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CLC number: Q811.4

On-line Access: 2012-01-18

Received: 2011-02-23

Revision Accepted: 2011-07-21

Crosschecked: 2011-11-16

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Journal of Zhejiang University SCIENCE B 2012 Vol.13 No.2 P.152-158

http://doi.org/10.1631/jzus.B1100052


Protein sequence analysis based on hydropathy profile of amino acids


Author(s):  Xiao-li Xie, Li-fei Zheng, Ying Yu, Li-ping Liang, Man-cai Guo, John Song, Zhi-fa Yuan

Affiliation(s):  College of Sciences, Northwest A&F University, Yangling 712100, China; more

Corresponding email(s):   xiemary@nwsuaf.edu.cn, zhifayuan@nwsuaf.edu.cn

Key Words:  Protein sequence, Sequence comparison, Similarity/dissimilarity, Conditional probability


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Xiao-li Xie, Li-fei Zheng, Ying Yu, Li-ping Liang, Man-cai Guo, John Song, Zhi-fa Yuan. Protein sequence analysis based on hydropathy profile of amino acids[J]. Journal of Zhejiang University Science B, 2012, 13(2): 152-158.

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author="Xiao-li Xie, Li-fei Zheng, Ying Yu, Li-ping Liang, Man-cai Guo, John Song, Zhi-fa Yuan",
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volume="13",
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pages="152-158",
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publisher="Zhejiang University Press & Springer",
doi="10.1631/jzus.B1100052"
}

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%T Protein sequence analysis based on hydropathy profile of amino acids
%A Xiao-li Xie
%A Li-fei Zheng
%A Ying Yu
%A Li-ping Liang
%A Man-cai Guo
%A John Song
%A Zhi-fa Yuan
%J Journal of Zhejiang University SCIENCE B
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%P 152-158
%@ 1673-1581
%D 2012
%I Zhejiang University Press & Springer
%DOI 10.1631/jzus.B1100052

TY - JOUR
T1 - Protein sequence analysis based on hydropathy profile of amino acids
A1 - Xiao-li Xie
A1 - Li-fei Zheng
A1 - Ying Yu
A1 - Li-ping Liang
A1 - Man-cai Guo
A1 - John Song
A1 - Zhi-fa Yuan
J0 - Journal of Zhejiang University Science B
VL - 13
IS - 2
SP - 152
EP - 158
%@ 1673-1581
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PB - Zhejiang University Press & Springer
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DOI - 10.1631/jzus.B1100052


Abstract: 
Biology sequence comparison is a fundamental task in computational biology. According to the hydropathy profile of amino acids, a protein sequence is taken as a string with three letters. Three curves of the new protein sequence were defined to describe the protein sequence. A new method to analyze the similarity/dissimilarity of protein sequence was proposed based on the conditional probability of the protein sequence. Finally, the protein sequences of ND6 (NADH dehydrogenase subunit 6) protein of eight species were taken as an example to illustrate the new approach. The results demonstrated that the method is convenient and efficient.

Darkslateblue:Affiliate; Royal Blue:Author; Turquoise:Article

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