Large-scale chromatin reorganization reactivates placenta-specific genes that drive cellular aging
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Title
Large-scale chromatin reorganization reactivates placenta-specific genes that drive cellular aging
Authors
Keywords
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Journal
DEVELOPMENTAL CELL
Volume -, Issue -, Pages -
Publisher
Elsevier BV
Online
2022-05-24
DOI
10.1016/j.devcel.2022.05.004
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Note: Only part of the references are listed.- DNA methylation signatures in Blood DNA of Hutchinson–Gilford Progeria syndrome
- (2022) Yosra Bejaoui et al. AGING CELL
- Cross-species metabolomic analysis identifies uridine as a potent regeneration promoting factor
- (2022) Zunpeng Liu et al. Cell Discovery
- HiCAR is a robust and sensitive method to analyze open-chromatin-associated genome organization
- (2022) Xiaolin Wei et al. MOLECULAR CELL
- Telomeres: history, health, and hallmarks of aging
- (2021) Deepavali Chakravarti et al. CELL
- Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation
- (2021) Naoki Kubo et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- A genome-wide CRISPR-based screen identifies KAT7 as a driver of cellular senescence
- (2021) Wei Wang et al. Science Translational Medicine
- Homotypic clustering of L1 and B1/Alu repeats compartmentalizes the 3D genome
- (2021) J. Yuyang Lu et al. CELL RESEARCH
- Loosening chromatin and dysregulated transcription: a perspective on cryptic transcription during mammalian aging
- (2021) Brenna S McCauley et al. Briefings in Functional Genomics
- The loss of heterochromatin is associated with multiscale three-dimensional genome reorganization and aberrant transcription during cellular senescence
- (2021) Xianglin Zhang et al. GENOME RESEARCH
- The role of retrotransposable elements in ageing and age-associated diseases
- (2021) Vera Gorbunova et al. NATURE
- In vivo partial reprogramming of myofibers promotes muscle regeneration by remodeling the stem cell niche
- (2021) Chao Wang et al. Nature Communications
- Stage-resolved Hi-C analyses reveal meiotic chromosome organizational features influencing homolog alignment
- (2021) Wu Zuo et al. Nature Communications
- Coolpup.py: versatile pile-up analysis of Hi-C data
- (2020) Ilya M Flyamer et al. BIOINFORMATICS
- A brief history of human disease genetics
- (2020) Melina Claussnitzer et al. NATURE
- The ageing epigenome and its rejuvenation
- (2020) Weiqi Zhang et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Aging Biomarkers: From Functional Tests to Multi‐Omics Approaches
- (2020) Ksenia S. Kudryashova et al. PROTEOMICS
- 4D Genome Rewiring during Oncogene-Induced and Replicative Senescence
- (2020) Satish Sati et al. MOLECULAR CELL
- pyGenomeTracks: reproducible plots for multivariate genomic data sets
- (2020) Lucille Lopez-Delisle et al. BIOINFORMATICS
- Stabilization of heterochromatin by CLOCK promotes stem cell rejuvenation and cartilage regeneration
- (2020) Chuqian Liang et al. CELL RESEARCH
- Genome-wide R-loop Landscapes during Cell Differentiation and Reprogramming
- (2020) Pengze Yan et al. Cell Reports
- SIRT7 antagonizes human stem cell aging as a heterochromatin stabilizer
- (2020) Shijia Bi et al. Protein & Cell
- The Self-Organizing Genome: Principles of Genome Architecture and Function
- (2020) Tom Misteli CELL
- Senescence-activated enhancer landscape orchestrates the senescence-associated secretory phenotype in murine fibroblasts
- (2020) Yiting Guan et al. NUCLEIC ACIDS RESEARCH
- METTL3 counteracts premature aging via m6A-dependent stabilization of MIS12 mRNA
- (2020) Zeming Wu et al. NUCLEIC ACIDS RESEARCH
- Targeting Senescent Cells for a Healthier Aging: Challenges and Opportunities
- (2020) Shuling Song et al. Advanced Science
- Hallmarks of Health
- (2020) Carlos López-Otín et al. CELL
- Reprogramming to recover youthful epigenetic information and restore vision
- (2020) Yuancheng Lu et al. NATURE
- Chromatin Tracing: Imaging 3D Genome and Nucleome
- (2020) Mengwei Hu et al. TRENDS IN CELL BIOLOGY
- FOXO3-Engineered Human ESC-Derived Vascular Cells Promote Vascular Protection and Regeneration
