Statistical properties of DNA sequences

C. K. Peng; S. V. Buldyrev; A. L. Goldberger; S. Havlin; R. N. Mantegna; M. Simons; H. E. Stanley

doi:10.1016/0378-4371(95)00247-5

Statistical properties of DNA sequences

C. K. Peng, S. V. Buldyrev, A. L. Goldberger, S. Havlin, R. N. Mantegna, M. Simons, H. E. Stanley

Department of Physics

Research output: Contribution to journal › Article › peer-review

127 Scopus citations

Abstract

We review evidence supporting the idea that the DNA sequence in genese containing non-coding regions is correlated, and that the correlation is remarkably long range - indeed, nucleotides 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 applying a new algorithm called detrended fluctuation analysis (DFA). We address the claim of Voss that there is no difference in the statistical properties of coding and non-coding regions of DNA by systematically applying the DFA algorithm, as well as standard FFT analysis, to every DNA sequence (33 301 coding and 29 453 non-coding) in the entire GenBank database. Finally, we describe briefly some recent work showing that the non-coding sequences have certain statistical features in common with natural and artificial languages. Specifically, we adapt to DNA the Zipf approach to analyzing linguistic texts. These statistical properties of non-coding sequences support the possibility that non-coding regions of DNA may carry biological information.

Original language	English
Pages (from-to)	180-192
Number of pages	13
Journal	Physica A: Statistical Mechanics and its Applications
Volume	221
Issue number	1-3
DOIs	https://doi.org/10.1016/0378-4371(95)00247-5
State	Published - 15 Nov 1995

Bibliographical note

Funding Information:
tive research efforts. We also wish to thank C. Cantor, C. DeLisi, M. Frank-Kamenetskii, A.Yu. Grosberg, G. Huber, I. Labat, L. Liebovitch, G.S. Michaels, P. Munson, R. Nos-sal, R. Nussinov, R.D. Rosenberg, J.J. Schwartz, M. Schwartz, E.I. Shakhnovich, M.E Shlesinger, N. Shworak, and E.N. Trifonov for valuable discussions. Partial support was provided by an NIH/NIMH Postdoctoral NRSA Fellowshipthe (to C-KP), National Science Foundation, National Institutes of Health (Human Genome Project), the G. Harold and Leila Y. Mathers Charitable Foundation, the National Heart, Lung and Blood Institute, the National Aeronautics and Space Administration, the Israel-USA Binational Science Foundation, Israel Academy of Sciences.

Funding

tive research efforts. We also wish to thank C. Cantor, C. DeLisi, M. Frank-Kamenetskii, A.Yu. Grosberg, G. Huber, I. Labat, L. Liebovitch, G.S. Michaels, P. Munson, R. Nos-sal, R. Nussinov, R.D. Rosenberg, J.J. Schwartz, M. Schwartz, E.I. Shakhnovich, M.E Shlesinger, N. Shworak, and E.N. Trifonov for valuable discussions. Partial support was provided by an NIH/NIMH Postdoctoral NRSA Fellowshipthe (to C-KP), National Science Foundation, National Institutes of Health (Human Genome Project), the G. Harold and Leila Y. Mathers Charitable Foundation, the National Heart, Lung and Blood Institute, the National Aeronautics and Space Administration, the Israel-USA Binational Science Foundation, Israel Academy of Sciences.

Funders	Funder number
Israel-USA Binational Science Foundation
NIH/NIMH
National Science Foundation
National Institutes of Health
National Aeronautics and Space Administration
G. Harold and Leila Y. Mathers Charitable Foundation
Israel National Road Safety Authority
Israel Academy of Sciences and Humanities

