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Finite-size effects on long-range correlations: implications for analyzing DNA sequences

Peng C-K1, S V Buldyrev, A L Goldberger

  • 1Department of Physics, Boston University, Massachusetts 02215, USA.

Physical Review. E, Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics
|May 1, 1993
PubMed
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Fluctuations in DNA sequence scaling exponents are consistent with long-range power-law correlations. The DNA-walk method offers reduced noise and superior accuracy compared to other techniques for analyzing these correlations.

Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Noncoding DNA sequences exhibit complex correlation patterns.
  • Previous analyses of DNA sequence correlations have yielded variable results.

Purpose of the Study:

  • To investigate fluctuations in correlation exponents of noncoding DNA.
  • To determine if observed fluctuations stem from finite system size.
  • To compare the accuracy of the DNA-walk method with other correlation analysis techniques.

Main Methods:

  • Analysis of correlation exponent fluctuations in noncoding DNA sequences.
  • Generation and analysis of correlated random sequences as a control system.
  • Comparison of DNA-walk method exponents with power-spectrum and correlation-function techniques.
Keywords:
NASA Discipline CardiopulmonaryNASA Discipline Number 14-10Non-NASA Center

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Main Results:

  • Prominent sample-to-sample and within-sample variations were observed in scaling exponents.
  • DNA exponent fluctuations align with those from control sequences exhibiting long-range power-law correlations.
  • The DNA-walk method demonstrated higher accuracy with reduced noise compared to alternative methods.

Conclusions:

  • Fluctuations in DNA sequence correlation exponents are attributable to inherent long-range correlations and potentially finite system size.
  • The DNA-walk method is a robust and accurate tool for analyzing DNA sequence correlations.