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A new way to visualize DNA’s base succession: the Caenorhabditis elegans chromosome landscapes

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Abstract

In the eukaryotic genomes, the genetic diseases are generally associated with the tandem repeats. These repeats seem to appear frequently. In this paper, we are describing a wavelet transform technique which provides a new way to represent the DNA succession bases as a DNA progression images. These images offer DNA landscapes, visualizing and following up periodicities through genomes. We investigated in a structural coding technique the Pnuc. Then, we illustrated, with time–frequency representation, the existence and the superposition of the periodicities in some biological features, their locations and the different ways in which they appear. The representations generated showed that one periodicity can sometimes be alone, but generally, it is incorporated to others. These periodicities associations create, in the Caenorhabditis elegans chromosome, a precise structural image of biological features, such as CeRep, Helitrons, repeats and satellites.

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Authors and Affiliations

  1. Laboratoire Signal, Image et Technologies de l’information, Département de Génie Electrique, Ecole Nationale d’Ingénieurs de Tunis, BP 37, Campus Universitaire, Le Belvédère, 1002, Tunis Cedex, Tunisia

    Afef Elloumi Oueslati, Imen Messaoudi & Noureddine Ellouze

  2. Département de Génie Physique et Instrumentation, Institut National des Sciences Appliquées et de Technologie, BP 676, Centre Urbain, 1080, Tunis Cedex, Tunisia

    Zied Lachiri

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  1. Afef Elloumi Oueslati
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  2. Imen Messaoudi
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  3. Zied Lachiri
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  4. Noureddine Ellouze
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Correspondence to Afef Elloumi Oueslati.

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Oueslati, A.E., Messaoudi, I., Lachiri, Z. et al. A new way to visualize DNA’s base succession: the Caenorhabditis elegans chromosome landscapes. Med Biol Eng Comput 53, 1165–1176 (2015). https://doi.org/10.1007/s11517-015-1304-9

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  • DOI: https://doi.org/10.1007/s11517-015-1304-9

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