A mutually exclusive stem–loop arrangement in roX2 RNA is essential for X-chromosome regulation inDrosophila

DHX9 suppresses RNA processing defects originating from the Alu invasion of the human genome

(2017) Tuğçe Aktaş et al.   NATURE

RNA Duplex Map in Living Cells Reveals Higher-Order Transcriptome Structure

(2016) Zhipeng Lu et al.   CELL

Global RNA recognition patterns of post‐transcriptional regulators Hfq and CsrA revealed by UV crosslinkingin vivo

(2016) Erik Holmqvist et al.   EMBO JOURNAL

Rapid evolutionary turnover underlies conserved lncRNA–genome interactions

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

PionX sites mark the X chromosome for dosage compensation

(2016) Raffaella Villa et al.   NATURE

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

antaRNA: ant colony-based RNA sequence design

(2015) Robert Kleinkauf et al.   BIOINFORMATICS

Uncovering the novel characteristics of Asian honey bee, Apis cerana, by whole genome sequencing

(2015) Doori Park et al.   BMC GENOMICS

Structure of the RNA Helicase MLE Reveals the Molecular Mechanisms for Uridine Specificity and RNA-ATP Coupling

(2015) J. Rajan Prabu et al.   MOLECULAR CELL

JAMM: a peak finder for joint analysis of NGS replicates

(2014) Mahmoud M. Ibrahim et al.   BIOINFORMATICS

Revealing long noncoding RNA architecture and functions using domain-specific chromatin isolation by RNA purification

(2014) Jeffrey J Quinn et al.   NATURE BIOTECHNOLOGY

Repetitive RNA unwinding by RNA helicase A facilitates RNA annealing

(2014) Hye Ran Koh et al.   NUCLEIC ACIDS RESEARCH

deepTools: a flexible platform for exploring deep-sequencing data

(2014) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

SR proteins control a complex network of RNA-processing events

(2014) Todd Bradley et al.   RNA

Direct Competition between hnRNP C and U2AF65 Protects the Transcriptome from the Exonization of Alu Elements

(2013) Kathi Zarnack et al.   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

Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins

(2012) Alfredo Castello et al.   CELL

Mechanism of RNA 2′,3′-cyclic phosphate end healing by T4 polynucleotide kinase–phosphatase

(2012) Ushati Das et al.   NUCLEIC ACIDS RESEARCH

Global or local? Predicting secondary structure and accessibility in mRNAs

(2012) Sita J. Lange et al.   NUCLEIC ACIDS RESEARCH

ViennaRNA Package 2.0

(2011) Ronny Lorenz et al.   Algorithms for Molecular Biology

msl2 mRNA is bound by free nuclear MSL complex in Drosophila melanogaster

(2011) Anna-Mia Johansson et al.   NUCLEIC ACIDS RESEARCH

Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP

(2010) Markus Hafner et al.   CELL

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

(2010) Julian König et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

HMMSplicer: A Tool for Efficient and Sensitive Discovery of Known and Novel Splice Junctions in RNA-Seq Data

(2010) Michelle T. Dimon et al.   PLoS One

roX RNAs: Non-coding regulators of the male X chromosome in flies

(2010) Ibrahim Ilik et al.   RNA Biology

RNA helicases at work: binding and rearranging

(2010) Eckhard Jankowsky   TRENDS IN BIOCHEMICAL SCIENCES

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Identification of protein binding sites on U3 snoRNA and pre-rRNA by UV cross-linking and high-throughput analysis of cDNAs

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

Transcription rate of noncoding roX1 RNA controls local spreading of the Drosophila MSL chromatin remodeling complex

(2008) Richard L. Kelley et al.   MECHANISMS OF DEVELOPMENT