Title: A comparison of algorithms for a complete backtranslation of oligopeptides

Authors: Mohieddine Missaoui, David R.C. Hill, Pierre Peyret

Addresses: ISIMA/LIMOS UMR CNRS 6158, Blaise Pascal University, BP 10125, 63173 Aubiere Cedex, France. ' ISIMA/LIMOS UMR CNRS 6158, Blaise Pascal University, BP 10125, 63173 Aubiere Cedex, France. ' LBP UMR CNRS 6023 – Institut Universitaire de Technologie, Clermont-Ferrand I University, France

Abstract: In the context of new metabolic pathways discovery, a full backtranslation of oligopeptides can be a promising approach. When studying complex environments where the composing microorganisms are unknown, it is also preferable to have all the complete nucleic sequences corresponding to an enzyme of interest. In this paper, we revisit the existing bioinformatics applications, which bring partial reverse translation solutions, and we compare two algorithms based on oligopeptide degeneracy able to efficiently compute a complete backtranslation of oligopeptides. Such algorithms are precious for the discovery of new organisms and we show their performances on simulated and real biological data sets.

Keywords: backtranslation; microarrays; oligopeptides; probe design; metabolic pathways; nucleic sequences; enzymes; bioinformatics; organism discovery.

DOI: 10.1504/IJCBDD.2008.018708

International Journal of Computational Biology and Drug Design, 2008 Vol.1 No.1, pp.26 - 38

Published online: 14 Jun 2008 *

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