From genotype to phenotype: genetics of mammalian long non-coding RNAs in vivo

A conserved long noncoding RNA, GAPLINC, modulates the immune response during endotoxic shock

(2021) Apple Cortez Vollmers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Imprinted Maternally Expressed microRNAs Antagonize Paternally Driven Gene Programs in Neurons

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

SPEN integrates transcriptional and epigenetic control of X-inactivation

(2020) François Dossin et al.   NATURE

Widespread organ tolerance to Xist loss and X reactivation except under chronic stress in the gut

(2020) Lin Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Malat1 Suppresses Immunity to Infection through Promoting Expression of Maf and IL-10 in Th Cells

(2020) James P. Hewitson et al.   JOURNAL OF IMMUNOLOGY

Long Noncoding RNAs: Molecular Modalities to Organismal Functions

(2020) John L. Rinn et al.   Annual Review of Biochemistry

Expanded encyclopaedias of DNA elements in the human and mouse genomes

(2020) Jill E. Moore et al.   NATURE

Long Non-coding RNAs in the Regulation of the Immune Response and Trained Immunity

(2020) Manuel Flores-Concha et al.   Frontiers in Genetics

LncRNAMalat1inhibition of TDP43 cleavage suppresses IRF3-initiated antiviral innate immunity

(2020) Wei Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

Hematopoietic Deficiency of the Long Non-Coding RNA MALAT1 Promotes Atherosclerosis and Plaque Inflammation

(2019) Sebastian Cremer et al.   CIRCULATION

High-throughput functional analysis of lncRNA core promoters elucidates rules governing tissue specificity

(2019) Kaia Mattioli et al.   GENOME RESEARCH

Genomic Imprinting and Physiological Processes in Mammals

(2019) Valter Tucci et al.   CELL

The Long Noncoding RNA Pnky Is a Trans-acting Regulator of Cortical Development In Vivo

(2019) Rebecca E. Andersen et al.   DEVELOPMENTAL CELL

Strategies for Genetic Inactivation of Long Noncoding RNAs in Zebrafish

(2019) Perrine Lavalou et al.   RNA

PUMILIO hyperactivity drives premature aging of Norad-deficient mice

(2019) Florian Kopp et al.   eLife

The Dark That Matters: Long Non-coding RNAs as Master Regulators of Cellular Metabolism in Non-communicable Diseases

(2019) Alessia Mongelli et al.   Frontiers in Physiology

The Translational Landscape of the Human Heart

(2019) Sebastiaan van Heesch et al.   CELL

The lncRNA Hand2os1/Uph locus orchestrates heart development through regulation of precise expression of Hand2

(2019) Xue Han et al.   DEVELOPMENT

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

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

Creation of CRISPR-based germline-genome-engineered mice without ex vivo handling of zygotes by i-GONAD

(2019) Channabasavaiah B. Gurumurthy et al.   Nature Protocols

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 lncRNA Locus Handsdown Regulates Cardiac Gene Programs and Is Essential for Early Mouse Development

(2019) Nicole Ritter et al.   DEVELOPMENTAL CELL

Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci

(2019) Jonathan M. Mudge et al.   GENOME RESEARCH

Minimal in vivo requirements for developmentally regulated cardiac long intergenic non-coding RNAs

(2019) Matthew R. George et al.   DEVELOPMENT

The Firre locus produces a trans-acting RNA molecule that functions in hematopoiesis

(2019) Jordan P. Lewandowski et al.   Nature Communications

In vivo Firre and Dxz4 deletion elucidates roles for autosomal gene regulation

(2019) Daniel Andergassen et al.   eLife

Self-Recognition of an Inducible Host lncRNA by RIG-I Feedback Restricts Innate Immune Response

