Universal 1/f noise, cross-overs of scaling exponents, and chromosome specific patterns of GC content in DNA sequences of the human genome

Details Universal 1/f noise, cross-overs of scaling exponents, and chromosome specific patterns of GC content in DNA sequences of the human genome Universal 1/f noise, cross-overs of scaling exponents, and chromosome specific patterns of GC content in DNA sequences of the human genome

2004-11-03

arxiv.org/abs/q-bio/0411016v1

Physical Review E, 71, 041910 (2005)

Biology

Quantitative Biology

Genomics

9 pages (figures included), 9 figures

Scientific paper

10.1103/PhysRevE.71.041910

Spatial fluctuations of guanine and cytosine base content (GC%) are studied by spectral analysis for the complete set of human genomic DNA sequences. We find that (i) the 1/f^alpha decay is universally observed in the power spectra of all twenty-four chromosomes, and that (ii) the exponent alpha \approx 1 extends to about 10^7 bases, one order of magnitude longer than what has previously been observed. We further find that (iii) almost all human chromosomes exhibit a cross-over from alpha_1 \approx 1 (1/f^alpha_1) at lower frequency to alpha_2 < 1 (1/f^alpha_2) at higher frequency, typically occurring at around 30,000--100,000 bases, while (iv) the cross-over in this frequency range is virtually absent in human chromosome 22. In addition to the universal 1/f^alpha noise in power spectra, we find (v) several lines of evidence for chromosome-specific correlation structures, including a 500,000 bases long oscillation in human chromosome 21. The universal 1/f^alpha spectrum in human genome is further substantiated by a resistance to variance reduction in guanine and cytosine content when the window size is increased.

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