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International Journal of Genomics
Volume 2013 (2013), Article ID 614923, 9 pages
http://dx.doi.org/10.1155/2013/614923
Research Article

Open Reading Frame Phylogenetic Analysis on the Cloud

1Department of Computer Science and Communication Engineering, Providence University, Taichung 43301, Taiwan
2Department of Computer Science and Information Engineering, Chang Gung University, Taoyuan 333, Taiwan

Received 28 December 2012; Accepted 23 February 2013

Academic Editor: Chuan Yi Tang

Copyright © 2013 Che-Lun Hung and Chun-Yuan Lin. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Abstract

Phylogenetic analysis has become essential in researching the evolutionary relationships between viruses. These relationships are depicted on phylogenetic trees, in which viruses are grouped based on sequence similarity. Viral evolutionary relationships are identified from open reading frames rather than from complete sequences. Recently, cloud computing has become popular for developing internet-based bioinformatics tools. Biocloud is an efficient, scalable, and robust bioinformatics computing service. In this paper, we propose a cloud-based open reading frame phylogenetic analysis service. The proposed service integrates the Hadoop framework, virtualization technology, and phylogenetic analysis methods to provide a high-availability, large-scale bioservice. In a case study, we analyze the phylogenetic relationships among Norovirus. Evolutionary relationships are elucidated by aligning different open reading frame sequences. The proposed platform correctly identifies the evolutionary relationships between members of Norovirus.