- Home
- Publications
- Publication Search
- Publication Details
Title
Non-coding RNAs in chromatin folding and nuclear organization
Authors
Keywords
-
Journal
CELLULAR AND MOLECULAR LIFE SCIENCES
Volume -, Issue -, Pages -
Publisher
Springer Science and Business Media LLC
Online
2021-06-12
DOI
10.1007/s00018-021-03876-w
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- RNA Droplets
- (2020) Kevin Rhine et al. Annual Review of Biophysics
- The Interchromatin Compartment Participates in the Structural and Functional Organization of the Cell Nucleus
- (2020) Thomas Cremer et al. BIOESSAYS
- Mouse Heterochromatin Adopts Digital Compaction States without Showing Hallmarks of HP1-Driven Liquid-Liquid Phase Separation
- (2020) Fabian Erdel et al. MOLECULAR CELL
- R-Loop Mediated trans Action of the APOLO Long Noncoding RNA
- (2020) Federico Ariel et al. MOLECULAR CELL
- RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions
- (2020) Alessandro Bonetti et al. Nature Communications
- Diversity and Emerging Roles of Enhancer RNA in Regulation of Gene Expression and Cell Fate
- (2020) Preston R. Arnold et al. Frontiers in Cell and Developmental Biology
- Biomolecular condensates in cell biology and virology: Phase-separated membraneless organelles (MLOs)
- (2020) Pravin B. Sehgal et al. ANALYTICAL BIOCHEMISTRY
- Cohesin SA1 and SA2 are RNA binding proteins that localize to RNA containing regions on DNA
- (2020) Hai Pan et al. NUCLEIC ACIDS RESEARCH
- Studying RNA–DNA interactome by Red-C identifies noncoding RNAs associated with various chromatin types and reveals transcription dynamics
- (2020) Alexey A Gavrilov et al. NUCLEIC ACIDS RESEARCH
- The Role of Liquid–Liquid Phase Separation in the Compartmentalization of Cell Nucleus and Spatial Genome Organization
- (2020) S. V. Razin et al. BIOCHEMISTRY-MOSCOW
- RNA is essential for PRC2 chromatin occupancy and function in human pluripotent stem cells
- (2020) Yicheng Long et al. NATURE GENETICS
- RNA contributions to the form and function of biomolecular condensates
- (2020) Christine Roden et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Phase transition of RNA−protein complexes into ordered hollow condensates
- (2020) Ibraheem Alshareedah et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Long non‐coding RNA DLX6‐AS1 mediates proliferation, invasion and apoptosis of endometrial cancer cells by recruiting p300/E2F1 in DLX6 promoter region
- (2020) Hui Zhao et al. JOURNAL OF CELLULAR AND MOLECULAR MEDICINE
- A protein assembly mediates Xist localization and gene silencing
- (2020) Amy Pandya-Jones et al. NATURE
- Condensed Chromatin Behaves like a Solid on the Mesoscale In Vitro and in Living Cells
- (2020) Hilmar Strickfaden et al. CELL
- RNA nucleation by MSL2 induces selective X chromosome compartmentalization
- (2020) Claudia Isabelle Keller Valsecchi et al. NATURE
- Antisense Transcription across Nucleotide Repeat Expansions in Neurodegenerative and Neuromuscular Diseases: Progress and Mysteries
- (2020) Ana F. Castro et al. Genes
- Divide and Rule: Phase Separation in Eukaryotic Genome Functioning
- (2020) Sergey V. Razin et al. Cells
- lncRNA KHPS1 Activates a Poised Enhancer by Triplex-Dependent Recruitment of Epigenomic Regulators
- (2019) Alena Blank-Giwojna et al. Cell Reports
- Detection of RNA–DNA binding sites in long noncoding RNAs
- (2019) Chao-Chung Kuo et al. NUCLEIC ACIDS RESEARCH
- Phase separation of ligand-activated enhancers licenses cooperative chromosomal enhancer assembly
- (2019) Sreejith J. Nair et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Xist Deletional Analysis Reveals an Interdependency between Xist RNA and Polycomb Complexes for Spreading along the Inactive X
- (2019) David Colognori et al. MOLECULAR CELL
- Molecular anatomy of the architectural NEAT1 noncoding RNA: The domains, interactors, and biogenesis pathway required to build phase‐separated nuclear paraspeckles
- (2019) Tetsuro Hirose et al. Wiley Interdisciplinary Reviews-RNA
- RNA is a critical element for the sizing and the composition of phase-separated RNA–protein condensates
- (2019) Marina Garcia-Jove Navarro et al. Nature Communications
- The Airn lncRNA does not require any DNA elements within its locus to silence distant imprinted genes
