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WABI
2005
Springer
107views Bioinformatics» more  WABI 2005»
14 years 1 months ago
Linear Time Algorithm for Parsing RNA Secondary Structure
Abstract Baharak Rastegari and Anne Condon Department of Computer Science, University of British Columbia Abstract. Accurate prediction of pseudoknotted RNA secondary structure is ...
Baharak Rastegari, Anne Condon
CLEIEJ
2006
97views more  CLEIEJ 2006»
13 years 7 months ago
Prediction of RNA Pseudoknotted Secondary Structure using Stochastic Context Free Grammars (SCFG)
Pseudoknots are a frequent RNA structure that assumes essential roles for varied biocatalyst cell's functions. One of the most challenging fields in bioinformatics is the pre...
Rafael Garcia
JCB
2007
97views more  JCB 2007»
13 years 7 months ago
Parsing Nucleic Acid Pseudoknotted Secondary Structure: Algorithm and Applications
Accurate prediction of pseudoknotted nucleic acid secondary structure is an important computational challenge. Prediction algorithms based on dynamic programming aim to find a st...
Baharak Rastegari, Anne Condon
JCB
2008
102views more  JCB 2008»
13 years 7 months ago
Canonical RNA Pseudoknot Structures
In this paper, we study k-noncrossing, -canonical RNA pseudoknot structures with minimum arc-length greater or equal to four. Let T OE4 k; .n/ denote the number of these structure...
Gang Ma, Christian M. Reidys
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 ...