dorsal/arxiv
View SchemaCharacterizing large scale base composition structures of genomes
| Authors | Zhengqing Ouyang, Jian Liu, Zhen-Su She |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0409027 |
| URL | https://arxiv.org/abs/q-bio/0409027 |
Abstract
Intermittent density fluctuations of nucleotide molecules (adenine, guanine, cytosine and thymine) along DNA sequences are studied in the framework of a hierarchical structure (HS) model originally proposed for the study of fully developed turbulence [She and Leque, Phys. Rev. Lett. 72}, 336 (1994)]. Large scale (10^3 < \ell < 10^5 bp) base density fluctuation is shown to satisfy the HS similarity. The derived values of a HS parameter $\beta$ from a large number of genome data (including Bacteria, Archaea, human chromosomes and viruses) characterize different biological properties such as strand symmetry, phylogenetic relations and horizontal gene transfer. It is suggested that the HS analysis offers a useful quantitative description for heterogeneity, sequence complexity and large scale structures of genomes.
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"abstract": "Intermittent density fluctuations of nucleotide molecules (adenine, guanine,\ncytosine and thymine) along DNA sequences are studied in the framework of a\nhierarchical structure (HS) model originally proposed for the study of fully\ndeveloped turbulence [She and Leque, Phys. Rev. Lett. 72}, 336 (1994)]. Large\nscale (10^3 \u003c \\ell \u003c 10^5 bp) base density fluctuation is shown to satisfy the\nHS similarity. The derived values of a HS parameter $\\beta$ from a large number\nof genome data (including Bacteria, Archaea, human chromosomes and viruses)\ncharacterize different biological properties such as strand symmetry,\nphylogenetic relations and horizontal gene transfer. It is suggested that the\nHS analysis offers a useful quantitative description for heterogeneity,\nsequence complexity and large scale structures of genomes.",
"arxiv_id": "q-bio/0409027",
"authors": [
"Zhengqing Ouyang",
"Jian Liu",
"Zhen-Su She"
],
"categories": [
"q-bio.GN",
"q-bio.PE"
],
"title": "Characterizing large scale base composition structures of genomes",
"url": "https://arxiv.org/abs/q-bio/0409027"
},
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