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» Conserved RNA Pseudoknots
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DNA
2009
Springer
185views Bioinformatics» more  DNA 2009»
14 years 2 months ago
NP-Completeness of the Direct Energy Barrier Problem without Pseudoknots
Knowledge of energy barriers between pairs of secondary structures for a given DNA or RNA molecule is useful, both in understanding RNA function in biological settings and in desig...
Ján Manuch, Chris Thachuk, Ladislav Stacho,...
IPPS
2007
IEEE
14 years 1 months 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, ...
NAR
2007
124views more  NAR 2007»
13 years 7 months ago
The RNAz web server: prediction of thermodynamically stable and evolutionarily conserved RNA structures
Many non-coding RNA genes and cis-acting regulatory elements of mRNAs contain RNA secondary structures that are critical for their function. Such functional RNAs can be predicted ...
Andreas R. Gruber, Richard Neuböck, Ivo L. Ho...
SPIRE
2005
Springer
14 years 1 months ago
An Edit Distance Between RNA Stem-Loops
We introduce the notion of conservative edit distance and mapping between two RNA stem-loops. We show that unlike the general edit distance between RNA secondary structures, the co...
Valentin Guignon, Cedric Chauve, Sylvie Hamel
IPPS
2008
IEEE
14 years 2 months ago
On the Effectiveness of Rebuilding RNA Secondary Structures from Sequence Chunks
Despite the computing power of emerging technologies, predicting long RNA secondary structures with thermodynamics-based methods is still infeasible, especially if the structures ...
Michela Taufer, Thamar Solorio, Abel Licon, David ...