(2018) Minghong Jiang et al.   CELL

Functional Classification and Experimental Dissection of Long Noncoding RNAs

(2018) Florian Kopp et al.   CELL

Promoter of lncRNA Gene PVT1 Is a Tumor-Suppressor DNA Boundary Element

(2018) Seung Woo Cho et al.   CELL

A Network of Noncoding Regulatory RNAs Acts in the Mammalian Brain

(2018) Benjamin Kleaveland et al.   CELL

Efficient mouse genome engineering by CRISPR-EZ technology

(2018) Andrew J Modzelewski et al.   Nature Protocols

MicroRNA degradation by a conserved target RNA regulates animal behavior

(2018) Angelo Bitetti et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Orientation-dependent Dxz4 contacts shape the 3D structure of the inactive X chromosome

(2018) G. Bonora et al.   Nature Communications

MicroRNA degradation by a conserved target RNA regulates animal behavior

(2018) Angelo Bitetti et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

(2018) Ildem Sanli et al.   Cell Reports

Deficiency in the nuclear long noncoding RNA Charme causes myogenic defects and heart remodeling in mice

(2018) Monica Ballarino et al.   EMBO JOURNAL

The NORAD lncRNA assembles a topoisomerase complex critical for genome stability

(2018) Mathias Munschauer et al.   NATURE

The Ly6/uPAR protein Bouncer is necessary and sufficient for species-specific fertilization

(2018) Sarah Herberg et al.   SCIENCE

Perturbed maintenance of transcriptional repression on the inactive X-chromosome in the mouse brain after Xist deletion

(2018) Robin L. Adrianse et al.   Epigenetics & Chromatin

Regulation of Neuroregeneration by Long Noncoding RNAs

(2018) Rotem Ben-Tov Perry et al.   MOLECULAR CELL

LNCipedia 5: towards a reference set of human long non-coding RNAs

(2018) Pieter-Jan Volders et al.   NUCLEIC ACIDS RESEARCH

Megadomains and superloops form dynamically but are dispensable for X-chromosome inactivation and gene escape

(2018) John E. Froberg et al.   Nature Communications

Double-slit photoelectron interference in strong-field ionization of the neon dimer

(2018) Maksim Kunitski et al.   Nature Communications

Genetic Models Reveal cis and trans Immune-Regulatory Activities for lincRNA-Cox2

(2018) Roland Elling et al.   Cell Reports

Group 1 Innate Lymphoid Cell Lineage Identity Is Determined by a cis -Regulatory Element Marked by a Long Non-coding RNA

(2017) Walter K. Mowel et al.   IMMUNITY

The X chromosome in space

(2017) Teddy Jégu et al.   NATURE REVIEWS GENETICS

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

(2017) Daniel Andergassen et al.   eLife

A Long Noncoding RNA lincRNA-EPS Acts as a Transcriptional Brake to Restrain Inflammation

(2016) Maninjay K. Atianand et al.   CELL

Noncoding RNA NORAD Regulates Genomic Stability by Sequestering PUMILIO Proteins

(2016) Sungyul Lee et al.   CELL

Electroporation of Cas9 protein/sgRNA into early pronuclear zygotes generates non-mosaic mutants in the mouse

(2016) Masakazu Hashimoto et al.   DEVELOPMENTAL BIOLOGY

Rapid evolutionary turnover underlies conserved lncRNA–genome interactions

(2016) Jeffrey J. Quinn et al.   GENES & DEVELOPMENT

Female mice lacking Xist RNA show partial dosage compensation and survive to term

(2016) Lin Yang et al.   GENES & DEVELOPMENT

Chromatin environment, transcriptional regulation, and splicing distinguish lincRNAs and mRNAs

(2016) Marta Melé et al.   GENOME RESEARCH

Long noncoding RNA Tug1 regulates mitochondrial bioenergetics in diabetic nephropathy

(2016) Jianyin Long et al.   JOURNAL OF CLINICAL INVESTIGATION

Unlinking an lncRNA from Its Associated cis Element

(2016) Vikram R. Paralkar et al.   MOLECULAR CELL

“Cat’s Cradling” the 3D Genome by the Act of LncRNA Transcription

(2016) Marta Melé et al.   MOLECULAR CELL

High-throughput discovery of novel developmental phenotypes

(2016) Mary E. Dickinson et al.   NATURE

Transcription of the non-coding RNA upperhand controls Hand2 expression and heart development

