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Scaling behaviors of CG clusters for chromosomes

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  • Cheng, Jun
  • Zhang, Linxi

Abstract

In this paper we adopt a new method to study the scaling behaviors of CG clusters in different organism chromosomes. The statistical distributions of CG and AT clusters for different chromosomes have the same scaling behaviors, i.e. P(S)∝e−αS. The values of α are very close to each other for the same organism chromosomes, and depend on different organism chromosomes. We also find that the parameter ξ(m)=σ(m)m of CG cluster complies with the good power law ξ(m)∝m−γ. Here σ(m)=〈n¯〉2-〈n¯2〉, and m is the number of bases in consecutive, non-overlapping blocks. The values of γ have the same behavior as the values of α in statistical distributions of P(S)∝e−αS. Meanwhile, we also consider the relationship between the values of γ and the percentage of cluster CG content for different organism chromosomes, and there are some relations between them. These investigations provide some insights into the nucleotide clusters of chromosomes, and help us understand DNA sequences of chromosomes.

Suggested Citation

  • Cheng, Jun & Zhang, Linxi, 2005. "Scaling behaviors of CG clusters for chromosomes," Chaos, Solitons & Fractals, Elsevier, vol. 25(2), pages 339-346.
    • Handle: RePEc:eee:chsofr:v:25:y:2005:i:2:p:339-346
    DOI: 10.1016/j.chaos.2004.12.004
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    References listed on IDEAS

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    1. Provata, A. & Almirantis, Y., 1997. "Scaling properties of coding and non-coding DNA sequences," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 247(1), pages 482-496.
    2. Zhang, Linxi & Chen, Jin, 2005. "Scaling behaviors of CG clusters in coding and noncoding DNA sequences," Chaos, Solitons & Fractals, Elsevier, vol. 24(1), pages 115-123.
    3. Herzel, H & Trifonov, E.N & Weiss, O & Große, I, 1998. "Interpreting correlations in biosequences," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 249(1), pages 449-459.
    4. Viswanathan, G.M. & Buldyrev, S.V. & Havlin, S. & Stanley, H.E., 1998. "Long-range correlation measures for quantifying patchiness: Deviations from uniform power-law scaling in genomic DNA," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 249(1), pages 581-586.
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