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Regularity dimension of sequences and its application to phylogenetic tree reconstruction

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  • Pham, Tuan D.

Abstract

The concept of dimension is a central development of chaos theory for studying nonlinear dynamical systems. Different types of dimensions have been derived to interpret different geometrical or physical observations. Approximate entropy and its modified methods have been introduced for studying regularity and complexity of time-series data in physiology and biology. Here, the concept of power laws and entropy measure are adopted to develop the regularity dimension of sequences to model a mathematical relationship between the frequency with which information about signal regularity changes in various scales. The proposed regularity dimension is applied to reconstruct phylogenetic trees using mitochondrial DNA (mtDNA) sequences for the family Hominidae, which can be validated according to the hypothesized evolutionary relationships between organisms.

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  • Pham, Tuan D., 2012. "Regularity dimension of sequences and its application to phylogenetic tree reconstruction," Chaos, Solitons & Fractals, Elsevier, vol. 45(6), pages 879-887.
    • Handle: RePEc:eee:chsofr:v:45:y:2012:i:6:p:879-887
    DOI: 10.1016/j.chaos.2012.03.001
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    1. Igor V. Ovchinnikov & Anders Götherström & Galina P. Romanova & Vitaliy M. Kharitonov & Kerstin Lidén & William Goodwin, 2000. "Molecular analysis of Neanderthal DNA from the northern Caucasus," Nature, Nature, vol. 404(6777), pages 490-493, March.
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    Cited by:

    1. Pham, Tuan D. & Thang, Truong Cong & Oyama-Higa, Mayumi & Sugiyama, Masahide, 2013. "Mental-disorder detection using chaos and nonlinear dynamical analysis of photoplethysmographic signals," Chaos, Solitons & Fractals, Elsevier, vol. 51(C), pages 64-74.
    2. Lahmiri, Salim & Tadj, Chakib & Gargour, Christian & Bekiros, Stelios, 2021. "Characterization of infant healthy and pathological cry signals in cepstrum domain based on approximate entropy and correlation dimension," Chaos, Solitons & Fractals, Elsevier, vol. 143(C).

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