DocumentCode :
458793
Title :
Recognition and Modeling of RNA Pseudoknots Using Context-Sensitive Pattern Matching
Author :
Sung, Keum-Young
Author_Institution :
Div. of Comput. Sci. & Electron. Eng., Handong Univ., Pohang
Volume :
1
fYear :
2006
fDate :
9-11 Nov. 2006
Firstpage :
660
Lastpage :
665
Abstract :
In this study, a context-sensitive pattern matching is suggested to recognize and model various forms of RNA secondary structures, especially pseudoknots. Comparing with a conventional context-free grammar used to model secondary structures of RNA sequences, the use of context-sensitive searching of a particular p seudoknot gives us an advantage of more natural representation of RNA structures. The suggested technique directly reflects the appearance characteristic of each form of RNA secondary structure, i.e., hairpins, internal loops, double helixes, and bulge loops. Java language are used in this study to provide the user-interface, and also to implement the suggested context-sensitive searching of a specific pseudoknot
Keywords :
Java; biocomputing; molecular biophysics; pattern matching; user interfaces; Java language; RNA pseudoknots; context-sensitive pattern matching; user-interfaces; Computer languages; Context modeling; DNA; Pattern matching; Pattern recognition; Production; Proteins; RNA; Sequences; Splicing;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Hybrid Information Technology, 2006. ICHIT '06. International Conference on
Conference_Location :
Cheju Island
Print_ISBN :
0-7695-2674-8
Type :
conf
DOI :
10.1109/ICHIT.2006.253562
Filename :
4021165
Link To Document :
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