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Statistical and Linguistic Features of DNA Sequences

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Physics of Biomaterials: Fluctuations, Selfassembly and Evolution

Part of the book series: NATO ASI Series ((NSSE,volume 322))

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Abstract

We present evidence supporting the idea that the DNA sequence in genes containing noncoding regions is correlated, and that the correlation is remarkably long range—indeed, base pairs thousands of base pairs distant are correlated. We do not find such a long-range correlation in the coding regions of the gene. We resolve the problem of the “non-stationarity” feature of the sequence of base pairs by systematically applying many methods, including a new algorithm called Detrended Fluctuation Analysis (DFA). We refute the claim of Voss that there is no difference in the statistical properties of coding and noncoding regions of DNA by systematically applying the DFA algorithm, as well as standard FFT analysis, to all eukaryotic DNA sequences in the entire GenBank database with more than 512 base pairs (33 301 coding and 29 453 noncoding sequences). We describe a simple model to account for the presence of long-range power-law correlations which is based upon a generalization of the classic Lévy walk. Finally, we adapt to DNA the Zipf approach to analyzing linguistic texts, and the Shannon approach to quantifying the “redundancy” of a linguistic text in terms of a measurable entropy function. We systematically compare coding and noncoding regions, and find differences whose possible significance is a topic of current study.

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Authors and Affiliations

  1. Physics Department, Boston University, Boston, MA, 02215, USA

    H. E. Stanley, S. V. Buldyrev, S. Havlin, R. N. Mantegna & C.-K. Peng

  2. Harvard Medical School, Beth Israel Hospital, Boston, MA, 02215, USA

    A. L. Goldberger, C.-K. Peng & M. Simons

  3. Biomedical Engineering, Boston University, Boston, MA, 02215, USA

    A. L. Goldberger

  4. Bar-Ilan University, Ramat-Gan, 52900, Israel

    S. Havlin

  5. Palermo University, Palermo, I-90128, Italy

    R. N. Mantegna

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  1. H. E. Stanley
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Editors and Affiliations

  1. Institute for Energy Technology, Kjeller, Norway

    Tormod Riste (director) (director)

  2. Department of Physics, University of Oxford, UK

    David Sherrington

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© 1996 Kluwer Academic Publishers

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Stanley, H.E. et al. (1996). Statistical and Linguistic Features of DNA Sequences. In: Riste, T., Sherrington, D. (eds) Physics of Biomaterials: Fluctuations, Selfassembly and Evolution. NATO ASI Series, vol 322. Springer, Dordrecht. https://doi.org/10.1007/978-94-009-1722-4_9

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  • DOI: https://doi.org/10.1007/978-94-009-1722-4_9

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