HBLast: An Open-Source FPGA Library for DNA Sequencing Acceleration
| Autor: | Kizheppatt Vipin, Sabina Kairatova, Marzhan Bekbolat, Ayan Shymyrbay |
|---|---|
| Rok vydání: | 2019 |
| Předmět: |
0209 industrial biotechnology
Sequence Computer science Nucleic acid sequence Sequence alignment 02 engineering and technology Parallel computing DNA sequencing chemistry.chemical_compound Acceleration 020901 industrial engineering & automation Open source chemistry 0202 electrical engineering electronic engineering information engineering Hardware acceleration 020201 artificial intelligence & image processing Field-programmable gate array DNA |
| Zdroj: | IPDPS Workshops |
| DOI: | 10.1109/ipdpsw.2019.00022 |
| Popis: | Biological sequence alignment algorithms work by identifying the degree of similarity between a newly discovered biological sequence with already known sequences. Exponential growth in the database and query sizes make pure softwarebased solutions inefficient in finding a solution within the time constraints. This calls for hardware acceleration-based solutions such as those based on field programmable gate arrays (FPGAs). In this work we present the design and implementation of the popular BLAST algorithm for nucleotide sequence alignment, called HBLast, targeting FPGA-based reconfigurable platforms. |
| Databáze: | OpenAIRE |
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