4D Genome Rewiring during Oncogene-Induced and Replicative Senescence
Sati, Satish, Bonev, Boyan, Szabo, Quentin, Jost, Daniel, Bensadoun, Paul, Serra, Francois, Loubiere, Vincent, Papadopoulos, Giorgio Lucio +13 more·2020·Molecular Cell
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- Dynamic enhancer interactome promotes senescence and agingLu Wang, Gregory Donahue, Chen Zhang, Aaron P. Havas, Xue Lei, Caiyue Xu, Wenliang Wang, Golnaz Vahedi, Peter D. Adams, Shelley L. Berger · 2023 · bioRxiv (Cold Spring Harbor Laboratory)
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- Four-Dimensional Chromosome Structure PredictionMax R. Highsmith, Jianlin Jack Cheng · 2021 · International Journal of Molecular Sciences
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- Dynamics and Pathways of Chromosome Structural Organizations during Cell TransdifferentiationXiakun Chu, Jin Wang · 2021 · JACS Au
- A Scaffolding Element Rewires Local 3D Chromatin Architecture During DifferentiationIvana Jerković, Marco Di Stefano, Hadrien Reboul, Michael-Florian Szalay, Davide Normanno, Giorgio Lucio Papadopoulos, Frédéric Bantignies, Giacomo Cavalli · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
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- The potential for senotherapy as a novel approach to extend life quality in veterinary medicineZoë J. Williams, Lyndah Chow, Steven Dow, Lynn Marie Pezzanite · 2024 · Frontiers in Veterinary Science
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- Mosaic Regulation of Stress Pathways Underlies Senescent Cell HeterogeneityRoberto A. Avelar, Thomas Duffield, Cyril Lagger, Nikita Krstevska, Marian Breuer, João Pedro de Magalhães · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
- Senescence-Associated Chromatin Rewiring Promotes Inflammation and Transposable Element ActivationAudrey Dalgarno, Shane A. Evans, Maxfield M. G. Kelsey, Thomas A. Nuñez, Azucena V. Rocha, Kelly Clark, John M. Sedivy, Nicola Neretti · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
- Mechanisms and interventions of epigenetic agingQingqing Chu, Yihang Li, Zeming Wu, Jing Tao Qu, Guang‐Hui Liu · 2026 · Cell chemical biology
- Senescent cells cluster CTCF on nuclear speckles to instruct an alternative splicing programSpiros Palikyras, Vassiliki Varamogianni‐Mamatsi, Yajie Zhu, Athanasia Mizi, Shyam Ramasamy, Jonas Viken Grini, Isabel Liebermann, Athanasia Stavropoulou, Andrés Penagos‐Puig, Tuba Sena Ogurlu-Tank et al. · 2026 · Nature Aging
- Integrated promoter-capture Hi-C and Hi-C analysis reveals fine-tuned regulation of the 3D chromatin architecture in colorectal cancerAjay Kumar Saw, Ayush Madhok, Anupam Bhattacharya, Soumyadeep Nandi, Sanjeev Galande · 2025 · Frontiers in Genetics
- RobusTAD: reference panel based annotation of nested topologically associating domainsYanlin Zhang, Rola Dali, Mathieu Blanchette · 2025 · Genome biology
- Spatial Reorganization of Chromatin Architecture Shapes the Expression Phenotype of Therapy‐Induced Senescent CellsGe Zhang, Wen Zhang, Changxu Wang, Zhirui Jiang, Qixia Xu, Haipeng Li, James L. Kirkland, Gang Wei, Yu Sun · 2026 · Aging Cell
- Werner syndrome RECQ helicase participates in and directs maintenance of the protein complexes of constitutive heterochromatin in proliferating human cellsPavlo Lazarchuk, Matthew Manh Nguyen, Crina Curca, Maria N. Pavlova, Junko Oshima, Julia M. Sidorova · 2024 · Aging
- 3D genomic alterations during development of skeletal muscle in chickenZhongxian Xu, Tao Wang, Wei Zhu, Maosen Yang, Dong Leng, Ziyu Li, Jiaman Zhang, Pengliang Liu, Zhoulin Wu, Mengnan He et al. · 2024 · Journal of Integrative Agriculture
- Suv39h-catalysed H3K9me3 is critical for euchromatic genome organisation and the maintenance of gene transcriptionChristine R. Keenan, Hannah D. Coughlan, Nadia Iannarella, Timothy M. Johanson, Wing Fuk Chan, Alexandra L. Garnham, Gordon K. Smyth, Rhys S. Allan · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
