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

Samuel Nicolay; Edward-Benedict Brodie of Brodie; M. Touchon; Benjamin Audit; Y. d'Aubenton-Carafa; C. Thermes; Alain Arnéodo

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

Document type :

Journal articles

Domain :

Life Sciences [q-bio] / Biochemistry, Molecular Biology / Genomics [q-bio.GN]

Physics [physics] / Physics [physics] / Data Analysis, Statistics and Probability [physics.data-an]

Life Sciences [q-bio] / Quantitative Methods [q-bio.QM]

Computer Science [cs] / Bioinformatics [q-bio.QM]

Complete list of metadatas

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 : Thursday, April 19, 2018 - 2:54:03 PM

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

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

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