RNA in unexpected places: long non-coding RNA functions in diverse cellular contexts

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

(2013) Aleksandra E Kornienko et al.   BMC BIOLOGY

Characterization of human plasma-derived exosomal RNAs by deep sequencing

(2013) Xiaoyi Huang et al.   BMC GENOMICS

Activating RNAs associate with Mediator to enhance chromatin architecture and transcription

(2013) Fan Lai et al.   NATURE

Structure and function of long noncoding RNAs in epigenetic regulation

(2013) Tim R Mercer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Genome Regulation by Long Noncoding RNAs

(2012) John L. Rinn et al.   Annual Review of Biochemistry

Transcription of Two Long Noncoding RNAs Mediates Mating-Type Control of Gametogenesis in Budding Yeast

(2012) Folkert J. van Werven et al.   CELL

Molecular recognition and function of riboswitches

(2012) Alexander Serganov et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Long non-coding RNAgadd7interacts with TDP-43 and regulatesCdk6mRNA decay

(2012) Xuefeng Liu et al.   EMBO JOURNAL

B cell TLRs and induction of immunoglobulin class-switch DNA recombination

(2012) Egest et al.   Frontiers in Bioscience-Landmark

TDP-43 and FUS RNA-binding Proteins Bind Distinct Sets of Cytoplasmic Messenger RNAs and Differently Regulate Their Post-transcriptional Fate in Motoneuron-like Cells

(2012) Claudia Colombrita et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Modular recognition of nucleic acids by PUF, TALE and PPR proteins

(2012) Aleksandra Filipovska et al.   Molecular BioSystems

Single-Cell Analysis Reveals that Noncoding RNAs Contribute to Clonal Heterogeneity by Modulating Transcription Factor Recruitment

(2012) Stacie L. Bumgarner et al.   MOLECULAR CELL

Decapping of Long Noncoding RNAs Regulates Inducible Genes

(2012) Sarah Geisler et al.   MOLECULAR CELL

Long Noncoding RNAs with snoRNA Ends

(2012) Qing-Fei Yin et al.   MOLECULAR CELL

Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat

(2012) Claudia Carrieri et al.   NATURE

Landscape of transcription in human cells

(2012) Sarah Djebali et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

RNA SHAPE analysis in living cells

(2012) Robert C Spitale et al.   Nature Chemical Biology

Systematic reconstruction of RNA functional motifs with high-throughput microfluidics

(2012) Lance Martin et al.   NATURE METHODS

A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

(2012) S. L. Moon et al.   RNA

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

(2012) P. A. Latos et al.   SCIENCE

Epigenetic Regulation by Long Noncoding RNAs

(2012) J. T. Lee   SCIENCE

Non-coding RNAs: key regulators of mammalian transcription

(2012) Jennifer F. Kugel et al.   TRENDS IN BIOCHEMICAL SCIENCES

TERRA Promotes Telomere Shortening through Exonuclease 1–Mediated Resection of Chromosome Ends

(2012) Verena Pfeiffer et al.   PLoS Genetics

The GENCODE pseudogene resource

(2012) Baikang Pei et al.   GENOME BIOLOGY

Long Intergenic Noncoding RNAs: New Links in Cancer Progression

(2011) M.-C. Tsai et al.   CANCER RESEARCH

ncRNA- and Pc2 Methylation-Dependent Gene Relocation between Nuclear Structures Mediates Gene Activation Programs

(2011) Liuqing Yang et al.   CELL

No-Nonsense Functions for Long Noncoding RNAs

(2011) Takashi Nagano et al.   CELL

A Long Noncoding RNA Controls Muscle Differentiation by Functioning as a Competing Endogenous RNA

(2011) Marcella Cesana et al.   CELL

A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?

(2011) Leonardo Salmena et al.   CELL

Active chromatin and noncoding RNAs: an intimate relationship

(2011) Ryan A Flynn et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

RNA templating the epigenome

(2011) Robert C. Spitale et al.   Epigenetics

lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3′ UTRs via Alu elements

(2011) Chenguang Gong et al.   NATURE

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

(2011) Kevin C. Wang et al.   NATURE

Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA

(2011) Dong Wang et al.   NATURE

RNA seeds nuclear bodies

(2011) Maria Carmo-Fonseca et al.   NATURE CELL BIOLOGY

Nucleation of nuclear bodies by RNA

(2011) Sergey P. Shevtsov et al.   NATURE CELL BIOLOGY

Characterizing the RNA targets and position-dependent splicing regulation by TDP-43

(2011) James R Tollervey et al.   NATURE NEUROSCIENCE

ExoCarta 2012: database of exosomal proteins, RNA and lipids

(2011) S. Mathivanan et al.   NUCLEIC ACIDS RESEARCH

RNA Mimics of Green Fluorescent Protein

(2011) J. S. Paige et al.   SCIENCE

Horizontal transfer of RNAs: exosomes as mediators of intercellular communication

(2011) Saraswathi Ramachandran et al.   Wiley Interdisciplinary Reviews-RNA

Long Noncoding RNAs with Enhancer-like Function in Human Cells

(2010) Ulf Andersson Ørom et al.   CELL

Intergenic transcription causes repression by directing nucleosome assembly

(2010) S. J. Hainer et al.   GENES & DEVELOPMENT

Transcribed dark matter: meaning or myth?

