Analysis of RNA motifs
NB Leontis, E Westhof - Current opinion in structural biology, 2003 - Elsevier
RNA motifs are directed and ordered stacked arrays of non-Watson–Crick base pairs
forming distinctive foldings of the phosphodiester backbones of the interacting RNA strands …
forming distinctive foldings of the phosphodiester backbones of the interacting RNA strands …
The microRNA-183 cluster: the family that plays together stays together
S Dambal, M Shah, B Mihelich, L Nonn - Nucleic acids research, 2015 - academic.oup.com
Abstract The microRNA (miR) 183 cluster, which is comprised of miRs-183,-96 and-182, is
also a miR family with sequence homology. Despite the strong similarity in the sequences of …
also a miR family with sequence homology. Despite the strong similarity in the sequences of …
ViennaRNA Package 2.0
R Lorenz, SH Bernhart… - Algorithms for molecular …, 2011 - Springer
Background Secondary structure forms an important intermediate level of description of
nucleic acids that encapsulates the dominating part of the folding energy, is often well …
nucleic acids that encapsulates the dominating part of the folding energy, is often well …
Mfold web server for nucleic acid folding and hybridization prediction
M Zuker - Nucleic acids research, 2003 - academic.oup.com
The abbreviated name,'mfold web server', describes a number of closely related software
applications available on the World Wide Web (WWW) for the prediction of the secondary …
applications available on the World Wide Web (WWW) for the prediction of the secondary …
[HTML][HTML] VARNA: Interactive drawing and editing of the RNA secondary structure
VARNA is a tool for the automated drawing, visualization and annotation of the secondary
structure of RNA, designed as a companion software for web servers and databases …
structure of RNA, designed as a companion software for web servers and databases …
Vienna RNA secondary structure server
IL Hofacker - Nucleic acids research, 2003 - academic.oup.com
The Vienna RNA secondary structure server provides a web interface to the most frequently
used functions of the Vienna RNA software package for the analysis of RNA secondary …
used functions of the Vienna RNA software package for the analysis of RNA secondary …
UNAFold: software for nucleic acid folding and hybridization
NR Markham, M Zuker - Bioinformatics: structure, function and …, 2008 - Springer
The UNAFold software package is an integrated collection of programs that simulate folding,
hybridization, and melting pathways for one or two single-stranded nucleic acid sequences …
hybridization, and melting pathways for one or two single-stranded nucleic acid sequences …
Sfold web server for statistical folding and rational design of nucleic acids
Y Ding, CY Chan, CE Lawrence - Nucleic acids research, 2004 - academic.oup.com
The S fold web server provides user-friendly access to S fold, a recently developed nucleic
acid folding software package, via the World Wide Web (WWW). The software is based on a …
acid folding software package, via the World Wide Web (WWW). The software is based on a …
Topology of three-way junctions in folded RNAs
A Lescoute, E Westhof - Rna, 2006 - rnajournal.cshlp.org
The three-way junctions contained in X-ray structures of folded RNAs have been compiled
and analyzed. Three-way junctions with two helices approximately coaxially stacked can be …
and analyzed. Three-way junctions with two helices approximately coaxially stacked can be …
Tools for the automatic identification and classification of RNA base pairs
H Yang, F Jossinet, N Leontis, L Chen… - Nucleic acids …, 2003 - academic.oup.com
Three programs have been developed to aid in the classification and visualization of RNA
structure. BPViewer provides a web interface for displaying three-dimensional (3D) …
structure. BPViewer provides a web interface for displaying three-dimensional (3D) …