JNSViewer—A JavaScript-based Nucleotide Sequence Viewer for DNA/RNA secondary structures

StructureFold: genome-wide RNA secondary structure mapping and reconstructionin vivo

(2015) Yin Tang et al.   BIOINFORMATICS

Transcriptome-wide measurement of plant RNA secondary structure

(2015) Shawn W Foley et al.   CURRENT OPINION IN PLANT BIOLOGY

iMiRNA-PseDPC: microRNA precursor identification with a pseudo distance-pair composition approach

(2015) Bin Liu et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

miRNA-dis: microRNA precursor identification based on distance structure status pairs

(2015) Bin Liu et al.   Molecular BioSystems

repRNA: a web server for generating various feature vectors of RNA sequences

(2015) Bin Liu et al.   MOLECULAR GENETICS AND GENOMICS

BrowserGenome.org: web-based RNA-seq data analysis and visualization

(2015) Jonathan L Schmid-Burgk et al.   NATURE METHODS

Pse-in-One: a web server for generating various modes of pseudo components of DNA, RNA, and protein sequences

(2015) Bin Liu et al.   NUCLEIC ACIDS RESEARCH

The RNA structurome: transcriptome-wide structure probing with next-generation sequencing

(2015) Chun Kit Kwok et al.   TRENDS IN BIOCHEMICAL SCIENCES

Identification of Real MicroRNA Precursors with a Pseudo Structure Status Composition Approach

(2015) Bin Liu et al.   PLoS One

The RNA shapes studio

(2014) S. Janssen et al.   BIOINFORMATICS

Genome-wide identification of long noncoding natural antisense transcripts and their responses to light in Arabidopsis

(2014) H. Wang et al.   GENOME RESEARCH

Landscape and variation of RNA secondary structure across the human transcriptome

(2014) Yue Wan et al.   NATURE

RNA motif discovery by SHAPE and mutational profiling (SHAPE-MaP)

(2014) Nathan A Siegfried et al.   NATURE METHODS

The Cellular Environment Stabilizes Adenine Riboswitch RNA Structure

(2013) Jillian Tyrrell et al.   BIOCHEMISTRY

RNA secondary structure diagrams for very large molecules: RNAfdl

(2013) Nikolai Hecker et al.   BIOINFORMATICS

In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features

(2013) Yiliang Ding et al.   NATURE

Natural RNA circles function as efficient microRNA sponges

(2013) Thomas B. Hansen et al.   NATURE

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

(2013) Silvi Rouskin et al.   NATURE

RNAstructure: web servers for RNA secondary structure prediction and analysis

(2013) Stanislav Bellaousov et al.   NUCLEIC ACIDS RESEARCH

miRBase: annotating high confidence microRNAs using deep sequencing data

(2013) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

Mammalian miRNA curation through next-generation sequencing

(2013) Miguel Brown et al.   Frontiers in Genetics

Bacterial RNA thermometers: molecular zippers and switches

(2012) Jens Kortmann et al.   NATURE REVIEWS MICROBIOLOGY

Regulatory Impact of RNA Secondary Structure across the Arabidopsis Transcriptome

(2012) F. Li et al.   PLANT CELL

ViennaRNA Package 2.0

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

R2R - software to speed the depiction of aesthetic consensus RNA secondary structures

(2011) Zasha Weinberg et al.   BMC BIOINFORMATICS

Understanding the transcriptome through RNA structure

(2011) Yue Wan et al.   NATURE REVIEWS GENETICS

Translational control of bacterial heat shock and virulence genes by temperature-sensing mRNAs

(2010) Franz Narberhaus   RNA Biology

VARNA: Interactive drawing and editing of the RNA secondary structure

(2009) Kévin Darty et al.   BIOINFORMATICS

PseudoViewer3: generating planar drawings of large-scale RNA structures with pseudoknots

(2009) Yanga Byun et al.   BIOINFORMATICS

The Dynamic Landscapes of RNA Architecture

(2009) José Almeida Cruz et al.   CELL

JBrowse: A next-generation genome browser

(2009) M. E. Skinner et al.   GENOME RESEARCH

RNA-binding proteins and post-transcriptional gene regulation

(2008) Tina Glisovic et al.   FEBS LETTERS

Structural basis for translation termination on the 70S ribosome

(2008) Martin Laurberg et al.   NATURE

The Vienna RNA Websuite

(2008) A. R. Gruber et al.   NUCLEIC ACIDS RESEARCH