Pseudoknot Prediction
From Biowiki
- Pseudoknots, tree-adjoining grammars and similar formalisms
- Rivas & Eddy: A dynamic programming algorithm for RNA structure prediction including pseudoknots. J. Mol. Biol. 1999;285:2053-68.
- Rivas & Eddy: The language of RNA: a formal grammar that includes pseudoknots. Bioinformatics 2000;16:334-40.
- Reeder & Giegerich: Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics. BMC Bioinformatics 2004;5:104.
- Matsui et al.: Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures. Bioinformatics 2005;21:2611-7.
- Sakakibara &: Grammatical inference in bioinformatics. IEEE Trans Pattern Anal Mach Intell 2005;27:1051-62.
- Sakakibara &: Pair hidden Markov models on tree structures. Bioinformatics 2003;19 Suppl 1:i232-40.
- Witwer C, Hofacker IL, Stadler, PF. [http: //doi.ieeecomputersociety.org/10.1109/TCBB.2004.22 Prediction of consensus RNA secondary structures including pseudoknots.] IEEE Trans Comp Biol Bioinf. 2004 1(2):66-76.
- Rivas & Eddy: A dynamic programming algorithm for RNA structure prediction including pseudoknots. J. Mol. Biol. 1999;285:2053-68.
-- Ian Holmes - 23 Nov 2010
