Rescaled range and transition matrix analysis of DNA sequences

Authors
Citation
Zg. Yu et Gy. Chen, Rescaled range and transition matrix analysis of DNA sequences, COMM TH PHY, 33(4), 2000, pp. 673-678
Citations number
26
Categorie Soggetti
Physics
Journal title
COMMUNICATIONS IN THEORETICAL PHYSICS
ISSN journal
02536102 → ACNP
Volume
33
Issue
4
Year of publication
2000
Pages
673 - 678
Database
ISI
SICI code
0253-6102(20000615)33:4<673:RRATMA>2.0.ZU;2-I
Abstract
We treat some fractal and statistical features of the DNA sequences. First, a fractal record model of DNA sequence is proposed by mapping DNA sequence s to integer sequences, followed by the R/S analysis of the model and compu tation of the Hurst exponents. Second, we consider the transition between t he four kinds of bases within DNA. The transition matrix analysis of DNA se quences shows that some measures of complexity based on transition proporti on matrices are of interest. The main results are: I) H-exon > H-intron for virus. But H-intron > H-exon for the species which have the shape of cell except for drosophila. 2) For virus, E. coli, yeast, drosophila, mouse and human, measure H of transition proportion matrix of exon is larger than tha t of intron, and measures lambda, D, C, (D) over tilde and (C) over tilde o f transition proportion matrix of intron are larger than those of exon. 3) Regarding the evolution, we find that when the species go higher in grade, the measures D, C, (D) over tilde and (C) over tilde of exon become larger, the measure H of exon becomes less except for yeast. Hence for species of higher grade, the transition rate among the four kinds of bases deviates fu rther from the equilibrium.