Method and device for optimizing a nucleotide sequence for...

C - Chemistry – Metallurgy – 12 – N

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C12N 15/27 (2006.01) C07H 21/00 (2006.01) C12M 1/36 (2006.01) C12N 15/11 (2006.01) C12N 15/12 (2006.01) C12N 15/19 (2006.01) C12N 15/24 (2006.01) C12N 15/29 (2006.01) C12N 15/31 (2006.01) C12N 15/52 (2006.01) C12P 21/00 (2006.01) G06F 19/00 (2006.01)

Patent

CA 2511503

The invention relates to a method for optimizing a nucleotide sequence for the purpose of expression of a protein on the basis of the amino acid sequence of said protein. According to the inventive method, a test sequence with m optimization positions is determined for a defined region, in which positions the codon usage is varied. The optimum codon usage on said optimization positions is determined by means of a power function and one or more codons of said optimum usage are determined as the codons of the optimized nucleotide sequence. These steps are iterated, while the codons of the optimized nucleotide sequence determined in the preceding steps remain unchanged during the subsequent iteration steps. The invention further relates to a device for carrying out said method.

L'invention concerne un procédé pour optimiser une séquence nucléotidique pour l'expression d'une protéine sur la base de la séquence d'aminoacides de la protéine. Selon ledit procédé, une séquence test avec m positions d'optimisation est fixée pour une région déterminée, positions sur lesquelles l'occupation des codons varie. Au moyen d'une fonction de qualité, l'occupation de codons optimale au niveau de ces positions d'optimisation est déterminée et au moins un codon de cette occupation optimale est fixé comme étant le codon de la séquence nucléotidique optimisée. Ces étapes sont itérées, les codons de la séquence nucléotidique optimisée fixés dans les étapes précédentes restant inchangés pour les étapes d'itération suivantes. L'invention concerne en outre un dispositif permettant la mise en oeuvre de ce procédé.

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