Exploring chromatin structural roles of non-coding RNAs at imprinted domains

The interplay between DNA and histone methylation: molecular mechanisms and disease implications

(2021) Yinglu Li et al.   EMBO REPORTS

Growth Restriction and Genomic Imprinting-Overlapping Phenotypes Support the Concept of an Imprinting Network

(2021) Thomas Eggermann et al.   Genes

The role of CTCF in the organization of the centromeric 11p15 imprinted domain interactome

(2021) Natali S Sobel Naveh et al.   NUCLEIC ACIDS RESEARCH

Genomic imprinting in mouse blastocysts is predominantly associated with H3K27me3

(2021) Laura Santini et al.   Nature Communications

Oct motif variants in Beckwith–Wiedemann syndrome patients disrupt maintenance of the hypomethylated state of the H19/IGF2 imprinting control region

(2020) Shuichi Kubo et al.   FEBS LETTERS

Imprinted Maternally Expressed microRNAs Antagonize Paternally Driven Gene Programs in Neurons

(2020) Amanda J. Whipple et al.   MOLECULAR CELL

The many faces of Polycomb regulation by RNA

(2020) Mafalda Almeida et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Differential 3D chromatin organization and gene activity in genomic imprinting

(2020) Daan Noordermeer et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Imprinted Small RNAs Unraveled: Maternal MicroRNAs Antagonize a Paternal-Genome-Driven Gene Expression Network

(2020) Amani Ghousein et al.   MOLECULAR CELL

Profound alterations of the chromatin architecture at chromosome 11p15.5 in cells from Beckwith-Wiedemann and Silver-Russell syndromes patients

(2020) Davide Rovina et al.   Scientific Reports

OCT3/4-binding sequence-dependent maintenance of the unmethylated state of CTCF-binding sequences with DNA demethylation and suppression of de novo DNA methylation in the H19 imprinted control region

(2020) Naohiro Hori et al.   GENE

Corrigendum to “OCT3/4-binding sequence-dependent maintenance of the unmethylated state of CTCF-binding sequences with DNA demethylation and suppression of de novo DNA methylation in the H19 imprinted control region” [Gene 743 (2020) 144606]

(2020) Naohiro Hori et al.   GENE

Maternal H3K27me3-dependent autosomal and X chromosome imprinting

(2020) Zhiyuan Chen et al.   NATURE REVIEWS GENETICS

Long noncoding RNA functionality in imprinted domain regulation

(2020) William A. MacDonald et al.   PLoS Genetics

Architectural RNA in chromatin organization

(2020) Jitendra Thakur et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Re-assessment of the involvement of Snord115 in the serotonin 2C receptor pathway in a genetically relevant mouse model

(2020) Jade Hebras et al.   eLife

Gene regulation by long non-coding RNAs and its biological functions

(2020) Luisa Statello et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Genomic imprinting disorders: lessons on how genome, epigenome and environment interact

(2019) David Monk et al.   NATURE REVIEWS GENETICS

Imprinted MicroRNA Gene Clusters in the Evolution, Development, and Functions of Mammalian Placenta

(2019) E. Cécile Malnou et al.   Frontiers in Genetics

Transcriptional profiling at the DLK1/MEG3 domain explains clinical overlap between imprinting disorders

(2019) Walid Abi Habib et al.   Science Advances

A bipartite boundary element restrictsUBE3Aimprinting to mature neurons

(2019) Jack S. Hsiao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Detection of RNA–DNA binding sites in long noncoding RNAs

(2019) Chao-Chung Kuo et al.   NUCLEIC ACIDS RESEARCH

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

Genomic Imprinting and Physiological Processes in Mammals

(2019) Valter Tucci et al.   CELL

A DNMT3A PWWP mutation leads to methylation of bivalent chromatin and growth retardation in mice

(2019) Gintarė Sendžikaitė et al.   Nature Communications

Dynamic enhancer partitioning instructs activation of a growth-related gene during exit from naïve pluripotency

(2019) Maxim Greenberg et al.   eLife

lncRNA-Induced Spread of Polycomb Controlled by Genome Architecture, RNA Abundance, and CpG Island DNA

(2019) Megan D. Schertzer et al.   MOLECULAR CELL

Systematic allelic analysis defines the interplay of key pathways in X chromosome inactivation

(2019) Tatyana B. Nesterova 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

The role of Xist ‐mediated Polycomb recruitment in the initiation of X‐chromosome inactivation

