Implementation of a custom hardware-accelerator for short-read mapping using Burrows-Wheeler alignment

研究成果: Conference contribution

6 被引用数 (Scopus)

抄録

The mapping of millions of short DNA fragments to a large genome is a great challenge in modern computational biology. Usually, it takes many hours or days to map a large genome using software. However, the recent progress of programmable hardware such as field programmable gate arrays (FPGAs) provides a cost effective solution to this challenge. FPGAs contain millions of programmable logic gates to design massively parallel accelerators. This paper proposes a hardware architecture to accelerate the short-read mapping using Burrows-Wheeler alignment. The speed-up of the proposed architecture is estimated to be at least 10 times compared to its equivalent software application.

本文言語English
ホスト出版物のタイトル2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2013
ページ651-654
ページ数4
DOI
出版ステータスPublished - 2013
イベント2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2013 - Osaka, Japan
継続期間: 2013 7 32013 7 7

出版物シリーズ

名前Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS
ISSN(印刷版)1557-170X

Other

Other2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2013
国/地域Japan
CityOsaka
Period13/7/313/7/7

ASJC Scopus subject areas

  • 信号処理
  • 生体医工学
  • コンピュータ ビジョンおよびパターン認識
  • 健康情報学

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