Develop Pattern Match Analysis Platform Based on Multicore Accelerators

  • Lin, Chun-Yuan (PI)

Project: National Science and Technology CouncilNational Science and Technology Council Academic Grants

Project Details

Abstract

Next-generation sequencing technologies have been an important research filed. With the development of sequencing technology, metagenomics becomes popular research topic. For metagenomics, we can obtain reads of all sample data in any environment by using sequencing technology at first. Then, we can observe biological diversity under microscopic. Finally, we can understand the microbial world. After sequencing a large number of biological genomes, the next work is how to process these huge data and then annotate the function of these genes from these genomes. Over the past decade, more and more multicore accelerators have been proposed. Except for the Tesla GPU accelerators released by NVIDIA in the early stage, Intel also presented the Phi accelerators based on XEON architecture. NVIDIA also released embedded Jetson TK1 accelerators in the last two years. In the past, we have designed several pattern match analysis tools based on NVIDIA Tesla accelerators. However, it still is necessary to design these tools based on new accelerators according to different requirements and computing environments. Therefore, the goal of this project is to develop a pattern match analysis platform based on NVIDIA Jetson TK1 and Intel XEON Phi accelerators. The main works of this project are listed below. 1. Construct pattern match analysis tools based on NVIDIA Jetson TK1 and a series of blast tools based on NVIDIA Jetson TK1 accelerators will be developed. 2. Construct pattern match analysis tools based on Intel XEON Phi and a series of blast tools based on Intel XEON Phi accelerators will be developed. 3. Develop a pattern match analysis platform based on these multicore accelerators.

Project IDs

Project ID:PB10408-5738
External Project ID:MOST104-2221-E182-050
StatusFinished
Effective start/end date01/08/1531/07/16

Keywords

  • Next-Generation Sequencing Technology
  • Pattern Matching Technique

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