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2008 Ninth International Conference on Parallel and Distributed Computing, Applications and Technologies Efficient Parallelization of a Protein Sequence Comparison Algorithm on Manycore Architecture

By Xiaochun Ye, Van Hoa Nguyen, Dominique Lavenier and Dongrui Fan


This paper introduces the Godson-T manycore architecture and demonstrates the efficiency of its synchronization mechanism through a computation intensive bioinformatics application: the comparison of protein banks. The parallel part of the protein sequence comparison algorithm can nearly get a linear speed-up thanks to a fine tuning of the synchronization mechanism provided by the Godson-T chip. 1

Year: 2013
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