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» Conserved RNA Pseudoknots
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RECOMB
2009
Springer
14 years 8 months ago
Lifting Prediction to Alignment of RNA Pseudoknots
Prediction and alignment of RNA pseudoknot structures are NP-hard. Nevertheless, several efficient prediction algorithms by dynamic programming have been proposed for restricted cl...
Mathias Möhl, Rolf Backofen, Sebastian Will
AAIM
2007
Springer
145views Algorithms» more  AAIM 2007»
14 years 1 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
ISMB
1997
13 years 9 months ago
Automated Alignment of RNA Sequences to Pseudoknotted Structures
Seq7 is a newprogramfor generating multiple structure-based alignments of RNAsequences. Byusing a variant of Dijkstra’s algorithm to find the shortest path through a specially c...
Jack E. Tabaska, Gary D. Stormo
WABI
2007
Springer
14 years 1 months ago
HFold: RNA Pseudoknotted Secondary Structure Prediction Using Hierarchical Folding
Hosna Jabbari, Anne Condon, Ana Pop, Cristina Pop,...
BIOINFORMATICS
2008
126views more  BIOINFORMATICS 2008»
13 years 7 months ago
FlexStem: improving predictions of RNA secondary structures with pseudoknots by reducing the search space
Xiang Chen, Simin He, Dongbo Bu, Fa Zhang, Zhiyong...