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» A polyhedral approach to RNA sequence structure alignment
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BMCBI
2008
145views more  BMCBI 2008»
13 years 8 months ago
Directed acyclic graph kernels for structural RNA analysis
Background: Recent discoveries of a large variety of important roles for non-coding RNAs (ncRNAs) have been reported by numerous researchers. In order to analyze ncRNAs by kernel ...
Kengo Sato, Toutai Mituyama, Kiyoshi Asai, Yasubum...
IPPS
2008
IEEE
14 years 3 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 ...
BMCBI
2008
142views more  BMCBI 2008»
13 years 8 months ago
Strategies for measuring evolutionary conservation of RNA secondary structures
Background: Evolutionary conservation of RNA secondary structure is a typical feature of many functional non-coding RNAs. Since almost all of the available methods used for predic...
Andreas R. Gruber, Stephan H. F. Bernhart, Ivo L. ...
BMCBI
2006
134views more  BMCBI 2006»
13 years 8 months ago
A statistical score for assessing the quality of multiple sequence alignments
Background: Multiple sequence alignment is the foundation of many important applications in bioinformatics that aim at detecting functionally important regions, predicting protein...
Virpi Ahola, Tero Aittokallio, Mauno Vihinen, Esa ...
RECOMB
2009
Springer
14 years 9 months ago
Learning Models for Aligning Protein Sequences with Predicted Secondary Structure
Accurately aligning distant protein sequences is notoriously difficult. A recent approach to improving alignment accuracy is to use additional information such as predicted seconda...
Eagu Kim, Travis J. Wheeler, John D. Kececioglu