Recent years have witnessed an increasing interest in the processing-in-memory (PIM) paradigm in computing due to its promise to improve the performance through the reduction of energy-hungry and long-latency memory accesses. Joined with the explosion of data to be processed, produced in genomics-particularly genome sequencing-PIM has become a potential promising candidate for accelerating genomics applications since they do not scale up well in conventional von Neumann systems. In this article, we present an in-memory accelerator architecture for DNA read alignment. This architecture outperforms corresponding software implementation by >49X and >18 000X, in terms of throughput and energy efficiency, respectively, even under conservative assumptions.
|Original language||English (US)|
|Number of pages||9|
|Journal||IEEE Journal on Exploratory Solid-State Computational Devices and Circuits|
|State||Published - Jun 2020|
Bibliographical noteFunding Information:
This work was supported in part by NSF under Grant SPX-1725420.
© 2014 IEEE.
- Computational RAM
- Genome Sequence
- Memory management
- Processing In Memory
- Sequential analysis