A 2.46M Reads/s Seed-Extension Accelerator for Next-Generation Sequencing Using a String-Independent PE Array
| Autor: | Reetuparna Das, Satoru Miyoshi, Daichi Fujiki, Satish Narayanasamy, David Blaauw, Masaru Kawaminami, Xiao Wu, Zhehong Wang, Arun Subramaniyan, Makoto Yasuda, Tianjun Zhang |
|---|---|
| Rok vydání: | 2021 |
| Předmět: |
Xeon
Computer science Pipeline (computing) 020208 electrical & electronic engineering String (computer science) Approximation algorithm 02 engineering and technology Parallel computing DNA sequencing chemistry.chemical_compound chemistry 0202 electrical engineering electronic engineering information engineering Electrical and Electronic Engineering Triangular array DNA |
| Zdroj: | IEEE Journal of Solid-State Circuits. 56:824-833 |
| ISSN: | 1558-173X 0018-9200 |
| DOI: | 10.1109/jssc.2020.3023822 |
| Popis: | Advances in DNA-sequencing technology have far outpaced Moore’s law, imposing significant challenges on the computationally intensive secondary analysis in the sequencing pipeline. An accelerator for seed extension, a critical and computationally intensive step in genome sequencing, is proposed. The accelerator, implementing a string-independent automata, consists of a triangular array of $25\times 2$ custom-designed processing elements. It performs 2.46 million reads per second (MRPS), achieving a $1581\times $ improvement in power efficiency and $165.5\times $ smaller silicon footprint compared to a system setting with dual-socket Xeon E5-2697 v3 server processors. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|