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BIOINFORMATICS
2011
11 years 1 months ago
All-atom knowledge-based potential for RNA structure prediction and assessment
Motivation: Over the recent years, the vision that RNA simply serves as information transfer molecule has dramatically changed. The study of the sequence/structure/function relati...
Emidio Capriotti, Tomás Norambuena, Marc A....
WABI
2010
Springer
128views Bioinformatics» more  WABI 2010»
11 years 5 months ago
Sparsification of RNA Structure Prediction Including Pseudoknots
Background: Although many RNA molecules contain pseudoknots, computational prediction of pseudoknotted RNA structure is still in its infancy due to high running time and space con...
Mathias Möhl, Raheleh Salari, Sebastian Will,...
TCBB
2010
137views more  TCBB 2010»
11 years 5 months ago
Alignments of RNA Structures
— We describe a theoretical unifying framework to express comparison of RNA structures, which we call alignment hierarchy. This framework relies on the definition of common supe...
Guillaume Blin, Alain Denise, Serge Dulucq, Claire...
BMCBI
2008
114views more  BMCBI 2008»
11 years 6 months ago
Dinucleotide controlled null models for comparative RNA gene prediction
Background: Comparative prediction of RNA structures can be used to identify functional noncoding RNAs in genomic screens. It was shown recently by Babak et al. [BMC Bioinformatic...
Tanja Gesell, Stefan Washietl
BMCBI
2010
95views more  BMCBI 2010»
11 years 6 months ago
Quantifying the relationship between sequence and three-dimensional structure conservation in RNA
Background: In recent years, the number of available RNA structures has rapidly grown reflecting the increased interest on RNA biology. Similarly to the studies carried out two de...
Emidio Capriotti, Marc A. Martí-Renom
AVI
2006
11 years 8 months ago
NAVRNA: visualization - exploration - editing of RNA
In this paper we describe NAVRNA, an interactive system that enables biologists or researchers in bioinformatics to visualize, explore and edit RNA molecules. The key characterist...
Gilles Bailly, Laurence Nigay, David Auber
CSB
2004
IEEE
124views Bioinformatics» more  CSB 2004»
11 years 10 months ago
Multiple RNA Structure Alignment
RNA structures can be viewed as a kind of special strings with some characters bonded with each other. The question of aligning two RNA structures has been studied for a while, an...
Zhuozhi Wang, Kaizhong Zhang
BIBE
2006
IEEE
132views Bioinformatics» more  BIBE 2006»
12 years 21 days ago
Simplicity in RNA Secondary Structure Alignment: Towards biologically plausible alignments
Ribonucleic acid (RNA) molecules contain the genetic information that regulates the functions of organisms. Given two different molecules, a preserved function corresponds to a pr...
Rimon Mikhaiel, Guohui Lin, Eleni Stroulia
IPPS
2007
IEEE
12 years 28 days ago
RNAVLab: A unified environment for computational RNA structure analysis based on grid computing technology
Ribonucleic acid (RNA) molecules play important roles in many biological processes including gene expression and regulation. An RNA molecule is a linear polymer which folds back o...
Michela Taufer, Ming-Ying Leung, Kyle L. Johnson, ...
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