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Bioinformatics Advance Access originally published online on April 1, 2004
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Bioinformatics 20(13) © Oxford University Press 2004; all rights reserved.

Applications Note

TIP: protein backtranslation aided by genetic algorithms

Andrés Moreira * and Alejandro Maass

Centro de Modelamiento Matemático and Departamento de Ingeniería Matemática FCFM, U. de Chile, Casilla 170/3-Correo 3, Santiago, Chile

Received on February 18, 2004; accepted on March 10, 2004
Advance Access Publication April 1, 2004

Summary: Several applications require the backtranslation of a protein sequence into a nucleic acid sequence. The degeneracy of the genetic code makes this process ambiguous; moreover, not every translation is equally viable. The usual answer is to mimic the codon usage of the target species; however, this does not capture all the relevant features of the ‘genomic styles’ from different taxa. The program TIP ‘ Traducción Inversa de Proteínas’) applies genetic algorithms to improve the backtranslation, by minimizing the difference of some coding statistics with respect to their average value in the target.

Availability: http://www.cmm.uchile.cl/genoma/tip/

Contact: anmoreir{at}dim.uchile.cl

* To whom correspondence should be addressed.


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