Please use this identifier to cite or link to this item: https://doi.org/10.1007/978-3-642-04241-6_33
Title: Structural alignment of RNA with complex pseudoknot structure
Authors: Wong, T.K.F.
Lam, T.W.
Sung, W.-K. 
Yiu, S.M.
Keywords: Non-coding RNA
Pseudoknots
Structural alignment
Issue Date: 2009
Source: Wong, T.K.F.,Lam, T.W.,Sung, W.-K.,Yiu, S.M. (2009). Structural alignment of RNA with complex pseudoknot structure. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 5724 LNBI : 403-414. ScholarBank@NUS Repository. https://doi.org/10.1007/978-3-642-04241-6_33
Abstract: The secondary structure of an ncRNA molecule is known to play an important role in its biological functions. Aligning a known ncRNA to a target candidate to determine the sequence and structural similarity helps in identifying de novo ncRNA molecules that are in the same family of the known ncRNA. However, existing algorithms cannot handle complex pseudoknot structures which are found in nature. In this paper, we propose algorithms to handle two types of complex pseudoknots: simple non-standard pseudoknots and recursive pseudoknots. Although our methods are not designed for general pseudoknots, it already cover all known ncRNAs in both Rfam and PseudoBase databases. A preliminary evaluation on our algorithms show that it is useful to identify ncRNA molecules in other species which are in the same family of a known ncRNA. © 2009 Springer Berlin Heidelberg.
Source Title: Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
URI: http://scholarbank.nus.edu.sg/handle/10635/41509
ISBN: 3642042406
ISSN: 03029743
DOI: 10.1007/978-3-642-04241-6_33
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