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| Content Provider | IEEE Xplore Digital Library |
|---|---|
| Author | Borovska, P. Gancheva, V. Markov, S. Georgiev, I. Asenov, E. |
| Copyright Year | 2011 |
| Description | Author affiliation: Computer Systems Department, Technical University of Sofia, 1000, Kliment Ohridski 8 boul., Bulgaria (Borovska, P.; Gancheva, V.; Markov, S.; Georgiev, I.; Asenov, E.) |
| Abstract | Biological sequence processing is a key of information technology for molecular biology. This scientific area requires powerful computing resources for exploring large sets of biological data. Multiple sequence alignment is an important method in the DNA and protein analysis. ClustalW has become the most popular tool and implements a progressive method for multiple sequence alignment. The goal of this paper is to propose the performance evaluation of the efficiency of parallel multiple alignment on the supercomputer BlueGene/P for the case study of investigating viral nucleotide sequences and finding out consensus motifs and variable domains in the different segments of influenza virus A genome. Parallel performance evaluation and profiling of multiple sequence alignment have been performed on the basis of parallel program implementation based on ClustalW method and a local mirror database of all available isolates of the 8 segments of the influenza virus A. The molecular biology outcome of the experiments is that the consensus and the variable domains in Influenza virus A under investigation have been determined and output by utilizing the biological sequence alignment editor UGENE UniPro. |
| Starting Page | 233 |
| Ending Page | 237 |
| File Size | 761418 |
| Page Count | 5 |
| File Format | |
| ISBN | 9781457714269 |
| e-ISBN | 9781457714252 |
| DOI | 10.1109/IDAACS.2011.6072747 |
| Language | English |
| Publisher | Institute of Electrical and Electronics Engineers, Inc. (IEEE) |
| Publisher Date | 2011-09-15 |
| Publisher Place | Czech Republic |
| Access Restriction | Subscribed |
| Rights Holder | Institute of Electrical and Electronics Engineers, Inc. (IEEE) |
| Subject Keyword | Influenza Bioinformatics Genomics Supercomputers Performance evaluation parallel performance biocomputing ClustalW method high performance computing multiple sequence alignment |
| Content Type | Text |
| Resource Type | Article |
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