(2019) Aurélie Bousard et al.   EMBO REPORTS

Conserved Pseudoknots in lncRNA MEG3 Are Essential for Stimulation of the p53 Pathway

(2019) Tina Uroda et al.   MOLECULAR 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

Xist RNA in action: Past, present, and future

(2019) Agnese Loda et al.   PLoS Genetics

Allelic H3K27me3 to allelic DNA methylation switch maintains noncanonical imprinting in extraembryonic cells

(2019) Zhiyuan Chen et al.   Science Advances

Environmental effects on chromatin repression at imprinted genes and endogenous retroviruses

(2018) Rakesh Pathak et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Emerging Roles of Non-Coding RNA Transcription

(2018) Minna U. Kaikkonen et al.   TRENDS IN BIOCHEMICAL SCIENCES

Meg3 Non-coding RNA Expression Controls Imprinting by Preventing Transcriptional Upregulation in cis

(2018) Ildem Sanli et al.   Cell Reports

Structural characterization of maternally expressed gene 3 RNA reveals conserved motifs and potential sites of interaction with polycomb repressive complex 2

(2018) Chringma Sherpa et al.   NUCLEIC ACIDS RESEARCH

Parallels between Mammalian Mechanisms of Monoallelic Gene Expression

(2018) Ahmed Amine Khamlichi et al.   TRENDS IN GENETICS

CRISPR-Mediated Programmable 3D Genome Positioning and Nuclear Organization

(2018) Haifeng Wang et al.   CELL

Maternal Eed knockout causes loss of H3K27me3 imprinting and random X inactivation in the extraembryonic cells

(2018) Azusa Inoue et al.   GENES & DEVELOPMENT

hnRNPK Recruits PCGF3/5-PRC1 to the Xist RNA B-Repeat to Establish Polycomb-Mediated Chromosomal Silencing

(2017) Greta Pintacuda et al.   MOLECULAR CELL

Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood

(2017) Julia Joung et al.   NATURE

Maternal H3K27me3 controls DNA methylation-independent imprinting

(2017) Azusa Inoue et al.   NATURE

Novel players in X inactivation: insights into Xist-mediated gene silencing and chromosome conformation

(2017) Simão T da Rocha et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Oocyte-derived histone H3 lysine 27 methylation controls gene expression in the early embryo

(2017) Rakesh Pathak et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Identification of Plagl1/Zac1 binding sites and target genes establishes its role in the regulation of extracellular matrix genes and the imprinted gene network

(2017) Annie Varrault et al.   NUCLEIC ACIDS RESEARCH

Novel players in X inactivation: insights into Xist-mediated gene silencing and chromosome conformation

(2017) Simão T da Rocha et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Oocyte-derived histone H3 lysine 27 methylation controls gene expression in the early embryo

(2017) Rakesh Pathak et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mapping the mouse Allelome reveals tissue-specific regulation of allelic expression

(2017) Daniel Andergassen et al.   eLife

Expressed alleles of imprinted IGF2, DLK1 and MEG3 colocalize in 3D-preserved nuclei of porcine fetal cells

(2016) Yvette Lahbib-Mansais et al.   BMC CELL BIOLOGY

Regulation of the imprintedDlk1-Dio3locus by allele-specific enhancer activity

(2016) Zhuojuan Luo et al.   GENES & DEVELOPMENT

Deletion of the miR-379/miR-410 gene cluster at the imprintedDlk1-Dio3locus enhances anxiety-related behaviour

(2016) Virginie Marty et al.   HUMAN MOLECULAR GENETICS

MEG3 Long Noncoding RNA Contributes to the Epigenetic Regulation of Epithelial-Mesenchymal Transition in Lung Cancer Cell Lines

(2016) Minoru Terashima et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Transient transcription in the early embryo sets an epigenetic state that programs postnatal growth

(2016) Maxim V C Greenberg et al.   NATURE GENETICS

High-resolution interrogation of functional elements in the noncoding genome

(2016) N. E. Sanjana et al.   SCIENCE

A systems-level approach to parental genomic imprinting: the imprinted gene network includes extracellular matrix genes and regulates cell cycle exit and differentiation

(2015) Hala Al Adhami et al.   GENOME RESEARCH

Chromatin mechanisms in the developmental control of imprinted gene expression

(2015) Ildem Sanli et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Genomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation

(2015) Tuncay Baubec et al.   NATURE

Regulation of DLK1 by the maternally expressed miR-379/miR-544 cluster may underlie callipyge polar overdominance inheritance

(2015) Yun-Qian Gao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Long noncoding RNAs in human disease: emerging mechanisms and therapeutic strategies

