Sequence Alignment using Systolic Array for An Accelerator

被引：0

作者：

Razip, Mansur Iylia Mohamed ^{[1
]}

Al Junid, Syed Abdul Mutalib ^{[1
]}

Halim, Abdul Karimi ^{[1
]}

Abd Majid, Zulkifli ^{[1
]}

机构：

[1] Univ Teknol Mara, Fac Elect Engn, Shah Alam, Selangor, Malaysia

来源：

2014 IEEE 8TH INTERNATIONAL POWER ENGINEERING AND OPTIMIZATION CONFERENCE (PEOCO) | 2014年

关键词：

FPGA; bioinformatics; systolic; Smith-Waterman; DNA; sequence alignment;

D O I：

暂无

中图分类号：

TE [石油、天然气工业]; TK [能源与动力工程];

学科分类号：

0807 ; 0820 ;

摘要：

Performance and large memory space are the most prominent issues highlighted for local DNA sequences alignment. Therefore, this study is an attempt to test the systolic array approach for Smith-Waterman (SW) algorithm for improving the performance of DNA sequence alignment accelerator. The design was developed using LabVIEW and targeted to Xilinx Spartan 3E while the original SW has been used as a benchmark for performance comparison. Systolic array SW has recorded better performance as compared to original SW. Thus, by applying systolic array concept, it will improve the alignment performance whilst minimize the complexity of the design.

引用

页码：663 / 665

页数：3

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