- (2019) Pengze Yan et al. Cell Stem Cell
- Roles of Telomere Biology in Cell Senescence, Replicative and Chronological Ageing
- (2019) Jun Liu et al. Cells
- Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression
- (2019) William W. Greenwald et al. Nature Communications
- Epigenetic changes during aging and their reprogramming potential
- (2019) Alice E. Kane et al. CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY
- How the Genome Folds: The Biophysics of Four-Dimensional Chromatin Organization
- (2019) Jyotsana J. Parmar et al. Annual Review of Biophysics
- Genome–lamina interactions are established de novo in the early mouse embryo
- (2019) Máté Borsos et al. NATURE
- DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors
- (2019) Christopher S. McGinnis et al. Cell Systems
- Cooler: scalable storage for Hi-C data and other genomically labeled arrays
- (2019) Nezar Abdennur et al. BIOINFORMATICS
- Two major mechanisms of chromosome organization
- (2019) Leonid A Mirny et al. CURRENT OPINION IN CELL BIOLOGY
- Transcriptome signature of cellular senescence
- (2019) Gabriel Casella et al. NUCLEIC ACIDS RESEARCH
- WashU Epigenome Browser update 2019
- (2019) Daofeng Li et al. NUCLEIC ACIDS RESEARCH
- Metascape provides a biologist-oriented resource for the analysis of systems-level datasets
- (2019) Yingyao Zhou et al. Nature Communications
- Stabilizing heterochromatin by DGCR8 alleviates senescence and osteoarthritis
- (2019) Liping Deng et al. Nature Communications
- Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells
- (2019) Yanxiao Zhang et al. NATURE GENETICS
- Polymer Modeling Predicts Chromosome Reorganization in Senescence
- (2019) Michael Chiang et al. Cell Reports
- Brain cell type–specific enhancer–promoter interactome maps and disease-risk association
- (2019) Alexi Nott et al. SCIENCE
- Revealing Hi-C subcompartments by imputing inter-chromosomal chromatin interactions
- (2019) Kyle Xiong et al. Nature Communications
- Undulating changes in human plasma proteome profiles across the lifespan
- (2019) Benoit Lehallier et al. NATURE MEDICINE
- Methods for mapping 3D chromosome architecture
- (2019) Rieke Kempfer et al. NATURE REVIEWS GENETICS
- OUP accepted manuscript
- (2018) BIOINFORMATICS
- HMGB2 Loss upon Senescence Entry Disrupts Genomic Organization and Induces CTCF Clustering across Cell Types
- (2018) Anne Zirkel et al. MOLECULAR CELL
- Integrating single-cell transcriptomic data across different conditions, technologies, and species
- (2018) Andrew Butler et al. NATURE BIOTECHNOLOGY
- DNA methylation loss in late-replicating domains is linked to mitotic cell division
- (2018) Wanding Zhou et al. NATURE GENETICS
- Nuclear Lamins: Thin Filaments with Major Functions
- (2018) Rebecca de Leeuw et al. TRENDS IN CELL BIOLOGY
- Hallmarks of Cellular Senescence
- (2018) Alejandra Hernandez-Segura et al. TRENDS IN CELL BIOLOGY
- Genome-wide DNA methylation analysis reveals that mouse chemical iPSCs have closer epigenetic features to mESCs than OSKM-integrated iPSCs
- (2018) Wangfang Ping et al. Cell Death & Disease
- The senescence-associated secretory phenotype is potentiated by feedforward regulatory mechanisms involving Zscan4 and TAK1
- (2018) Boyi Zhang et al. Nature Communications
- An intercross population study reveals genes associated with body size and plumage color in ducks
- (2018) Zhengkui Zhou et al. Nature Communications
- Regulation of Cellular Senescence by Polycomb Chromatin Modifiers through Distinct DNA Damage- and Histone Methylation-Dependent Pathways
- (2018) Takahiro Ito et al. Cell Reports
- Differential stem cell aging kinetics in Hutchinson-Gilford progeria syndrome and Werner syndrome
- (2018) Zeming Wu et al. Protein & Cell
- Transcription Elongation Can Affect Genome 3D Structure
- (2018) Sven Heinz et al. CELL
- Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis
- (2018) Bjørt K. Kragesteen et al. NATURE GENETICS
- The three-dimensional organization of the genome in cellular senescence and age-associated diseases
- (2018) Shane A. Evans et al. SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY
- Chemical screen identifies a geroprotective role of quercetin in premature aging
- (2018) Lingling Geng et al. Protein & Cell
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- (2018) Yaqiang Cao et al. GENOME RESEARCH
- Single-cell reconstruction of the early maternal–fetal interface in humans
- (2018) Roser Vento-Tormo et al. NATURE
- Organizational principles of 3D genome architecture
- (2018) M. Jordan Rowley et al. NATURE REVIEWS GENETICS
- Targeting SPINK1 in the damaged tumour microenvironment alleviates therapeutic resistance
- (2018) Fei Chen et al. Nature Communications
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- (2017) Christelle Lenain et al. GENOME RESEARCH
- Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation
- (2017) Kyong-Rim Kieffer-Kwon et al. MOLECULAR CELL
- Potential energy landscapes identify the information-theoretic nature of the epigenome
- (2017) Garrett Jenkinson et al. NATURE GENETICS
- Chromatin-state discovery and genome annotation with ChromHMM
- (2017) Jason Ernst et al. Nature Protocols
- Three-dimensional genome architecture and emerging technologies: looping in disease
- (2017) Arpit Mishra et al. Genome Medicine
- The decay of Redox-stress Response Capacity is a substantive characteristic of aging: Revising the redox theory of aging
- (2017) Jiao Meng et al. Redox Biology
- Epigenetic Mechanisms of Longevity and Aging
- (2016) Payel Sen et al. CELL
- Mitochondrial Stress Induces Chromatin Reorganization to Promote Longevity and UPR mt
- (2016) Ye Tian et al. CELL
- In Vivo Amelioration of Age-Associated Hallmarks by Partial Reprogramming
- (2016) Alejandro Ocampo et al. CELL
- The 3D Genome as Moderator of Chromosomal Communication
- (2016) Job Dekker et al. CELL
- SIRT6 safeguards human mesenchymal stem cells from oxidative stress by coactivating NRF2
- (2016) Huize Pan et al. CELL RESEARCH
- Histones and histone modifications in perinuclear chromatin anchoring: from yeast to man
- (2016) Jennifer C Harr et al. EMBO REPORTS
- Stem Cell Models: A Guide to Understand and Mitigate Aging?
- (2016) Regina Brunauer et al. GERONTOLOGY
- DNA double strand break repair, aging and the chromatin connection
- (2016) Vera Gorbunova et al. MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS
- Structural organization of the inactive X chromosome in the mouse
- (2016) Luca Giorgetti et al. NATURE
- Organization and function of the 3D genome
- (2016) Boyan Bonev et al. NATURE REVIEWS GENETICS
- deepTools2: a next generation web server for deep-sequencing data analysis
- (2016) Fidel Ramírez et al. NUCLEIC ACIDS RESEARCH
- Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments
- (2016) Neva C. Durand et al. Cell Systems
- Reorganization of chromosome architecture in replicative cellular senescence
- (2016) Steven W. Criscione et al. Science Advances
- diffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data
- (2015) Aaron T.L. Lun et al. BMC BIOINFORMATICS
- Genome-wide Maps of Nuclear Lamina Interactions in Single Human Cells
- (2015) Jop Kind et al. CELL
- Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions
- (2015) Darío G. Lupiáñez et al. CELL
- H3K36 methylation promotes longevity by enhancing transcriptional fidelity
- (2015) Payel Sen et al. GENES & DEVELOPMENT
- Chromatin architecture reorganization during stem cell differentiation
- (2015) Jesse R. Dixon et al. NATURE
- Integrative analysis of 111 reference human epigenomes
- (2015) Anshul Kundaje et al. NATURE
- Integrator mediates the biogenesis of enhancer RNAs
- (2015) Fan Lai et al. NATURE
- Condensin-driven remodelling of X chromosome topology during dosage compensation
- (2015) Emily Crane et al. NATURE
- Large-scale imputation of epigenomic datasets for systematic annotation of diverse human tissues
- (2015) Jason Ernst et al. NATURE BIOTECHNOLOGY
- StringTie enables improved reconstruction of a transcriptome from RNA-seq reads
- (2015) Mihaela Pertea et al. NATURE BIOTECHNOLOGY
- HISAT: a fast spliced aligner with low memory requirements
- (2015) Daehwan Kim et al. NATURE METHODS
- A Werner syndrome stem cell model unveils heterochromatin alterations as a driver of human aging
