SMaRT lncRNA controls translation of a G‐quadruplex‐containing mRNA antagonizing the DHX36 helicase

The Long Non-coding RNA lnc-31 Interacts with Rock1 mRNA and Mediates Its YB-1-Dependent Translation

(2018) Dacia Dimartino 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

Ensembl 2019

(2018) Fiona Cunningham et al.   NUCLEIC ACIDS RESEARCH

RNA G-Quadruplexes in Biology: Principles and Molecular Mechanisms

(2017) Marta M. Fay et al.   JOURNAL OF MOLECULAR BIOLOGY

A viral Sm-class RNA base-pairs with mRNAs and recruits microRNAs to inhibit apoptosis

(2017) Carlos Gorbea et al.   NATURE

IntaRNA 2.0: enhanced and customizable prediction of RNA–RNA interactions

(2017) Martin Mann et al.   NUCLEIC ACIDS RESEARCH

Non-coding RNAs in muscle differentiation and musculoskeletal disease

(2016) Monica Ballarino et al.   JOURNAL OF CLINICAL INVESTIGATION

QuadBase2: web server for multiplexed guanine quadruplex mining and visualization

(2016) Parashar Dhapola et al.   NUCLEIC ACIDS RESEARCH

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

(2016) Ailone Tichon et al.   Nature Communications

Metal Cations in G-Quadruplex Folding and Stability

(2016) Debmalya Bhattacharyya et al.   Frontiers in Chemistry

Long Non-coding RNAs in the Cytoplasm

(2016) Farooq Rashid et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams

(2015) Peter Kerpedjiev et al.   BIOINFORMATICS

A Long Non-coding RNA, LncMyoD, Regulates Skeletal Muscle Differentiation by Blocking IMP2-Mediated mRNA Translation

(2015) Chenguang Gong et al.   DEVELOPMENTAL CELL

From Discovery to Function: The Expanding Roles of Long NonCoding RNAs in Physiology and Disease

(2015) Miao Sun et al.   ENDOCRINE REVIEWS

The glucose-sensing transcription factor MLX promotes myogenesis via myokine signaling

(2015) Liam C. Hunt et al.   GENES & DEVELOPMENT

Enriched environment reduces glioma growth through immune and non-immune mechanisms in mice

(2015) Stefano Garofalo et al.   Nature Communications

Post-transcriptional Regulation of Nkx2-5 by RHAU in Heart Development

(2015) Junwei Nie et al.   Cell Reports

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

The ways of action of long non-coding RNAs in cytoplasm and nucleus

(2014) Kun Zhang et al.   GENE

Novel Long Noncoding RNAs (lncRNAs) in Myogenesis: amiR-31Overlapping lncRNA Transcript Controls Myoblast Differentiation

(2014) Monica Ballarino et al.   MOLECULAR AND CELLULAR BIOLOGY

A Feedforward Regulatory Loop between HuR and the Long Noncoding RNA linc-MD1 Controls Early Phases of Myogenesis

(2014) Ivano Legnini et al.   MOLECULAR CELL

Extensive localization of long noncoding RNAs to the cytosol and mono- and polyribosomal complexes

(2014) Sebastiaan van Heesch et al.   GENOME BIOLOGY

Apoptosis in differentiating C2C12 muscle cells selectively targets Bcl-2-deficient myotubes

(2013) Christian Schöneich et al.   APOPTOSIS

Long Noncoding RNAs: Cellular Address Codes in Development and Disease

(2013) Pedro J. Batista et al.   CELL

Endogenous miRNA Sponge lincRNA-RoR Regulates Oct4, Nanog, and Sox2 in Human Embryonic Stem Cell Self-Renewal

(2013) Yue Wang et al.   DEVELOPMENTAL CELL

Identification of a long non-coding RNA-associated RNP complex regulating metastasis at the translational step

(2013) Kiranmai Gumireddy et al.   EMBO JOURNAL

Control of myogenesis by rodent SINE-containing lncRNAs

(2013) J. Wang et al.   GENES & DEVELOPMENT

Binding of G-quadruplexes to the N-terminal Recognition Domain of the RNA Helicase Associated with AU-rich Element (RHAU)

(2013) Markus Meier et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Long non-coding RNAs: new players in cell differentiation and development

(2013) Alessandro Fatica et al.   NATURE REVIEWS GENETICS

Structure and function of long noncoding RNAs in epigenetic regulation

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

The RNA helicase RHAU (DHX36) suppresses expression of the transcription factor PITX1

(2013) E. P. Booy et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2014

(2013) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

c-Myb Inhibits Myoblast Fusion

(2013) Petr Kaspar et al.   PLoS One

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Site identification in high-throughput RNA–protein interaction data

(2012) Philip J. Uren et al.   BIOINFORMATICS

LincRNA-p21 Suppresses Target mRNA Translation

(2012) Je-Hyun Yoon et al.   MOLECULAR CELL

Exon 45 Skipping Through U1-snRNA Antisense Molecules Recovers the Dys-nNOS Pathway and Muscle Differentiation in Human DMD Myoblasts

(2012) Valentina Cazzella et al.   MOLECULAR THERAPY

Control of somatic tissue differentiation by the long non-coding RNA TINCR

(2012) Markus Kretz et al.   NATURE

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

(2012) Claudia Carrieri et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The RNA helicase RHAU (DHX36) unwinds a G4-quadruplex in human telomerase RNA and promotes the formation of the P1 helix template boundary

(2012) E. P. Booy et al.   NUCLEIC ACIDS RESEARCH

G-quadruplexes in RNA biology

(2012) Stefania Millevoi et al.   Wiley Interdisciplinary Reviews-RNA

BamTools: a C++ API and toolkit for analyzing and managing BAM files

(2011) D. W. Barnett et al.   BIOINFORMATICS

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

(2011) Marcella Cesana et al.   CELL

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

(2011) Chenguang Gong et al.   NATURE

The DEAH-box RNA helicase RHAU binds an intramolecular RNA G‐quadruplex in TERC and associates with telomerase holoenzyme

(2011) Simon Lattmann et al.   NUCLEIC ACIDS RESEARCH

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

A G-quadruplex structure within the 5′-UTR of TRF2 mRNA represses translation in human cells

(2010) Dennis Gomez et al.   NUCLEIC ACIDS RESEARCH

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Retrotransposons Revisited: The Restraint and Rehabilitation of Parasites

(2008) John L. Goodier et al.   CELL

Inhibition of translation in living eukaryotic cells by an RNA G-quadruplex motif

(2008) A. Arora et al.   RNA