Ιδρυματικό Αποθετήριο
Πολυτεχνείο Κρήτης
Πολυτεχνείο Κρήτης
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| URI | http://purl.tuc.gr/dl/dias/8FBDB8F9-26D3-47CA-9695-9E5055618DB4 | - |
| Αναγνωριστικό | https://doi.org/10.1109/FPL.2008.4630026 | - |
| Γλώσσα | en | - |
| Μέγεθος | 4 pages | en |
| Τίτλος | A rate-based prefiltering approach to blast acceleration | en |
| Δημιουργός | Pnevmatikatos Dionysios | en |
| Δημιουργός | Πνευματικατος Διονυσιος | el |
| Δημιουργός | Panagiotis Afratis | en |
| Δημιουργός | Eyripides Sotiriades | en |
| Δημιουργός | Grigorios Chrysos | en |
| Δημιουργός | Sotiria Fytraki | en |
| Εκδότης | Institute of Electrical and Electronics Engineers | en |
| Περίληψη | DNA sequence comparison and database search have evolved in the last years as a field of strong competition between several reconfigurable hardware computing groups. In this paper we present a BLAST preprocessor that efficiently marks the parts of the database that may produce matches. Our prefiltering approach offers significant reduction in the size of the database that needs to be fully processed by BLAST, with a corresponding reduction in the run-time of the algorithm. We have implemented our architecture, evaluated its effectiveness for a variety of databases and queries, and compared its accuracy against the original NCBI Blast implementation. We have found that prefiltering offers at least a factor of 5 and up to 3 orders of magnitude reduction in the database space that needs to be fully searched. Due to its prefiltering nature, our approach can be combined with all major reconfigurable acceleration architectures that have been presented up to date. | en |
| Τύπος | Αφίσα σε Συνέδριο | el |
| Τύπος | Conference Poster | en |
| Άδεια Χρήσης | http://creativecommons.org/licenses/by/4.0/ | en |
| Ημερομηνία | 2015-10-19 | - |
| Ημερομηνία Δημοσίευσης | 2008 | - |
| Βιβλιογραφική Αναφορά | P. Afratis, E. Sotiriades, G. Chrysos, S. Fytraki, D. Pnevmatikatos, " A Rate-based prefiltering approach to BLAST acceleration’’, In 2008 Intern. Conf. on Field Progr. Logic and Applications (FPL), pp.631 - 634.doi:10.1109/FPL.2008.4630026 | en |
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