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首页> 外文期刊>IEEE/ACM transactions on computational biology and bioinformatics >Graphical Representation and Similarity Analysis of Protein Sequences Based on Fractal Interpolation
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Graphical Representation and Similarity Analysis of Protein Sequences Based on Fractal Interpolation

机译：基于分形插值的蛋白质序列图形表示与相似度分析

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摘要

A new graphical representation of protein sequences is introduced in this paper. Nine main physicochemical properties of amino acids were used to obtain a 2D discrete point set for protein sequences by applying principal component analysis. The fractal method was then employed to interpolate discrete points in constructing a graphical representation of protein sequences. Fractal dimension of the protein curve was used to analyze the similarity of protein sequences by comparing the distance of vectors representing segments of protein sequences. The Jeffrey's and Matusita distance was modified in the similarity comparison of protein sequences with different lengths. Nine different species from Nicotinamide adenine dinucleotide (NADH) dehydrogenase 5 (ND5) protein sequences were tested as an example to demonstrate our method. Finally, a linear correlation and significance analysis was used to compare our results with other graphical representations referring to the ClustalW result. To confirm the validity of our method, eight species in NADH dehydrogenase 6 (ND6) protein families and twenty-seven species in beta-globin protein families were also analyzed. Experimental results show that the proposed method is effective for the similarity analysis of proteins.
机译：本文介绍了蛋白质序列的新图形表示。通过应用主成分分析，氨基酸的九种主要理化特性被用于获得蛋白质序列的二维离散点集。然后使用分形方法对离散点进行插值，以构建蛋白质序列的图形表示。通过比较代表蛋白质序列片段的载体的距离，使用蛋白质曲线的分形维数来分析蛋白质序列的相似性。 Jeffrey和Matusita距离在不同长度蛋白质序列的相似性比较中被修改。以烟酰胺腺嘌呤二核苷酸（NADH）脱氢酶5（ND5）蛋白质序列中的9种不同物种为例，对我们的方法进行了测试。最后，使用线性相关性和显着性分析将我们的结果与其他参考ClustalW结果的图形表示形式进行比较。为了证实我们方法的有效性，还分析了NADH脱氢酶6（ND6）蛋白质家族中的8种和β-珠蛋白蛋白质家族中的27种。实验结果表明，该方法对蛋白质的相似性分析是有效的。

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