- (2019) Daniel Andergassen et al. PLoS Genetics
- Differential contribution of steady‐state RNA and active transcription in chromatin organization
- (2019) A Rasim Barutcu et al. EMBO REPORTS
- Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation
- (2019) Andrew D. Stephens et al. MOLECULAR BIOLOGY OF THE CELL
- Distinct Classes of Chromatin Loops Revealed by Deletion of an RNA-Binding Region in CTCF
- (2019) Anders S. Hansen et al. MOLECULAR CELL
- RNA Interactions Are Essential for CTCF-Mediated Genome Organization
- (2019) Ricardo Saldaña-Meyer et al. MOLECULAR CELL
- Functional transcription promoters at DNA double-strand breaks mediate RNA-driven phase separation of damage-response factors
- (2019) Fabio Pessina et al. NATURE CELL BIOLOGY
- RNA toxicity in non‐coding repeat expansion disorders
- (2019) Bart Swinnen et al. EMBO JOURNAL
- Modes of phase separation affecting chromatin regulation
- (2019) Spiros Palikyras et al. Open Biology
- Exploring Mammalian Genome within Phase-Separated Nuclear Bodies: Experimental Methods and Implications for Gene Expression
- (2019) Annick Lesne et al. Genes
- The 4D Nucleome: Genome Compartmentalization in an Evolutionary Context
- (2018) T. Cremer et al. BIOCHEMISTRY-MOSCOW
- Formation of Chromatin Subcompartments by Phase Separation
- (2018) Fabian Erdel et al. BIOPHYSICAL JOURNAL
- Higher-Order Inter-chromosomal Hubs Shape 3D Genome Organization in the Nucleus
- (2018) Sofia A. Quinodoz et al. CELL
- Functional Domains of NEAT1 Architectural lncRNA Induce Paraspeckle Assembly through Phase Separation
- (2018) Tomohiro Yamazaki et al. MOLECULAR CELL
- Distinct roles of cohesin-SA1 and cohesin-SA2 in 3D chromosome organization
- (2018) Aleksandar Kojic et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- RNA self-assembly contributes to stress granule formation and defining the stress granule transcriptome
- (2018) Briana Van Treeck et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- mRNA structure determines specificity of a polyQ-driven phase separation
- (2018) Erin M. Langdon et al. SCIENCE
- Paraspeckles: Where Long Noncoding RNA Meets Phase Separation
- (2018) Archa H. Fox et al. TRENDS IN BIOCHEMICAL SCIENCES
- Distinct roles of cohesin-SA1 and cohesin-SA2 in 3D chromosome organization
- (2018) Aleksandar Kojic et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Chromatin-associated RNA sequencing (ChAR-seq) maps genome-wide RNA-to-DNA contacts
- (2018) Jason C Bell et al. eLife
- Super-resolution binding activated localization microscopy through reversible change of DNA conformation
- (2018) Aleksander Szczurek et al. Nucleus
- Super-resolution binding activated localization microscopy through reversible change of DNA conformation
- (2018) Aleksander Szczurek et al. Nucleus
- Emerging Roles for Intermolecular RNA-RNA Interactions in RNP Assemblies
- (2018) Briana Van Treeck et al. CELL
- Primary transcripts: from the discovery of RNA processing to current concepts of gene expression - Review
- (2018) Klaus Scherrer EXPERIMENTAL CELL RESEARCH
- lncRNA GCAWKR Promotes Gastric Cancer Development by Scaffolding the Chromatin Modification Factors WDR5 and KAT2A
- (2018) Mingzhe Ma et al. MOLECULAR THERAPY
- RNAs interact with BRD4 to promote enhanced chromatin engagement and transcription activation
- (2018) Homa Rahnamoun et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Transcription-driven genome organization: a model for chromosome structure and the regulation of gene expression tested through simulations
- (2018) Peter R Cook et al. NUCLEIC ACIDS RESEARCH
- Nuclear compartmentalization, dynamics and function of regulatory DNA sequences
- (2018) Marion Cremer et al. GENES CHROMOSOMES & CANCER
- Nuclear condensates of the Polycomb protein chromobox 2 (CBX2) assemble through phase separation
- (2018) Roubina Tatavosian et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- A Short Tandem Repeat-Enriched RNA Assembles a Nuclear Compartment to Control Alternative Splicing and Promote Cell Survival
- (2018) Karen Yap et al. MOLECULAR CELL
- Organizational principles of 3D genome architecture
- (2018) M. Jordan Rowley et al. NATURE REVIEWS GENETICS
