BLAST and ClustalW are the most well-known tools in bioinformatics for multiple sequence alignment (MSA). However, MSA services for biologists are not well organized. In this paper, we propose a web-based MSA system on a high performance PC-based computing cloud. It provides biologists with most procedures of MSA including experimental design, processing, editing, and reuse after authentication. Furthermore, it utilizes 16 PCs for high-speed processing and shows real-time monitoring services for user jobs.

1. NCBI, http://www.ncbi.nlm.nih.gov/

2. S. F. Altschul, et al., "Basic Local Alignment Search Tool," Journal of Molecular Biology, 215:403-410, 1990.
3. KISTI Grid Testbed, http://gridtest.hpcnet.ne.kr,
4. Higgins, D. and Sharp, P. "CLUSTAL: A Package for Performing Multiple Sequence Alignment on a Microcomputer," Gene, 73, 237-244, 1988.
5. ClustalW,  http://www.ebi.ac.uk/clustalw
6. J.D. Thompson et al., "CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice," Nucleic Acids Res, 22(22):4673-80, 1994
7. J.Ye, et al., "BLAST: improvements for better sequence alignment," Nucleic Acids Research, Vol. 34, pp. 6-9, 2006.
8. E.M. Zdobnov et al., "InterProScan - an integration platform for the signature-recognition methods in InterPro," Bioinformatics, Vol. 17, No. 9, pp. 847-848, 2001