(2016) Kelly M. Anderson et al.   NATURE

mTORC1 and muscle regeneration are regulated by the LINC00961-encoded SPAR polypeptide

(2016) Akinobu Matsumoto et al.   NATURE

Structural organization of the inactive X chromosome in the mouse

(2016) Luca Giorgetti et al.   NATURE

Local regulation of gene expression by lncRNA promoters, transcription and splicing

(2016) Jesse M. Engreitz et al.   NATURE

The long non-coding RNA Morrbid regulates Bim and short-lived myeloid cell lifespan

(2016) Jonathan J. Kotzin et al.   NATURE

Structural conservation in the template/pseudoknot domain of vertebrate telomerase RNA from teleost fish to human

(2016) Yaqiang Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deletion ofDXZ4on the human inactive X chromosome alters higher-order genome architecture

(2016) Emily M. Darrow et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A conserved abundant cytoplasmic long noncoding RNA modulates repression by Pumilio proteins in human cells

(2016) Ailone Tichon et al.   Nature Communications

In Vivo Characterization of Linc-p21 Reveals Functional cis -Regulatory DNA Elements

(2016) Abigail F. Groff et al.   Cell Reports

Ultrastructural Characterization of the Lower Motor System in a Mouse Model of Krabbe Disease

(2016) Valentina Cappello et al.   Scientific Reports

A Micropeptide Encoded by a Putative Long Noncoding RNA Regulates Muscle Performance

(2015) Douglas M. Anderson et al.   CELL

Efficient CRISPR/Cas9-Mediated Genome Editing in Mice by Zygote Electroporation of Nuclease

(2015) Wenning Qin et al.   GENETICS

Linking RNA biology to lncRNAs

(2015) Loyal A. Goff et al.   GENOME RESEARCH

Discovery and annotation of long noncoding RNAs

(2015) John S Mattick et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Spatiotemporal expression and transcriptional perturbations by long noncoding RNAs in the mouse brain

(2015) Loyal A. Goff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Discovery and annotation of long noncoding RNAs

(2015) John S Mattick et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Efficient CRISPR/Cas9-Mediated Genome Editing in Mice by Zygote Electroporation of Nuclease

(2015) Wenning Qin et al.   GENETICS

Diverse Phenotypes and Specific Transcription Patterns in Twenty Mouse Lines with Ablated LincRNAs

(2015) Ka-Man Venus Lai et al.   PLoS One

Noncoding RNAs and Epigenetic Mechanisms During X-Chromosome Inactivation

(2014) Anne-Valerie Gendrel et al.   Annual Review of Cell and Developmental Biology

A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping

(2014) Suhas S.P. Rao et al.   CELL

Long Noncoding RNA MALAT1 Regulates Endothelial Cell Function and Vessel Growth

(2014) Katharina M. Michalik et al.   CIRCULATION RESEARCH

The lncRNA Neat1 is required for corpus luteum formation and the establishment of pregnancy in a subpopulation of mice

(2014) S. Nakagawa et al.   DEVELOPMENT

Systematic Study of Drosophila MicroRNA Functions Using a Collection of Targeted Knockout Mutations

(2014) Ya-Wen Chen et al.   DEVELOPMENTAL CELL

Using next-generation RNA sequencing to identify imprinted genes

(2014) X Wang et al.   HEREDITY

Characterization of Genomic Deletion Efficiency Mediated by Clustered Regularly Interspaced Palindromic Repeats (CRISPR)/Cas9 Nuclease System in Mammalian Cells

(2014) Matthew C. Canver et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The long noncoding RNA Neat1 is required for mammary gland development and lactation

