Designing hardware for protein sequence analysis |
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| Authors: | Marongiu Alessandro Palazzari Paolo Rosato Vittorio |
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| Institution: | IPITEC s.r.l.-Rome, Italy. |
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| Abstract: | We present the architecture of PROSIDIS, a special purpose co-processor designed to search for the occurrence of substrings similar to a given 'template string' within a proteome. Actual tests show speed up figures ranging from 5 to 50 with respect to conventional general-purpose processors. AVAILABILITY: the PROSIDIS configuration file and the c code are available at http://www.enea.it/hpcn/php/rosato/ |
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