A graphical representation of protein based on a novel iterated function system

Tingting Ma, Yuxin Liu, Qi Dai, Yuhua Yao and Ping-an He

Physica A: Statistical Mechanics and its Applications, 2014, vol. 403, issue C, 21-28

Abstract: In this article, a novel family of iterated function system (IFS) was introduced to outline a 2D graphical representation of protein sequences, which incorporates with various physicochemical properties of amino acids. Then a mathematical description was suggested to quantificationally compare the similarities and dissimilarities of protein sequences from their 2D curves. Based on this method, similarities/dissimilarities were compared among sequences of the ND5 proteins of nine different species, as well as sequences of eight ND6 proteins. The phylogenetic tree of the nine ND5 proteins was constructed according to Fuzzy cluster analysis. By correlation analysis, the ClustalW results were compared with our similarity/dissimilarity results and other graphical representation results to demonstrate the effectiveness of our approach.

Keywords: Mathematical description; Similarity; Fuzzy cluster analysis; Correlation analysis; Physicochemical property (search for similar items in EconPapers)
Date: 2014
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Citations: View citations in EconPapers (1)

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Persistent link: https://EconPapers.repec.org/RePEc:eee:phsmap:v:403:y:2014:i:c:p:21-28

DOI: 10.1016/j.physa.2014.01.067

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