A Novel Graphical and Numerical Representation for Analyzing DNA Sequences Based on Codons

作者：Jafarzadeh Nafiseh; Iranmanesh Ali^*

来源：MATCH-Communications in Mathematical and in Computer Chemistry, 2012, 68(2): 611-620.

One important task in the study of genome sequences and mutations is to determine densities of specific nucleotides and codons. The graphical representation of DNA sequences provide a simple way of viewing, storing, and comparing various sequences. In this paper, we first present for each kind of codon, a numerically representation as a 2D coordinate (x,y) and give a 2D graphical representation for DNA sequences. Then we transform the graphical representation into a Matrix to facilitate quantitative comparisons of DNA sequences and compute %26quot;ALE-index%26quot; for this matrix. It is an invariant of DNA sequences and using this index, we construct similarity/dissimilarity table based on this invariant for sequences of DNA of the first exon of beta-globin gene from nine species for illustrating the utility of this representation.

• 出版日期2012