- Strong interactions between highly dynamic lamina-associated domains and the nuclear envelope stabilize the 3D architecture of Drosophila interphase chromatinIgor S. Tolokh, Nicholas Allen Kinney, Igor V. Sharakhov, Alexey V. Onufriev · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
- Senescent cells cluster CTCF on nuclear speckles to sustain their splicing programSpiros Palikyras, Vassiliki Varamogianni‐Mamatsi, Yajie Zhu, Shyam Ramasamy, Athanasia Mizi, Isabel Liebermann, Athanasia Stavropoulou, Ioanna Papadionysiou, Deniz Bartsch, Yulia Kargapolova et al. · 2024 · bioRxiv (Cold Spring Harbor Laboratory)
- Nuclear Translocation of S100A9 Triggers Senescence of Human Amnion Fibroblasts by De‐Repressing LINE1 Via Heterochromatin Erosion at ParturitionFan Zhang, Meng‐Die Li, Fan Pan, Wen‐Jia Lei, Yang Xi, Li‐Jun Ling, Leslie Myatt, Kang Sun, Wangsheng Wang · 2025 · Advanced Science
- Epigenetic dynamics of cellular senescence: From mechanistic insights to precision senotherapyXiangjun Hu, Weijing Lai, Mengyuan Liu, Bo Wang · 2026 · Chinese Medical Journal
- Seeing is believing: the impact of RB on nuclear organizationBadri Krishnan, Ioannis Sanidas, Nicholas J. Dyson · 2023 · Cell Cycle
- Effect of curcumin on cardiometabolic diseases in the elderly: A systematic review of randomized controlled trialsFatemeh Rajabinasab, Faeze Sadat Ahmadi Tabatabaei, Ali Kheirandish, Pooya Hajimirzaei, Sajad Abolfazli, Ademuyiwa S. Aromolaran, Tannaz Jamialahmadi, Amirhossein Sahebkar · 2025 · Ageing Research Reviews
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- HiCRes: a computational method to estimate and predict the resolution of HiC librariesClaire Marchal, Nivedita Singh, Ximena Corso‐Díaz, Anand Swaroop · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
- Oligopaint FISH to Study Chromosomal Architecture and Structural VariationsHadrien Reboul, Davide Normanno, Quentin Szabo, Ivana Jerković, Giacomo Cavalli, Frédéric Bantignies · 2025 · Methods in molecular biology
- Coordinated control of genome–nuclear lamina interactions by topoisomerase 2B and lamin B receptorT. van Schaik, Mikhail D. Magnitov, M. D. de Haas, Jérémie Breda, Elzo de Wit, A. G. Manjón, René H. Medema, H. Gothe, Vassilis Roukos, Adam Buckle et al. · 2024 · bioRxiv
- RPA hyperphosphorylation hinders the resolution of R-loops and G-quadruplex-associated R-loops during RAS-driven senescenceYlenia Cortolezzis, Vanessa Tolotto, Luca Triboli, Raffaella Picco, Miguel Angel Soler, Sara Fortuna, Giacomo Bettin, Francesca D’Este, Enrico Carlassara, Gabriele Magris et al. · 2026 · Nucleic Acids Research
- SenFlag gene signature identifies senescent cells in mouse and human tissues through a conserved core transcriptional programAbdullah Altulea, Sebastian J. Mackedenski, Jamil Nehme, Marco Demaria · 2026 · The EMBO Journal
- [Role of Liquid-Liquid Phase Separation in Cell Fate Transition and Diseases].Yilong Chen, Xiaoru Ling, Haopeng Yu, Junjun Ding · 2023 · PubMed Central
- essHi-C: essential component analysis of Hi-C matricesStefano Franzini, Marco Di Stefano, Cristian Micheletti · 2021 · Bioinformatics
- Extensive Chromatin Structure-Function Association Revealed by Accurate Compartmentalization CharacterizationZi Wen, Weihan Zhang, Quan Zhong, Jinsheng Xu, Chunhui Hou, Zhaohui Steve Qin, Li Li · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
- Multiscale 3D Genome Reorganization during Skeletal Muscle Stem Cell Lineage Progression and Muscle AgingHuating Wang, Yu Fen Zhao, Yingzhe Ding, Liangqiang He, Yuying Li, Xiaona Chen, Hao Sun · 2021 · Research Square
- Faculty Opinions recommendation of Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer.Michael Cole, Evelien Schaafsma · 2020 · Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature
- Chromatin reorganization, signaling responses and non-coding RNA regulators in homeostasis and senescenceNataša Josipović · 2022
- Re-Evaluation of Different Senescent Hallmarks in Therapy-Induced Senescence of Oral Squamous Cell CarcinomaQiuhan Zheng, Jun Tan, Tao Wang, Jianghai Chen, Jianbin Gong, Kan Li, Yujie Liang · 2022 · SSRN Electronic Journal
- Combined promoter-capture Hi-C and Hi-C analysis reveals a fine-tuned regulation of 3D chromatin architecture in colorectal cancerAjay Kumar Saw, Ayush Madhok, Anupam Bhattacharya, Soumyadeep Nandi, Sanjeev Galande · 2022 · bioRxiv (Cold Spring Harbor Laboratory)
- Reorganization of the Senescent Genome via Spatial CTCF ClusteringSpiros Palikyras · 2023
- Dependency of 3D chromatin folding on RNA polymerase II at different cell cycle stagesNadine Übelmesser · 2023
- A practical guide for essential analyses of Hi-C dataYu Liu, Erica M. Hildebrand · 2024 · Elsevier eBooks
- Unveiling the mystery of nuclear RNA homeostasisShan Lin, Ling‐Ling Chen · 2024 · Cell stem cell
- Resolving chromatin interaction and transcriptional networks in mammalian nucleiYajie Zhu · 2024
- Insulin signalling-associated cell fate promotes neoplastic invasiveness in non-functioning pituitary gonadotroph adenoma via cis-regulatory elements activationHongwei Liu, Zhouyang Pan, Qi Yang, Luohuan Dai, Wei Zhang, Yihao Zhang, Hongyi Liu, Yueshuo Li, Kexuan Zhong, Jia Gu et al. · 2025 · British Journal of Cancer
- Emerging roles of High Mobility Group A (HMGA) family members in nuclear organizationManpreet Singh, Thatchawan Thanasupawat, Thomas C. Klonisch, Sabine Hombach‐Klonisch · 2025 · Biochemistry and Cell Biology
- Additional file 1 of Pentad: a tool for distance-dependent analysis of Hi-C interactions within and between chromatin compartmentsMikhail D. Magnitov, Azat K Garaev, Alexander Tyakht, Sergey V. Ulianov, Sergey V. Razin · 2022 · Figshare
- A compendium of chromatin interaction maps in the Giant Panda genomePengliang Liu, Jiaman Zhang, Kailai Cai, Juan Wang, Hong Liu, Liang Zhang, Wei Feng Xu, Yuliang Liu, Fujun Shen, Rong Hou et al. · 2026 · Communications Biology
- Comprehensive profiling of circRNAs reveals stimulus-specific networks and core regulators of cellular senescenceMingxia Ge, Zimo Liu, Xiaoxiao Zhao, Xiaodong Zhan, Shan Jiang · 2026 · PLoS ONE
- Role of SWI/SNF chromatin-remodeling complexes in tumorigenesis : insights in dedifferentiated melanoma and renal medullary carcinomaBujamin Vokshi · 2020
- Amélioration de la régénération cellulaire et tissulaire au cours du vieillissementQuentin Alle · 2020 · theses.fr (ABES)
- Rôles de très longs ARNs non codants intergéniques dans la réorganisation 3D du génome au cours de la sénescenceJulien Ouvrard · 2023 · theses.fr (ABES)
- How Somatic Mutations cause Aging without Causing AgingAlexander Martin Wolf · 2026 · SSRN Electronic Journal
- Painters in Chromatin : Theoretical models for 3D propagation of epigenetic marksAmith Z. Abdulla · 2022
- Le rôle de l'histone méthyltransférase SETD2 dans la sénescenceMahdia Abdi-Galab · 2023 · theses.fr (ABES)
- The impact of 3D chromatin remodeling on cellular senescence and agingWeicong Chen, Qiang Zhan, Feng Xiao, Zhenyu Ju, Zhiyang Chen · 2025 · Aging Research
- Fate Bifurcation of Cellular Senescence: Dynamic Regulation from Tumor Suppression to Recurrence RiskXiuhong Chen, Huilong Liu, Qipeng Shu, Yuntao Tang, Jia Zhang, Weizhe Yu, Shangze Li · 2026 · Cells
- Chromatin topology and distal elements underlie divergent cell-type-specific regulation of 9p21 locus cell cycle genesElena Torlai Triglia, Tyler E. Miller, Neva C. Durand, Kyung Lock Kim, Salvador Casaní-Galdón, Joshua D’Antonio, Nauman Javed, Alessandro Paz Hernandez, Ayush Raman, Anna J. Cruz et al. · 2026 · Cell Genomics
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