(2010) C. P. Ponting et al.   HUMAN MOLECULAR GENETICS

The Nuclear-Retained Noncoding RNA MALAT1 Regulates Alternative Splicing by Modulating SR Splicing Factor Phosphorylation

(2010) Vidisha Tripathi et al.   MOLECULAR CELL

Molecular Interplay of the Noncoding RNA ANRIL and Methylated Histone H3 Lysine 27 by Polycomb CBX7 in Transcriptional Silencing of INK4a

(2010) Kyoko L. Yap et al.   MOLECULAR CELL

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

(2010) Jing Zhao et al.   MOLECULAR CELL

Widespread transcription at neuronal activity-regulated enhancers

(2010) Tae-Kyung Kim et al.   NATURE

A coding-independent function of gene and pseudogene mRNAs regulates tumour biology

(2010) Laura Poliseno 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

CREB up-regulates long non-coding RNA, HULC expression through interaction with microRNA-372 in liver cancer

(2010) Jiayi Wang et al.   NUCLEIC ACIDS RESEARCH

Long non-coding RNA ANRIL is required for the PRC2 recruitment to and silencing of p15 INK4B tumor suppressor gene

(2010) Y Kotake et al.   ONCOGENE

The multiple roles of TDP-43 in pre-mRNA processing and gene expression regulation

(2010) Emanuele Buratti et al.   RNA Biology

Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes

(2010) M.-C. Tsai et al.   SCIENCE

Noncoding RNA Gas5 Is a Growth Arrest- and Starvation-Associated Repressor of the Glucocorticoid Receptor

(2010) T. Kino et al.   Science Signaling

ADAR editing in double-stranded UTRs and other noncoding RNA sequences

(2010) Heather A. Hundley et al.   TRENDS IN BIOCHEMICAL SCIENCES

The Origins of the RNA World

(2010) M. P. Robertson et al.   Cold Spring Harbor Perspectives in Biology

Evidence for natural antisense transcript-mediated inhibition of microRNA function

(2010) Mohammad Ali Faghihi et al.   GENOME BIOLOGY

Tar DNA binding protein of 43 kDa (TDP-43), 14-3-3 proteins and copper/zinc superoxide dismutase (SOD1) interact to modulate NFL mRNA stability. Implications for altered RNA processing in amyotrophic lateral sclerosis (ALS)

(2009) Kathryn Volkening et al.   BRAIN RESEARCH

Evolution and Functions of Long Noncoding RNAs

(2009) Chris P. Ponting et al.   CELL

Pervasive transcription constitutes a new level of eukaryotic genome regulation

(2009) Julia Berretta et al.   EMBO REPORTS

Long noncoding RNAs: functional surprises from the RNA world

(2009) J. E. Wilusz et al.   GENES & DEVELOPMENT

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

(2009) Allison M Bond et al.   NATURE NEUROSCIENCE

Long non-coding RNAs: insights into functions

(2009) Tim R. Mercer et al.   NATURE REVIEWS GENETICS

Regulatory roles of natural antisense transcripts

(2009) Mohammad Ali Faghihi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

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

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

Toggle involving cis-interfering noncoding RNAs controls variegated gene expression in yeast

(2009) S. L. Bumgarner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The GAIT system: a gatekeeper of inflammatory gene expression

(2009) Rupak Mukhopadhyay et al.   TRENDS IN BIOCHEMICAL SCIENCES

A Highly Structured, Nuclease-Resistant, Noncoding RNA Produced by Flaviviruses Is Required for Pathogenicity

(2008) Gorben P. Pijlman et al.   Cell Host & Microbe

A natural antisense transcript regulates Zeb2/Sip1 gene expression during Snail1-induced epithelial-mesenchymal transition

(2008) M. Beltran et al.   GENES & DEVELOPMENT

MEN  /  nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles

(2008) H. Sunwoo et al.   GENOME RESEARCH

Human Alu RNA Is a Modular Transacting Repressor of mRNA Transcription during Heat Shock

(2008) Peter D. Mariner et al.   MOLECULAR CELL

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

(2008) Radha Raman Pandey et al.   MOLECULAR CELL

The LPS-Induced Transcriptional Upregulation of the Chicken Lysozyme Locus Involves CTCF Eviction and Noncoding RNA Transcription

(2008) Pascal Lefevre et al.   MOLECULAR CELL

A ncRNA Modulates Histone Modification and mRNA Induction in the Yeast GAL Gene Cluster

(2008) Jonathan Houseley et al.   MOLECULAR CELL

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs

(2008) Kouji Hirota et al.   NATURE

Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription

(2008) Xiangting Wang et al.   NATURE

Glioblastoma microvesicles transport RNA and proteins that promote tumour growth and provide diagnostic biomarkers

(2008) Johan Skog et al.   NATURE CELL BIOLOGY

Expression of a noncoding RNA is elevated in Alzheimer's disease and drives rapid feed-forward regulation of β-secretase

(2008) Mohammad Ali Faghihi et al.   NATURE MEDICINE

Meiotic Recombination Hotspots of Fission Yeast Are Directed to Loci that Express Non-Coding RNA

(2008) Wayne P. Wahls et al.   PLoS One

A starvation-induced noncoding RNA modulates expression of Dicer-regulated genes

(2008) S. Hellwig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Polycomb Proteins Targeted by a Short Repeat RNA to the Mouse X Chromosome

(2008) J. Zhao et al.   SCIENCE

Genome-wide RNA polymerase II: not genes only!

(2008) Frederic Koch et al.   TRENDS IN BIOCHEMICAL SCIENCES

Nutrient-Regulated Antisense and Intragenic RNAs Modulate a Signal Transduction Pathway in Yeast

(2008) Masafumi Nishizawa et al.   PLOS BIOLOGY