Journal of the Korean Data and Information Science Society
- Volume 17 Issue 4
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- Pages.1279-1287
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- 2006
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- 1598-9402(pISSN)
Protein Motif Extraction via Feature Interval Selection
- Sohn, In-Suk (Department of Statistics, Korea University) ;
- Hwang, Chang-Ha (Division of Information and Computer Science, Dankook University) ;
- Ko, Jun-Su (Object Interaction Technologies Inc) ;
- Chiu, David (Department of Computing and Information Science, University of Guelph) ;
- Hong, Dug-Hun (Department of Mathematics, Myongji University)
- Published : 2006.11.30
Abstract
The purpose of this paper is to present a new algorithm for extracting the consensus pattern, or motif from sequence belonging to the same family. Two methods are considered for feature interval partitioning based on equal probability and equal width interval partitioning. C2H2 zinc finger protein and epidermal growth factor protein sequences are used to demonstrate the effectiveness of the proposed algorithm for motif extraction. For two protein families, the equal width interval partitioning method performs better than the equal probability interval partitioning method.