TY - GEN
T1 - SALSA
T2 - 34th IEEE International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2020
AU - Di Tucci, Lorenzo
AU - Baghdadi, Riyadh
AU - Amarasinghe, Saman
AU - Santambrogio, Marco D.
N1 - Publisher Copyright:
© 2020 IEEE.
PY - 2020/5
Y1 - 2020/5
N2 - The explosion of genomic data is fostering research in fields such as personalized medicine and agritech, raising the necessity of providing more performant, power-efficient and easy-to-use architectures. Devices such as GPUs and FPGAs, deliver major performance improvements, however, GPUs present no-table power consumption, while FPGAs lack programmability. In this paper, we present SALSA, a Domain-Specific Architecture for sequence alignment that is completely configurable, extensible and is based on the RISC-V ISA. SALSA delivers good performance even at 200 MHz, outperforming Rocket, an open-source core, and an Intel Xeon by factors up to 350x in performance and 790x in power efficiency.
AB - The explosion of genomic data is fostering research in fields such as personalized medicine and agritech, raising the necessity of providing more performant, power-efficient and easy-to-use architectures. Devices such as GPUs and FPGAs, deliver major performance improvements, however, GPUs present no-table power consumption, while FPGAs lack programmability. In this paper, we present SALSA, a Domain-Specific Architecture for sequence alignment that is completely configurable, extensible and is based on the RISC-V ISA. SALSA delivers good performance even at 200 MHz, outperforming Rocket, an open-source core, and an Intel Xeon by factors up to 350x in performance and 790x in power efficiency.
KW - Domain Specific Architecture
KW - Genomics
KW - SALSA
KW - Sequence Alignment
KW - Systolic arrays
UR - http://www.scopus.com/inward/record.url?scp=85091563202&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85091563202&partnerID=8YFLogxK
U2 - 10.1109/IPDPSW50202.2020.00033
DO - 10.1109/IPDPSW50202.2020.00033
M3 - Conference contribution
AN - SCOPUS:85091563202
T3 - Proceedings - 2020 IEEE 34th International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2020
SP - 147
EP - 150
BT - Proceedings - 2020 IEEE 34th International Parallel and Distributed Processing Symposium Workshops, IPDPSW 2020
PB - Institute of Electrical and Electronics Engineers Inc.
Y2 - 18 May 2020 through 22 May 2020
ER -