Bifractality of human DNA strand-asymmetry profiles results from transcription.

Samuel Nicolay 1, 2 Edward-Benedict Brodie of Brodie 1, 2 M. Touchon 3 Benjamin Audit 1, 2, * Y. d'Aubenton-Carafa 3 C. Thermes 3 Alain Arnéodo 1, 2
* Corresponding author
1 Phys-ENS - Laboratoire de Physique de l'ENS Lyon
2 Laboratoire Joliot Curie
3 CGM - Centre de génétique moléculaire
Abstract : We use the wavelet transform modulus maxima method to investigate the multifractal properties of strand-asymmetry DNA walk profiles in the human genome. This study reveals the bifractal nature of these profiles, which involve two competing scale-invariant (up to repeat-masked distances less, or similar 40 kbp) components characterized by H?r exponents h{1}=0.78 and h{2}=1, respectively. The former corresponds to the long-range-correlated homogeneous fluctuations previously observed in DNA walks generated with structural codings. The latter is associated with the presence of jumps in the original strand-asymmetry noisy signal S. We show that a majority of upward (downward) jumps co-locate with gene transcription start (end) sites. Here 7228 human gene transcription start sites from the refGene database are found within 2 kbp from an upward jump of amplitude DeltaS > or = 0.1 which suggests that about 36% of annotated human genes present significant transcription-induced strand asymmetry and very likely high expression rate.
Keywords : DNA strand-asymmetry Bifractality wavelet transform
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Journal articles
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https://hal-ens-lyon.archives-ouvertes.fr/ensl-00198448
Contributor : Benjamin Audit <>
Submitted on : Monday, December 17, 2007 - 12:40:55 PM
Last modification on : Friday, December 13, 2019 - 6:52:01 PM

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Samuel Nicolay, Edward-Benedict Brodie of Brodie, M. Touchon, Benjamin Audit, Y. d'Aubenton-Carafa, et al.. Bifractality of human DNA strand-asymmetry profiles results from transcription.. Physical Review E : Statistical, Nonlinear, and Soft Matter Physics, American Physical Society, 2007, pp.032902. ⟨10.1103/PhysRevE.75.032902⟩. ⟨ensl-00198448⟩

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