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title = "Statistical properties of DNA sequences",

abstract = "We review evidence supporting the idea that the DNA sequence in genese containing non-coding regions is correlated, and that the correlation is remarkably long range - indeed, nucleotides 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 applying a new algorithm called detrended fluctuation analysis (DFA). We address the claim of Voss that there is no difference in the statistical properties of coding and non-coding regions of DNA by systematically applying the DFA algorithm, as well as standard FFT analysis, to every DNA sequence (33 301 coding and 29 453 non-coding) in the entire GenBank database. Finally, we describe briefly some recent work showing that the non-coding sequences have certain statistical features in common with natural and artificial languages. Specifically, we adapt to DNA the Zipf approach to analyzing linguistic texts. These statistical properties of non-coding sequences support the possibility that non-coding regions of DNA may carry biological information.",

author = "Peng, {C. K.} and Buldyrev, {S. V.} and Goldberger, {A. L.} and S. Havlin and Mantegna, {R. N.} and M. Simons and Stanley, {H. E.}",

note = "Funding Information: tive research efforts. We also wish to thank C. Cantor, C. DeLisi, M. Frank-Kamenetskii, A.Yu. Grosberg, G. Huber, I. Labat, L. Liebovitch, G.S. Michaels, P. Munson, R. Nos-sal, R. Nussinov, R.D. Rosenberg, J.J. Schwartz, M. Schwartz, E.I. Shakhnovich, M.E Shlesinger, N. Shworak, and E.N. Trifonov for valuable discussions. Partial support was provided by an NIH/NIMH Postdoctoral NRSA Fellowshipthe (to C-KP), National Science Foundation, National Institutes of Health (Human Genome Project), the G. Harold and Leila Y. Mathers Charitable Foundation, the National Heart, Lung and Blood Institute, the National Aeronautics and Space Administration, the Israel-USA Binational Science Foundation, Israel Academy of Sciences.",

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AU - Peng, C. K.

AU - Buldyrev, S. V.

AU - Goldberger, A. L.

AU - Havlin, S.

AU - Mantegna, R. N.

AU - Simons, M.

AU - Stanley, H. E.

N1 - Funding Information: tive research efforts. We also wish to thank C. Cantor, C. DeLisi, M. Frank-Kamenetskii, A.Yu. Grosberg, G. Huber, I. Labat, L. Liebovitch, G.S. Michaels, P. Munson, R. Nos-sal, R. Nussinov, R.D. Rosenberg, J.J. Schwartz, M. Schwartz, E.I. Shakhnovich, M.E Shlesinger, N. Shworak, and E.N. Trifonov for valuable discussions. Partial support was provided by an NIH/NIMH Postdoctoral NRSA Fellowshipthe (to C-KP), National Science Foundation, National Institutes of Health (Human Genome Project), the G. Harold and Leila Y. Mathers Charitable Foundation, the National Heart, Lung and Blood Institute, the National Aeronautics and Space Administration, the Israel-USA Binational Science Foundation, Israel Academy of Sciences.

PY - 1995/11/15

Y1 - 1995/11/15

N2 - We review evidence supporting the idea that the DNA sequence in genese containing non-coding regions is correlated, and that the correlation is remarkably long range - indeed, nucleotides 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 applying a new algorithm called detrended fluctuation analysis (DFA). We address the claim of Voss that there is no difference in the statistical properties of coding and non-coding regions of DNA by systematically applying the DFA algorithm, as well as standard FFT analysis, to every DNA sequence (33 301 coding and 29 453 non-coding) in the entire GenBank database. Finally, we describe briefly some recent work showing that the non-coding sequences have certain statistical features in common with natural and artificial languages. Specifically, we adapt to DNA the Zipf approach to analyzing linguistic texts. These statistical properties of non-coding sequences support the possibility that non-coding regions of DNA may carry biological information.

AB - We review evidence supporting the idea that the DNA sequence in genese containing non-coding regions is correlated, and that the correlation is remarkably long range - indeed, nucleotides 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 applying a new algorithm called detrended fluctuation analysis (DFA). We address the claim of Voss that there is no difference in the statistical properties of coding and non-coding regions of DNA by systematically applying the DFA algorithm, as well as standard FFT analysis, to every DNA sequence (33 301 coding and 29 453 non-coding) in the entire GenBank database. Finally, we describe briefly some recent work showing that the non-coding sequences have certain statistical features in common with natural and artificial languages. Specifically, we adapt to DNA the Zipf approach to analyzing linguistic texts. These statistical properties of non-coding sequences support the possibility that non-coding regions of DNA may carry biological information.

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Statistical properties of DNA sequences

Abstract

Bibliographical note

Funding

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