- Sequence Determinants for Nuclear Retention and Cytoplasmic Export of mRNAs and lncRNAs
- (2018) Alexander F. Palazzo et al. Frontiers in Genetics
- hnRNPK Recruits PCGF3/5-PRC1 to the Xist RNA B-Repeat to Establish Polycomb-Mediated Chromosomal Silencing
- (2017) Greta Pintacuda et al. MOLECULAR CELL
- RNA phase transitions in repeat expansion disorders
- (2017) Ankur Jain et al. NATURE
- Complex multi-enhancer contacts captured by genome architecture mapping
- (2017) Robert A. Beagrie et al. NATURE
- GRID-seq reveals the global RNA–chromatin interactome
- (2017) Xiao Li et al. NATURE BIOTECHNOLOGY
- Damage-induced lncRNAs control the DNA damage response through interaction with DDRNAs at individual double-strand breaks
- (2017) Flavia Michelini et al. NATURE CELL BIOLOGY
- RNA-DamID reveals cell-type-specific binding of roX RNAs at chromatin-entry sites
- (2017) Seth W. Cheetham et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- NEAT1 scaffolds RNA-binding proteins and the Microprocessor to globally enhance pri-miRNA processing
- (2017) Li Jiang et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- PCGF3/5–PRC1 initiates Polycomb recruitment in X chromosome inactivation
- (2017) Mafalda Almeida et al. SCIENCE
- RNA-DamID reveals cell-type-specific binding of roX RNAs at chromatin-entry sites
- (2017) Seth W. Cheetham et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- NEAT1 scaffolds RNA-binding proteins and the Microprocessor to globally enhance pri-miRNA processing
- (2017) Li Jiang et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Architectural RNAs (arcRNAs): A class of long noncoding RNAs that function as the scaffold of nuclear bodies
- (2016) Takeshi Chujo et al. Biochimica et Biophysica Acta-Gene Regulatory Mechanisms
- LncRNA HOXA11-AS Promotes Proliferation and Invasion of Gastric Cancer by Scaffolding the Chromatin Modification Factors PRC2, LSD1, and DNMT1
- (2016) Ming Sun et al. CANCER RESEARCH
- Human satellite-III non-coding RNAs modulate heat-shock-induced transcriptional repression
- (2016) Anshika Goenka et al. JOURNAL OF CELL SCIENCE
- The lncRNA HOTAIR impacts on mesenchymal stem cellsviatriple helix formation
- (2016) Marie Kalwa et al. NUCLEIC ACIDS RESEARCH
- Chromatin topology is coupled to Polycomb group protein subnuclear organization
- (2016) Ajazul H. Wani et al. Nature Communications
- Unraveling the mechanisms of chromatin fibril packaging
- (2016) Alexey A. Gavrilov et al. Nucleus
- Unraveling the mechanisms of chromatin fibril packaging
- (2016) Alexey A. Gavrilov et al. Nucleus
- Enhancer RNA-driven looping enhances the transcription of the long noncoding RNA DHRS4-AS1, a controller of the DHRS4 gene cluster
- (2016) Yingying Yang et al. Scientific Reports
- The 4D nucleome: Evidence for a dynamic nuclear landscape based on co-aligned active and inactive nuclear compartments
- (2015) Thomas Cremer et al. FEBS LETTERS
- RNA Controls PolyQ Protein Phase Transitions
- (2015) Huaiying Zhang et al. MOLECULAR CELL
- Technologies to probe functions and mechanisms of long noncoding RNAs
- (2015) Ci Chu et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- RNA transcribed from a distal enhancer is required for activating the chromatin at the promoter of the gonadotropin α-subunit gene
- (2015) Lilach Pnueli et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Dosage Compensation inDrosophila
- (2015) John C. Lucchesi et al. Cold Spring Harbor Perspectives in Biology
- Technologies to probe functions and mechanisms of long noncoding RNAs
- (2015) Ci Chu et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- PARTICLE, a Triplex-Forming Long ncRNA, Regulates Locus-Specific Methylation in Response to Low-Dose Irradiation
- (2015) Valerie Bríd O’Leary et al. Cell Reports
- In vivo formaldehyde cross-linking: it is time for black box analysis
- (2014) Alexey Gavrilov et al. Briefings in Functional Genomics
- A requiem to the nuclear matrix: from a controversial concept to 3D organization of the nucleus
- (2014) S. V. Razin et al. CHROMOSOMA
- CTCF regulates the human p53 gene through direct interaction with its natural antisense transcript, Wrap53
- (2014) R. Saldana-Meyer et al. GENES & DEVELOPMENT
