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A measure of DNA sequence dissimilarity based on free energy of nearest-neighbor interaction
1Department of Mathematics and Statistics, Shandong University at Weihai, Weihai 264209, China. zhangys@sdu.edu.cn
Abstract:
We develop a novel method of asserting the similarity between two biological sequences without the need for alignment. The proposed method uses free energy of nearest-neighbor interactions as a simple measure of dissimilarity. It is used to perform a search for similarities of a query sequence against three complex datasets. The sensitivity and selectivity are computed and evaluated and the performance of the proposed distance measure is compared. Real data analysis shows that is a very efficient, sensitive and high-selective algorithm in comparing large dataset of DNA sequences.
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