(2015) Sébastien Lalevée et al.   Epigenomics

MEG3 long noncoding RNA regulates the TGF-β pathway genes through formation of RNA–DNA triplex structures

(2015) Tanmoy Mondal et al.   Nature Communications

PRC2 Is Required to Maintain Expression of the Maternal Gtl2-Rian-Mirg Locus by Preventing De Novo DNA Methylation in Mouse Embryonic Stem Cells

(2015) Partha Pratim Das et al.   Cell Reports

Transcription Driven Somatic DNA Methylation within the Imprinted Gnas Cluster

(2015) Stuti Mehta et al.   PLoS One

ICR Noncoding RNA Expression Controls Imprinting and DNA Replication at the Dlk1-Dio3 Domain

(2014) Satya K. Kota et al.   DEVELOPMENTAL CELL

The miR-379/miR-410 cluster at the imprinted Dlk1-Dio3 domain controls neonatal metabolic adaptation

(2014) S. Labialle et al.   EMBO JOURNAL

The Gpr1/Zdbf2 locus provides new paradigms for transient and dynamic genomic imprinting in mammals

(2014) R. Duffie et al.   GENES & DEVELOPMENT

The H19 long noncoding RNA gives rise to microRNAs miR-675-3p and miR-675-5p to promote skeletal muscle differentiation and regeneration

(2014) B. K. Dey et al.   GENES & DEVELOPMENT

Tissue-specific insulator function at H19/Igf2 revealed by deletions at the imprinting control region

(2014) F. Y. Ideraabdullah et al.   HUMAN MOLECULAR GENETICS

Extensive investigation of the IGF2/H19 imprinting control region reveals novel OCT4/SOX2 binding site defects associated with specific methylation patterns in Beckwith-Wiedemann syndrome

(2014) Walid Abi Habib et al.   HUMAN MOLECULAR GENETICS

Genetic variants within the second intron of theKCNQ1gene affect CTCF binding and confer a risk of Beckwith–Wiedemann syndrome upon maternal transmission

(2014) Julie Demars et al.   JOURNAL OF MEDICAL GENETICS

The Long Noncoding RNAs NEAT1 and MALAT1 Bind Active Chromatin Sites

(2014) Jason A. West et al.   MOLECULAR CELL

Interactions between JARID2 and Noncoding RNAs Regulate PRC2 Recruitment to Chromatin

(2014) Syuzo Kaneko et al.   MOLECULAR CELL

Towards a therapy for Angelman syndrome by targeting a long non-coding RNA

(2014) Linyan Meng et al.   NATURE

The noncoding RNA IPW regulates the imprinted DLK1-DIO3 locus in an induced pluripotent stem cell model of Prader-Willi syndrome

(2014) Yonatan Stelzer et al.   NATURE GENETICS

The role of genomic imprinting in biology and disease: an expanding view

(2014) Jo Peters   NATURE REVIEWS GENETICS

Analysis of neonatal brain lacking ATRX or MeCP2 reveals changes in nucleosome density, CTCF binding and chromatin looping

(2014) Kristin D. Kernohan et al.   NUCLEIC ACIDS RESEARCH

Genomic Imprinting in Mammals

(2014) D. P. Barlow et al.   Cold Spring Harbor Perspectives in Biology

Considerations when investigating lncRNA function in vivo

(2014) Andrew R Bassett et al.   eLife

Gene regulation by the act of long non-coding RNA transcription

(2013) Aleksandra E Kornienko et al.   BMC BIOLOGY

Imprinted Igf2r silencing depends on continuous Airn lncRNA expression and is not restricted to a developmental window

(2013) F. Santoro et al.   DEVELOPMENT

RNA-guided gene activation by CRISPR-Cas9–based transcription factors

(2013) Pablo Perez-Pinera et al.   NATURE METHODS

R-loop formation atSnord116mediates topotecan inhibition ofUbe3a-antisenseand allele-specific chromatin decondensation

(2013) Weston T. Powell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

H19 lncRNA controls gene expression of the Imprinted Gene Network by recruiting MBD1

(2013) P. Monnier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Truncation of Ube3a-ATS Unsilences Paternal Ube3a and Ameliorates Behavioral Defects in the Angelman Syndrome Mouse Model

(2013) Linyan Meng et al.   PLoS Genetics

Mechanisms of long range silencing by imprinted macro non-coding RNAs

(2012) Florian M Pauler et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Long noncoding RNA-mediated maintenance of DNA methylation and transcriptional gene silencing