- Long Noncoding RNA NEAT1-Dependent SFPQ Relocation from Promoter Region to Paraspeckle Mediates IL8 Expression upon Immune Stimuli
- (2014) Katsutoshi Imamura et al. MOLECULAR CELL
- Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre
- (2014) Ezgi Hacisuleyman et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Enhancer RNAs participate in androgen receptor-driven looping that selectively enhances gene activation
- (2014) C.-L. Hsieh et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- NEAT1 long noncoding RNA regulates transcription via protein sequestration within subnuclear bodies
- (2013) Tetsuro Hirose et al. MOLECULAR BIOLOGY OF THE CELL
- ATP-Dependent roX RNA Remodeling by the Helicase maleless Enables Specific Association of MSL Proteins
- (2013) Sylvain Maenner et al. MOLECULAR CELL
- Tandem Stem-Loops in roX RNAs Act Together to Mediate X Chromosome Dosage Compensation in Drosophila
- (2013) Ibrahim Avsar Ilik et al. MOLECULAR CELL
- Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation
- (2013) Wenbo Li et al. NATURE
- Activating RNAs associate with Mediator to enhance chromatin architecture and transcription
- (2013) Fan Lai et al. NATURE
- Abnormal RNA structures (RNA foci) containing a penta-nucleotide repeat (UGGAA)nin the Purkinje cell nucleus is associated with spinocerebellar ataxia type 31 pathogenesis
- (2013) Yusuke Niimi et al. NEUROPATHOLOGY
- The Xist lncRNA Exploits Three-Dimensional Genome Architecture to Spread Across the X Chromosome
- (2013) J. M. Engreitz et al. SCIENCE
- Landscape of transcription in human cells
- (2012) Sarah Djebali et al. NATURE
- Site-specific DICER and DROSHA RNA products control the DNA-damage response
- (2012) Sofia Francia et al. NATURE
- A view of nuclear Polycomb bodies
- (2011) Vincenzo Pirrotta et al. CURRENT OPINION IN GENETICS & DEVELOPMENT
- Long non-coding RNAs in nuclear bodies
- (2011) Joanna Y. Ip et al. DEVELOPMENT GROWTH & DIFFERENTIATION
- Genomic Maps of Long Noncoding RNA Occupancy Reveal Principles of RNA-Chromatin Interactions
- (2011) Ci Chu et al. MOLECULAR CELL
- Nucleation of nuclear bodies by RNA
- (2011) Sergey P. Shevtsov et al. NATURE CELL BIOLOGY
- Transcription factories in the context of the nuclear and genome organization
- (2011) S. V. Razin et al. NUCLEIC ACIDS RESEARCH
- The genomic binding sites of a noncoding RNA
- (2011) M. D. Simon et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Coding RNAs with a non-coding function: Maintenance of open chromatin structure
- (2011) Maïwen Caudron-Herger et al. Nucleus
- Widespread transcription at neuronal activity-regulated enhancers
- (2010) Tae-Kyung Kim et al. NATURE
- Direct visualization of the co-transcriptional assembly of a nuclear body by noncoding RNAs
- (2010) Yuntao S. Mao et al. NATURE CELL BIOLOGY
- roX RNAs: Non-coding regulators of the male X chromosome in flies
- (2010) Ibrahim Ilik et al. RNA Biology
- Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes
- (2010) M.-C. Tsai et al. SCIENCE
- Nuclear Stress Bodies
- (2010) G. Biamonti et al. Cold Spring Harbor Perspectives in Biology
- A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers
- (2010) Francesca De Santa et al. PLOS BIOLOGY
- Spinocerebellar Ataxia Type 31 Is Associated with “Inserted” Penta-Nucleotide Repeats Containing (TGGAA)n
- (2009) Nozomu Sato et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Paraspeckles: nuclear bodies built on long noncoding RNA
- (2009) Charles S. Bond et al. JOURNAL OF CELL BIOLOGY
- An Architectural Role for a Nuclear Noncoding RNA: NEAT1 RNA Is Essential for the Structure of Paraspeckles
- (2009) Christine M. Clemson et al. MOLECULAR CELL
- Transcription factories: gene expression in unions?
- (2009) Heidi Sutherland et al. NATURE REVIEWS GENETICS
- Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
- (2009) Ahmad M. Khalil et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Kcnq1ot1 Antisense Noncoding RNA Mediates Lineage-Specific Transcriptional Silencing through Chromatin-Level Regulation
- (2008) Radha Raman Pandey et al. MOLECULAR CELL
Create your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create NowBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started