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A novel graphical representation of protein sequences and its application

✍ Scribed by Bo Liao; Benyou Liao; Xinguo Lu; Zhi Cao

Publisher: John Wiley and Sons
Year: 2011
Tongue: English
Weight: 630 KB
Volume: 32
Category: Article
ISSN: 0192-8651
DOI: 10.1002/jcc.21833

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✦ Synopsis

Abstract

On the basis of information on the evolution of the 20 amino acids and their physiochemical characteristics, we propose a new two‐dimensional (2D) graphical representation of protein sequences in this article. By this representation method, we use 2D data to represent three‐dimensional information constructed by the amino acids' evolution index, the class information of amino acid based on physiochemical characteristics, and the order of the amino acids appearing in the protein sequences. Then, using discrete Fourier transform, the sequence signals with different lengths can be transformed to the frequency domain, in which the sequences are with the same length. A new method is used to analyze the protein sequence similarity and to predict the protein structural class. The experiments indicate that our method is effective and useful. © 2011 Wiley Periodicals, Inc. J Comput Chem, 2011

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