Bioinformatics Performance Comparison of Many-core Tile64 vs. Multi-core Intel Xeon
| Autor: | Sergio Gálvez, Francisco José Esteban, Pilar Hernández, Juan Antonio Caballero, Gabriel Dorado, Antonio Guevara, Myriam Kurtz |
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| Rok vydání: | 2014 |
| Předmět: |
Multi-core processor
Coprocessor Xeon Computer science Pentium Hyper-threading General Medicine Parallel computing ComputerSystemsOrganization_PROCESSORARCHITECTURES Bioinformatics lcsh:QA75.5-76.95 ComputingMethodologies_PATTERNRECOGNITION x86 Itanium lcsh:Electronic computers. Computer science Xeon Phi |
| Zdroj: | CLEI Electronic Journal, Vol 17, Iss 1 (2014) |
| ISSN: | 0717-5000 |
| DOI: | 10.19153/cleiej.17.1.4 |
| Popis: | The performance of the many-core Tile64 versus the multi-core Xeon x86 architecture on bioinformatics has been compared. We have used the pairwise algorithm MC64-NW/SW that we have previously developed to align nucleic acid (DNA and RNA) and peptide (protein) sequences for the benchmarking, being an enhanced and parallel implementation of the Needleman-Wunsch and Smith-Waterman algorithms. We have ported the MC64-NW/SW (originally developed for the Tile64 processor), to the x86 architecture (Intel Xeon Quad Core and Intel i7 Quad Core processors) with excellent results. Hence, the evolution of the x86-based architectures towards coprocessors like the Xeon Phi should represent significant performance improvements for bioinformatics. |
| Databáze: | OpenAIRE |
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