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Scaling behaviors of CG clusters in coding and noncoding DNA sequences

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  • Zhang, Linxi
  • Chen, Jin

Abstract

In this paper the statistical properties of CG clusters in coding and non-coding DNA sequences are investigated through calculating the cluster-size distribution of CG clusters P(S) and the breadth of the distribution of the root-mean-square size of CG clusters σm in consecutive, non-overlapping blocks of m bases. There do exist some differences between coding and non-coding sequences. The cluster-size distribution of CG clusters P(S) for both coding and noncoding sequences follows an exponential decay of P(S)∝e−αS, and the value of α depends on the percentage of C–G content for coding sequences. It can fit into a linear line regularly but the case is contrary for noncoding sequences. We find that ξ(m)=σmm of CG clusters all obeys the good power-law decay of ξ(m)∝m−γ in both coding and non-coding sequences, and the value of γ is 0.949±0.014 and 0.826±0.011 for coding and noncoding sequences, respectively. Therefore, we can distinguish between coding and non-coding sequences on the basis of the value of γ. At the meantime, we also discuss the power-law of ξ(m)∝m−γ for random sequence, and find that the value of γ for random sequence is very close to 1.00. So we can know that the value of γ for coding sequences is more close to the random sequence, and obtain the conclusion that the behavior of coding sequence trends to random sequence more similarly. This investigation can provide some insights into DNA sequences.

Suggested Citation

  • 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.
    • Handle: RePEc:eee:chsofr:v:24:y:2005:i:1:p:115-123
    DOI: 10.1016/j.chaos.2004.07.013
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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. Katsaloulis, P & Theoharis, T & Provata, A, 2002. "Statistical distributions of oligonucleotide combinations: applications in human chromosomes 21 and 22," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 316(1), pages 380-396.
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    Cited by:

    1. Cheng, Jun & Zhang, Linxi, 2005. "Scaling behaviors of CG clusters for chromosomes," Chaos, Solitons & Fractals, Elsevier, vol. 25(2), pages 339-346.

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