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FPGA-accelerated seed generation in Mercury BLASTP
15th Annual IEEE Symposium on Field-Programmable Custom Computing Machines (FCCM 2007)
BLASTP is the most popular tool for comparative analysis of protein sequences. In recent years, an exponential increase in the size of protein sequence databases has required either exponentially more runtime or a cluster of machines to keep pace. To address this problem, we have designed and built a high-performance FPGA-accelerated version of BLASTP, Mercury BLASTP. In this paper, we focus on seed generation, the first stage of the BLASTP algorithm. Our seed generator is capable of processingdoi:10.1109/fccm.2007.11 dblp:conf/fccm/JacobLBC07 fatcat:wchrhecpcnapvctw6y3fuh2acq