Paper Info
Title
A heuristic approach for detecting RNA H-type pseudoknots.
Abstract
RNA H-type pseudoknots are ubiquitous pseudoknots that are found in almost all classes of RNA and thought to play very important roles in a variety of biological processes. Detection of these RNA H-type pseudoknots can improve our understanding of RNA structures and their associated functions. However, the currently existing programs for detecting such RNA H-type pseudoknots are still time consuming and sometimes even ineffective. Therefore, efficient and effective tools for detecting the RNA H-type pseudoknots are needed.In this paper, we have adopted a heuristic approach to develop a novel tool, called HPknotter, for efficiently and accurately detecting H-type pseudoknots in an RNA sequence. In addition, we have demonstrated the applicability and effectiveness of HPknotter by testing on some sequences with known H-type pseudoknots. Our approach can be easily extended and applied to other classes of more general pseudoknots.The web server of our HPknotter is available for online analysis at http://bioalgorithm.life.nctu.edu.tw/HPKNOTTER/ CONTACT: cllu@mail.nctu.edu.tw, chiu@cc.nctu.edu.tw
Year
DOI
Venue
2005
10.1093/bioinformatics/bti568
Bioinformatics
Keywords
Field
DocType
rna h-type pseudoknots,associated function,heuristic approach,general pseudoknots,biological process,rna sequence,rna structure,ubiquitous pseudoknots,effective tool,h-type pseudoknots
RNA,Heuristic,RNA Sequence,Online analysis,Computer science,Bioinformatics,Structure function
Journal
Volume
Issue
ISSN
21
17
1367-4803
Citations 
PageRank 
References 
6
0.45
20
Authors
3
Name
Order
Citations
PageRank
Chun-Hsiang Huang113812.05
Chin Lung Lu242334.59
Hsien-Tai Chiu3483.75