Local scaling and multifractal spectrum analyses of DNA sequences – GenBank data analysis
Local scaling and multifractal spectrum analyses of DNA sequences – GenBank data analysis
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DOI：
10.1016/j.chaos.2007.09.078
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发表时间：
2009-05
影响因子：
7.8
通讯作者：
Zhi-Yuan Su;Tzuyin Wu;Shu-Yin Wang
中科院分区：
文献类型：
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作者：
Zhi-Yuan Su;Tzuyin Wu;Shu-Yin Wang
生物体中脱氧核糖核酸（DNA）的碱基序列携带着关于其生长和发育的所有指令。从表面上看，这些序列似乎是不规则的;但实际上，它们是具有组织结构的符号序列。本文从分形理论的角度研究了DNA序列中碱基的排列和分布特征。除了DNA序列所显示的多重分形特征外，本研究还比较了几个不同物种之间特定基因家族的多重分形谱。结果表明，碱基分布与演化顺序之间存在着相当大的相关性。此外，局部标度指数（Hölder指数）编码片段（外显子）和非编码片段（内含子）之间的差异也进行了检查。有人建议，这种差异的本地分布的碱基可以被应用到寻找编码段内的DNA序列被翻译成蛋白质。这种局部标度分析是可行的，并有可能成为一个有效的工具，快速定位可能的编码位点的DNA序列。作者希望未来使用更复杂的生物信息学方法分析DNA序列的研究可以从这项研究中受益。
Base sequences of deoxyribonucleic acid (DNA) in an organism carry all the instructions regarding its growth and development. On the surface, such sequences seem irregular; yet in reality, they are symbolic sequences with an organized structure. This study investigates the characteristics of base arrangement and distribution in DNA sequences from the fractal theory viewpoint. In addition to multifractal features demonstrated by the DNA sequence, this study also compares the multifractal spectra derived from a particular family of gene among several different species. The results reveal that a considerable correlation exists between base distribution and evolutionary order. Furthermore, local scaling exponent (Hölder exponent) differences between coding segments (exon) and non-coding segments (intron) are also examined. It is suggested that such differences in the local distribution of bases can be applied to find coding segments within the DNA sequence that is to be translated into protein. This local scaling analysis is feasible and has the potential to become an effective tool for rapid location of possible coding sites in DNA sequences. The authors hope that future studies using more complicated bioinformatics methods for analyzing DNA sequences can benefit from this study.