QUT ePrints

Multifractal and correlation analyses of protein sequences from complete genomes

Yu, Zu-Guo, Anh, Vo V., & Lau, Ka-Sing (2003) Multifractal and correlation analyses of protein sequences from complete genomes. Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), 68(2), 021913-1.

View at publisher

Abstract

A measure representation of protein sequences similar to the measure representation of DNA sequences proposed in our previous paper [Yu et al., Phys. Rev. E 64, 031903 (2001)] and another induced measure are introduced. Multifractal analysis is then performed on these two kinds of measures of a large number of protein sequences derived from corresponding complete genomes. From the values of the Dq (generalized dimensions)spectra and related Cq (analogous specific heat) curves, it is concluded that these protein sequences are not completely random sequences. For substrings with length K=5, the Dq spectra of all organisms studied are multifractal-like and sufficiently smooth for the Cq curves to be meaningful. The Cq curves of all bacteria resemble a classical phase transition at a critical point. But the 'analogous' phase transitions of higher organisms studied exhibit the shape of double-peaked specific heat function. But for the classification problem, the multifractal property is not sufficient. When the measure representations of protein sequences from complete genomes are considered as time series, a method based on correlation analysis after removing some memory from the time series is proposed to construct a phylogenetic tree. This construction is shown to be reasonably satisfactory.

Impact and interest:

45 citations in Scopus
Search Google Scholar™
36 citations in Web of Science®

Citation countsare sourced monthly from Scopus and Web of Science® citation databases.

These databases contain citations from different subsets of available publications and different time periods and thus the citation count from each is usually different. Some works are not in either database and no count is displayed. Scopus includes citations from articles published in 1996 onwards, and Web of Science® generally from 1980 onwards.

Citations counts from the Google Scholar™ indexing service can be viewed at the linked Google Scholar™ search.

Full-text downloads:

272 since deposited on 10 Jun 2004
16 in the past twelve months

Full-text downloadsdisplays the total number of times this work’s files (e.g., a PDF) have been downloaded from QUT ePrints as well as the number of downloads in the previous 365 days. The count includes downloads for all files if a work has more than one.

ID Code: 104
Item Type: Journal Article
Keywords: fractal, complete genome
DOI: 10.1103/PhysRevE.68.021913
ISSN: 1550-2376
Subjects: Australian and New Zealand Standard Research Classification > PHYSICAL SCIENCES (020000) > OTHER PHYSICAL SCIENCES (029900) > Biological Physics (029901)
Australian and New Zealand Standard Research Classification > MATHEMATICAL SCIENCES (010000) > PURE MATHEMATICS (010100) > Ordinary Differential Equations Difference Equations and Dynamical Systems (010109)
Divisions: Past > QUT Faculties & Divisions > Faculty of Science and Technology
Past > Schools > Mathematical Sciences
Copyright Owner: Copyright 2003 The American Physical Society
Copyright Statement: Reproduced in accordance with the copyright policy of the publisher.
Deposited On: 10 Jun 2004
Last Modified: 29 Feb 2012 23:00

Export: EndNote | Dublin Core | BibTeX

Repository Staff Only: item control page