Special issue on GIW2013 http://www.worldscientific.com/worldscinet/jbcb JBCB has been included in Science Citation Index Expanded. The first impact factor will be available in 2013 Journal Citation Reports/Science Edition. In this paper, three genomic materials--DNA sequences, protein sequences, and regions (domains) are used to compare methods of virus classification. Virus classes (categories) are divided by various taxonomic level of virus into three datasets for 6 order, 42 family, and 33 genera. To increase the robustness and comparability of experimental results of virus classification, the classes are selected that contain at least 10 instances, and meanwhile each instance contains at least one region name. Experimental results show that the approach using region names achieved the best accuracies--reaching 99.9%, 97.3%, and 99.0% for 6 orders, 42 families, and 33 genera, respectively. This paper not only involves exhaustive experiments that compare virus classifications using different genomic materials, but also proposes a novel approach to biological classification based on molecular biology instead of traditional morphology.
Journal of Bioinformatics and Computational Biology, 11(6).