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» RNA Secondary Structure Prediction with Simple Pseudoknots
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BMCBI
2008
116views more  BMCBI 2008»
13 years 7 months ago
A novel representation of RNA secondary structure based on element-contact graphs
Background: Depending on their specific structures, noncoding RNAs (ncRNAs) play important roles in many biological processes. Interest in developing new topological indices based...
Wenjie Shu, Xiaochen Bo, Zhiqiang Zheng, Shengqi W...
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...
BMCBI
2006
158views more  BMCBI 2006»
13 years 7 months ago
Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change
Background: Non-coding RNAs (ncRNAs) have a multitude of roles in the cell, many of which remain to be discovered. However, it is difficult to detect novel ncRNAs in biochemical s...
Andrew V. Uzilov, Joshua M. Keegan, David H. Mathe...
BIOCOMP
2009
13 years 8 months ago
Consensus RNA Secondary Structure Prediction by Ranking k-Length Stems
The accurate computational prediction of RNA secondary structures is a difficult task, but an important one, since RNA structure is usually more evolutionarily conserved than prima...
Denise Y. F. Mak, Gary Benson
IPPS
2009
IEEE
14 years 2 months ago
Dynamic parallelization for RNA structure comparison
In this paper we describe the parallelization of a dynamic programming algorithm used to find common RNA secondary structures including pseudoknots and similar structures. The se...
Eric Snow, Eric Aubanel, Patricia Evans