(2014) Laura Standaert et al.   RNA

Toddler: An Embryonic Signal That Promotes Cell Movement via Apelin Receptors

(2014) A. Pauli et al.   SCIENCE

Genomic Imprinting in Mammals

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

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

(2013) Aleksandra E Kornienko et al.   BMC BIOLOGY

One-Step Generation of Mice Carrying Mutations in Multiple Genes by CRISPR/Cas-Mediated Genome Engineering

(2013) Haoyi Wang et al.   CELL

Xist RNA Is a Potent Suppressor of Hematologic Cancer in Mice

(2013) Eda Yildirim et al.   CELL

The NeST Long ncRNA Controls Microbial Susceptibility and Epigenetic Activation of the Interferon-γ Locus

(2013) J. Antonio Gomez et al.   CELL

Braveheart, a Long Noncoding RNA Required for Cardiovascular Lineage Commitment

(2013) Carla A. Klattenhoff et al.   CELL

The Tissue-Specific lncRNA Fendrr Is an Essential Regulator of Heart and Body Wall Development in the Mouse

(2013) Phillip Grote et al.   DEVELOPMENTAL CELL

linc-HOXA1 is a noncoding RNA that represses Hoxa1 transcription in cis

(2013) H. Maamar et al.   GENES & DEVELOPMENT

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

Conserved Regulation of Cardiac Calcium Uptake by Peptides Encoded in Small Open Reading Frames

(2013) E. G. Magny et al.   SCIENCE

A Long Noncoding RNA Mediates Both Activation and Repression of Immune Response Genes

(2013) S. Carpenter et al.   SCIENCE

Multiple knockout mouse models reveal lincRNAs are required for life and brain development

(2013) Martin Sauvageau et al.   eLife

Extensive Promoter-Centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation

(2012) Guoliang Li et al.   CELL

Alternative 3′-end processing of long noncoding RNA initiates construction of nuclear paraspeckles

(2012) Takao Naganuma et al.   EMBO JOURNAL

Small noncoding differentially methylated copy-number variants, including lncRNA genes, cause a lethal lung developmental disorder

(2012) P. Szafranski et al.   GENOME RESEARCH

Coding exons function as tissue-specific enhancers of nearby genes

(2012) Ramon Y. Birnbaum et al.   GENOME RESEARCH

Modular regulatory principles of large non-coding RNAs

(2012) Mitchell Guttman et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Loss of the abundant nuclear non-coding RNAMALAT1is compatible with life and development

(2012) Moritz Eißmann et al.   RNA Biology

Identification of cis- and trans-acting factors involved in the localization of MALAT-1 noncoding RNA to nuclear speckles

(2012) R. Miyagawa et al.   RNA

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

The lncRNA Malat1 Is Dispensable for Mouse Development but Its Transcription Plays a cis-Regulatory Role in the Adult

(2012) Bin Zhang et al.   Cell Reports

Genomic Imprinting: A Mammalian Epigenetic Discovery Model

(2011) Denise P. Barlow   Annual Review of Genetics

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

(2010) Y. Zhou et al.   DEVELOPMENT

Direct visualization of the co-transcriptional assembly of a nuclear body by noncoding RNAs

(2010) Yuntao S. Mao et al.   NATURE CELL BIOLOGY

H19 acts as a trans regulator of the imprinted gene network controlling growth in mice

(2009) A. Gabory et al.   DEVELOPMENT

Deletion of Gtl2 , imprinted non-coding RNA, with its differentially methylated region induces lethal parent-origin-dependent defects in mice

(2009) Nozomi Takahashi et al.   HUMAN MOLECULAR GENETICS

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

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Balanced gene regulation by an embryonic brain ncRNA is critical for adult hippocampal GABA circuitry

(2009) Allison M Bond et al.   NATURE NEUROSCIENCE

MENε/β noncoding RNAs are essential for structural integrity of nuclear paraspeckles

(2009) Yasnory T. F. Sasaki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A proximal conserved repeat in the Xist gene is essential as a genomic element for X-inactivation in mouse

(2008) Y. Hoki et al.   DEVELOPMENT

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

(2008) Rémi Terranova et al.   DEVELOPMENTAL CELL