Phylogenetic analysis of DNA sequences based on the generalized pseudo-amino acid composition.
The main work of this paper is to propose a new theory and method, which is based on the idea of the pseudo-amino acid composition, for phylogenetic analysis of DNA primary sequences. In our method, we revise the part of the occurrence frequency of 20 amino acids in the method of the pseudo-amino acid composition by replacing the frequency of 16 dinucleotides. And we select eight LZ complexity factors of eight (0,1) sequences of a DNA primary sequence as PseAA components. Finally, we characterize a DNA sequence with a 24-dimensional vector. We reconstruct the phylogenetic trees of two datasets. The results show that our method is efficient and significant.
School of Mathematical Sciences, Dalian University of Technology, Dalian, Liaoning 116024, PR China. yujuanh518@163.com
Yujuan
Y
Huang
Lianping
L
Yang
Tianming
T
Wang
D000596:Amino Acids / Q000235:genetics*; D000818:Animals; D001483:Base Sequence; D004247:DNA / Q000235:genetics*; D030561:Databases, Nucleic Acid; D016752:Hepatitis E virus / Q000235:genetics; D008322:Mammals / Q000235:genetics; D010802:Phylogeny; D017422:Sequence Analysis, DNA / Q000379:methods*; D013045:Species Specificity
D000596:Amino Acids; D004247:DNA