The methods of log-correlation distance and mutual information for constructing genome phylogenetic tree of parvoviruses
Proceedings - 2010 3rd International Conference on Biomedical Engineering and Informatics, BMEI 2010（2010）
Abstract
The taxonomy of the parvoviruses has been provided in the VIIIth report of ICTV. In this paper, we use two methods (log-correlation distance and mutual information) analyze the complete genome of the 30 parvoviruses and construct phylogenetic trees based on compositional vectors of DNA sequences or protein sequences. The phylogenetic trees show the parvovirus genomes are separated into two major groups. One group corresponds to the subfamily Parvovirinae, and the other group corresponding to the subfamily Densovirinae. The structures of the trees are mostly consistent with the taxonomy of the VIIIth report of ICTV.
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Key words
DNA,bioinformatics,data handling,genomics,matrix algebra,microorganisms,molecular biophysics,proteins,trees (mathematics),DNA sequence,data handling,distance matrices,genome phylogenetic tree,log-correlation distance,mutual information,parvovirus,protein sequence,complete genomes,log-correlation distance,mutual information,phylogeny of parvoviruses,
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