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Similarity analysis of DNA sequences based on the weighted pseudo-entropy

✍ Scribed by Chun Li; Hong Ma; Yang Zhou; Xiaolei Wang; Xiaoqi Zheng

Publisher: John Wiley and Sons
Year: 2010
Tongue: English
Weight: 91 KB
Volume: 32
Category: Article
ISSN: 0192-8651
DOI: 10.1002/jcc.21656

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✦ Synopsis

A DNA primary sequence is a string consisting of letters on an alphabet X 5 {a, c, g, t}. Based on all of the 2-combinations of the set X, here the repetition is allowed, we transform a DNA primary sequence into a special sequence over a set with cardinality 10. With the 10-letter sequence, we associate 10 nonnegative numerical sequences and then derive a 10-component vector by means of a weighted pseudo-entropy, which can reflect the information on elements of a sequence and, especially, the order relation among them. The new quantitative characterization of DNA sequences is sensitive to substitution of the string elements. The examination of the relationship among b-globin genes of 15 species illustrates the utility of the proposed approach.

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