- (2015) W. Zhang et al. SCIENCE
- A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
- (2014) Suhas S.P. Rao et al. CELL
- Pregnancy-specific glycoproteins: complex gene families regulating maternal-fetal interactions
- (2014) Tom Moore et al. INTERNATIONAL JOURNAL OF DEVELOPMENTAL BIOLOGY
- Epigenetics of Aging and Aging-related Disease
- (2014) A. Brunet et al. JOURNALS OF GERONTOLOGY SERIES A-BIOLOGICAL SCIENCES AND MEDICAL SCIENCES
- Insulator function and topological domain border strength scale with architectural protein occupancy
- (2014) Kevin Van Bortle et al. GENOME BIOLOGY
- Genomes of replicatively senescent cells undergo global epigenetic changes leading to gene silencing and activation of transposable elements
- (2013) Marco De Cecco et al. AGING CELL
- featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
- (2013) Y. Liao et al. BIOINFORMATICS
- The Hallmarks of Aging
- (2013) Carlos López-Otín et al. CELL
- Single-Cell Dynamics of Genome-Nuclear Lamina Interactions
- (2013) Jop Kind et al. CELL
- Reversal of gene dysregulation in cultured cytotrophoblasts reveals possible causes of preeclampsia
- (2013) Yan Zhou et al. JOURNAL OF CLINICAL INVESTIGATION
- The Hierarchy of the 3D Genome
- (2013) Johan H. Gibcus et al. MOLECULAR CELL
- Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation
- (2013) Wenbo Li et al. NATURE
- STAR: ultrafast universal RNA-seq aligner
- (2012) Alexander Dobin et al. BIOINFORMATICS
- Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration
- (2012) H. Thorvaldsdottir et al. BRIEFINGS IN BIOINFORMATICS
- Aging, Rejuvenation, and Epigenetic Reprogramming: Resetting the Aging Clock
- (2012) Thomas A. Rando et al. CELL
- DNA Sequence-Dependent Compartmentalization and Silencing of Chromatin at the Nuclear Lamina
- (2012) Joseph M. Zullo et al. CELL
- Telomeres—structure, function, and regulation
- (2012) Weisi Lu et al. EXPERIMENTAL CELL RESEARCH
- Correlated alterations in genome organization, histone methylation, and DNA-lamin A/C interactions in Hutchinson-Gilford progeria syndrome
- (2012) R. P. McCord et al. GENOME RESEARCH
- Constitutive nuclear lamina-genome interactions are highly conserved and associated with A/T-rich sequence
- (2012) W. Meuleman et al. GENOME RESEARCH
- Differential oestrogen receptor binding is associated with clinical outcome in breast cancer
- (2012) Caryn S. Ross-Innes et al. NATURE
- Topological domains in mammalian genomes identified by analysis of chromatin interactions
- (2012) Jesse R. Dixon et al. NATURE
- ChromHMM: automating chromatin-state discovery and characterization
- (2012) Jason Ernst et al. NATURE METHODS
- NIH Image to ImageJ: 25 years of image analysis
- (2012) Caroline A Schneider et al. NATURE METHODS
- Fast gapped-read alignment with Bowtie 2
- (2012) Ben Langmead et al. NATURE METHODS
- Recapitulation of premature ageing with iPSCs from Hutchinson–Gilford progeria syndrome
- (2011) Guang-Hui Liu et al. NATURE
- Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA
- (2011) Dong Wang et al. NATURE
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- Molecular Maps of the Reorganization of Genome-Nuclear Lamina Interactions during Differentiation
- (2010) Daan Peric-Hupkes et al. MOLECULAR CELL
- Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
- (2010) Sven Heinz et al. MOLECULAR CELL
- Widespread transcription at neuronal activity-regulated enhancers
- (2010) Tae-Kyung Kim et al. NATURE
- A clustering approach for identification of enriched domains from histone modification ChIP-Seq data
- (2009) Chongzhi Zang et al. BIOINFORMATICS
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- BSMAP: whole genome bisulfite sequence MAPping program
- (2009) Yuanxin Xi et al. BMC BIOINFORMATICS
- Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
- (2009) E. Lieberman-Aiden et al. SCIENCE
- Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
- (2008) Lars Guelen et al. NATURE
- The telosome/shelterin complex and its functions
- (2008) Huawei Xin et al. GENOME BIOLOGY
- Model-based Analysis of ChIP-Seq (MACS)
- (2008) Yong Zhang et al. GENOME BIOLOGY
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