
    Yousra Ben Zouari, Onkar Joshi, Adwait Salvi, Sandra Kessler, Sébastien Ducret, Fiona Ross, Sjoerd J.B. Holwerda, Nathalie Vilain, Soujanya Mamilla-Sanivaram, Sebastien Smallwood et al. · 2026 · Nature Communications
  79. STAG2 Maintains Chromatin Compartmentalization and Represses Regulatory Element Contact to Promote Oncogenic Signaling in Muscle Invasive Bladder Cancer
    Sarah R. Athans, Jiaojiao Zhou, Xiaozhuo Liu, Eduardo Cortes Gomez, Bhavisha Doshi, Justine J. Jacobi, Aimee B. Stablewski, Sofía Lage-Vickers, Pablo Sanchis, Pía Valacco et al. · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  80. Cross-platform Hi-C meta-analysis identifies functional insulators that actively block enhancer-promoter interactions
    Jian Cui, Wanying Xu, Xiaodong Lang, Shanshan Zhang, Leina Lu, Xiaoxiao Liu, Yan Li, Fulai Jin · 2026 · Nature Communications
  81. Polycomb establishes TAD-scale H3K27me3 mega-domains to safeguard neuronal identity
    Natsumi Yamada, 知佳 市原, Kazunori Hojo, Koji Oishi, Hiroki Sugishita, Yukiko Gotoh · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  82. Roles of meiotic and mitotic cohesin in stem cell gene regulation and genome stability
    Min-Cho Soo, Young Eun Kim, Eui-Hwan Choi · 2026 · Molecular Therapy: Nucleic Acids
  83. Developmentally programmed loss of long-range Polycomb interactions is regulated by cohesin
    Valeriia Smialkovska, Ann‐Kristin Dicke, Angelika Feldmann · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
  84. What Is the Role of Cohesin in Transcription Regulation?
    Sergey V. Ulianov, Sergey V. Razin · 2026 · Biochemistry (Moscow)
  85. Dissection of Polycomb complexes reveals canonical PRC1-independent 3D chromatin interactions
    Miles K. Huseyin, Sumin Kim, Jack Toppen, Neil P. Blackledge, Anders S. Hansen · 2026 · bioRxiv (Cold Spring Harbor Laboratory)