Non-stationary analysis of DNA sequences

Nidhal Bouaynaya, Dan Schonfeld

Research output: Chapter in Book/Report/Conference proceedingConference contribution

5 Scopus citations

Abstract

Previous searches for long-range correlations in DNA sequences was carried out using statistical tools for stationary signals. However, genomic signals are non-stationary as can be attested by standard statistical tests for stationarity. In this paper, we address, in the light of non-stationary time-series analysis, the questions of (i) the existence of long-range correlations in DNA sequences and (ii) whether they are present in both coding and non-coding segments or only in the latter. It turns out that the statistical differences between coding and non-coding segments are more subtle than previously claimed by the stationary analysis. Both coding and non-coding sequences exhibit long-range correlations, as asserted by an evolutionary 1/f spectrum (i.e., having a time-dependent spectral exponent). Moreover, the average spectral exponent of non-coding segments is higher than its counterpart for coding segments. To prove that this observation is not an artifact of the 1/f evolutionary spectrum, we show, using an index of randomness that we derive from the frequency-time distribution of the genomic signals, that coding sequences are "more random" (i.e., whiter) than non-coding sequences. We believe that this result is likely the source of confusion and controversy in previous work, which relied on stationary analysis of DNA correlations.

Original languageEnglish (US)
Title of host publication2007 IEEE/SP 14th Workshop on Statistical Signal Processing, SSP 2007, Proceedings
Pages200-204
Number of pages5
DOIs
StatePublished - Dec 1 2007
Externally publishedYes
Event2007 IEEE/SP 14th WorkShoP on Statistical Signal Processing, SSP 2007 - Madison, WI, United States
Duration: Aug 26 2007Aug 29 2007

Other

Other2007 IEEE/SP 14th WorkShoP on Statistical Signal Processing, SSP 2007
CountryUnited States
CityMadison, WI
Period8/26/078/29/07

All Science Journal Classification (ASJC) codes

  • Signal Processing

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