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» Rich Parameterization Improves RNA Structure Prediction
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RECOMB
2011
Springer
12 years 6 months ago
Rich Parameterization Improves RNA Structure Prediction
Motivation. Current approaches to RNA structure prediction range from physics-based methods, which rely on thousands of experimentally-measured thermodynamic parameters, to machin...
Shay Zakov, Yoav Goldberg, Michael Elhadad, Michal...
WABI
2007
Springer
133views Bioinformatics» more  WABI 2007»
13 years 9 months ago
RNA Folding Including Pseudoknots: A New Parameterized Algorithm and Improved Upper Bound
Predicting the secondary structure of an RNA sequence is an important problem in structural bioinformatics. The general RNA folding problem, where the sequence to be folded may con...
Chunmei Liu, Yinglei Song, Louis W. Shapiro
BMCBI
2008
142views more  BMCBI 2008»
13 years 3 months ago
RNA STRAND: The RNA Secondary Structure and Statistical Analysis Database
Background: The ability to access, search and analyse secondary structures of a large set of known RNA molecules is very important for deriving improved RNA energy models, for eva...
Mirela Andronescu, Vera Bereg, Holger H. Hoos, Ann...
CSB
2004
IEEE
208views Bioinformatics» more  CSB 2004»
13 years 7 months ago
Pair Stochastic Tree Adjoining Grammars for Aligning and Predicting Pseudoknot RNA Structures
Motivation: Since the whole genome sequences for many species are currently available, computational predictions of RNA secondary structures and computational identifications of t...
Hiroshi Matsui, Kengo Sato, Yasubumi Sakakibara
AAIM
2007
Springer
145views Algorithms» more  AAIM 2007»
13 years 9 months ago
Improved Approximation Algorithms for Predicting RNA Secondary Structures with Arbitrary Pseudoknots
We study three closely related problems motivated by the prediction of RNA secondary structures with arbitrary pseudoknots: the MAXIMUM BASE PAIR STACKINGS problem proposed by Ieon...
Minghui Jiang