Method and device for optimizing a nucelotide sequence for the purpose of expression in a protein

A device for optimizing a nucleotide sequence for the expression of a protein on the basis of the amino acid sequence of the protein, which has a computer unit which comprises:

• a unit for generation of a first test sequence of n codons which correspond to n consecutive amino acids in the protein sequence, where n is a natural number and is less than or equal to N, the number of amino acids in the protein sequence,
• a unit for specification of m optimiziation positions in the test sequence which correspond to the position of m codons at which the occupation by a codon, relative to the test sequence, is to be optimized, where m≦n and m<M,
• a unit for generation of one or more further test sequences from the first test sequence by replacing at one or more of the m optimization positions a codon of the first test sequence by another codon which expresses the same amino acid,
• a unit for assessment of each of the test sequences with a quality function and for ascertaining the test sequence which is optimal in relation to the quality function,
• a unit for specification of p codons of the optimal test sequence which are located at one of the m optimization positions, as result codons which form the codons of the optimized nucleotide sequence at the positions which correspond to the positions of said p codons in the test sequence, where p is a natural number and p≦m,
• a unit for iteration of the steps of generation of a plurality of test functions, of assessment of the test sequences and of specification of result codons, where in each iteration step the test sequence comprises the appropriate result codon at the positions which correspond to positions of specified result condons in the optimized nucleotide sequence, and the optimization positions are different from positions of result codons.