(2012) F. Mohammad et al.   DEVELOPMENT

Small regulatory RNAs controlled by genomic imprinting and their contribution to human disease

(2012) Michael Girardot et al.   Epigenetics

Genome-wide analysis of long noncoding RNA stability

(2012) M. B. Clark et al.   GENOME RESEARCH

Widespread plasticity in CTCF occupancy linked to DNA methylation

(2012) H. Wang et al.   GENOME RESEARCH

The H19 lincRNA is a developmental reservoir of miR-675 that suppresses growth and Igf1r

(2012) Andrew Keniry et al.   NATURE CELL BIOLOGY

The SNORD115 (H/MBII-52) and SNORD116 (H/MBII-85) gene clusters at the imprinted Prader-Willi locus generate canonical box C/D snoRNAs

(2012) M.-L. Bortolin-Cavaille et al.   NUCLEIC ACIDS RESEARCH

Promoter cross-talk via a shared enhancer explains paternally biased expression of Nctc1 at the Igf2/H19/Nctc1 imprinted locus

(2012) Bokkee Eun et al.   NUCLEIC ACIDS RESEARCH

New insights into establishment and maintenance of DNA methylation imprints in mammals

(2012) G. Kelsey et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Malat1 is not an essential component of nuclear speckles in mice

(2012) S. Nakagawa et al.   RNA

Airn Transcriptional Overlap, But Not Its lncRNA Products, Induces Imprinted Igf2r Silencing

(2012) P. A. Latos et al.   SCIENCE

Genomic Imprinting: A Mammalian Epigenetic Discovery Model

(2011) Denise P. Barlow   Annual Review of Genetics

Disruption of genomic neighbourhood at the imprinted IGF2-H19 locus in Beckwith–Wiedemann syndrome and Silver–Russell syndrome

(2011) Raffaella Nativio et al.   HUMAN MOLECULAR GENETICS

Rex1/Zfp42 as an epigenetic regulator for genomic imprinting

(2011) Jeong Do Kim et al.   HUMAN MOLECULAR GENETICS

Nonallelic Transcriptional Roles of CTCF and Cohesins at Imprinted Loci

(2011) S. Lin et al.   MOLECULAR AND CELLULAR BIOLOGY

DNA-binding factors shape the mouse methylome at distal regulatory regions

(2011) Michael B. Stadler et al.   NATURE

Enhancer-driven chromatin interactions during development promote escape from silencing by a long non-coding RNA

(2011) Lisa Korostowski et al.   Epigenetics & Chromatin

Uncoupling Antisense-Mediated Silencing and DNA Methylation in the Imprinted Gnas Cluster

(2011) Christine M. Williamson et al.   PLoS Genetics

The H19 locus: Role of an imprinted non-coding RNA in growth and development

(2010) Anne Gabory et al.   BIOESSAYS

Activation of paternally expressed genes and perinatal death caused by deletion of the Gtl2 gene

(2010) Y. Zhou et al.   DEVELOPMENT

The primate-specific microRNA gene cluster (C19MC) is imprinted in the placenta

(2010) M. Noguer-Dance et al.   HUMAN MOLECULAR GENETICS

Genome-wide Identification of Polycomb-Associated RNAs by RIP-seq

(2010) Jing Zhao et al.   MOLECULAR CELL

Mediator and cohesin connect gene expression and chromatin architecture

(2010) Michael H. Kagey et al.   NATURE

An in vitro ES cell imprinting model shows that imprinted expression of the Igf2r gene arises from an allele-specific expression bias

(2009) P. A. Latos et al.   DEVELOPMENT

Paraspeckles: nuclear bodies built on long noncoding RNA

(2009) Charles S. Bond et al.   JOURNAL OF CELL BIOLOGY

Long nuclear-retained non-coding RNAs and allele-specific higher-order chromatin organization at imprinted snoRNA gene arrays

(2009) P. Vitali et al.   JOURNAL OF CELL SCIENCE

Polycomb Group Proteins Ezh2 and Rnf2 Direct Genomic Contraction and Imprinted Repression in Early Mouse Embryos

(2008) Rémi Terranova et al.   DEVELOPMENTAL CELL

Kcnq1ot1 Antisense Noncoding RNA Mediates Lineage-Specific Transcriptional Silencing through Chromatin-Level Regulation

(2008) Radha Raman Pandey et al.   MOLECULAR CELL

The Air Noncoding RNA Epigenetically Silences Transcription by Targeting G9a to Chromatin

(2008) T. Nagano et al.   SCIENCE