Design and Implementation of high-performance sequence analysis environment using GPGPU
| Project/Area Number |
21510217
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| Research Category |
Grant-in-Aid for Scientific Research (C)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
ゲノム情報科学
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| Research Institution | National Institute of Agrobiological Sciences |
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Principal Investigator |
SUETSUGU Yoshitaka 独立行政法人農業生物資源研究所, 昆虫ゲノム研究ユニット, 主任研究員 (80533471)
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| Co-Investigator(Kenkyū-buntansha) |
FUNAHASHI Akira 慶應義塾大学, 理工学部・生命情報学科, 准教授 (70324548)
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| Project Period (FY) |
2009 – 2011
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| Project Status |
Completed (Fiscal Year 2011)
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| Budget Amount *help |
¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Fiscal Year 2011: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000)
Fiscal Year 2010: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2009: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
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| Keywords | 情報工学 / 配列解析 / 並列処理 / ゲノム / GPGPU / バイオインフォマティクス |
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| Research Abstract |
Since the emergence of high-throughput sequencing platform, the cost for both experimental and time were much reduced for DNA sequencing. This makes easy to produce enormous amount of DNA data. As the result, analyzing huge sequence database has become a next target to find an e & cient solution. To overcome this problem, we applied General Purpose computation on Graphic Processing Unit(GPGPU) for sequence analysis. We implemented several algorithms including Smith-Waterman algorithm based on GPGPU. The GPU-based programs showed higher performance compared to CPU-based ones.
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Report
(4 results)
Research Products
(4 results)
