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An Efficient Method for Multiple Sequence Alignment using Subalignment Refinement  

Kim, Jin (한림대학교 정보통신공학부)
Jung, Woo-Cheol (한림대학교 컴퓨터공학과)
Uhmn, Saang-Yong (한림대학교 교양교육부)
Publication Information
Journal of KIISE:Software and Applications / v.30, no.9, 2003 , pp. 803-811 More about this Journal
Abstract
Multiple sequence alignment is a useful tool to identify the relationships among protein sequences. Dynamic programming is the most widely used algorithm to obtain multiple sequence alignment with optimal cost. However, dynamic programming cannot be applied to certain cost function due to its drawback and cannot be used to produce optimal multiple sequence alignment. We propose sub-alignment refinement algorithm to overcome the problem of dynamic programming. Also we show proposed algorithm can solve the problem of dynamic programming efficiently.
Keywords
multiple sequence alignment; optimization algorithm; dynamic programming;
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