4th Accelerator Architecture in
Computational Biology and Bioinformatics workshop (AACBB-2022)

June 12th, 2022

In conjunction with the 49th International Symposium on
Computer Architecture (ISCA-2022)

NYC, NY, USA

Workshop website

https://aacbb-workshop.github.io/

Submission link

https://easychair.org/conferences/?conf=aacbb2022

Submission deadline

April 15, 2022, EoD AoE

Notifications

April 30, 2022

 

Over the last decade, the advent of high-throughput sequencing techniques brought an exponential growth in sequenced data. At the same time, the single-thread performance continued to improve by only a few percent point annually. The growing gap between the performance demand to performance supply became a significant challenge in the path to scientific discovery. The computational bottleneck of genome analysis pipelines became even more apparent during the ongoing Covid-19 pandemic, where fast and reliable virus detection and classification tools have been critical for the worldwide genomic surveillance system. 

    

The gap between the performance of a conventional computer
architecture and the biological data processing requirements is growing. For
example, assembling a human genome from 3rd generation sequenced data may
require hundreds of CPU hours. Hence, computational biology and bioinformatics
will have to rely on hardware accelerators to allow processing to keep up with
the exploding amount of sequenced data.

 

In a typical application, the dominant portion of the runtime is
spent in a small number of computational kernels, making it an excellent target
for hardware acceleration. The combination of increasingly large datasets and
high performance computing requirements make computational biology a prime
candidate to benefit from accelerator architecture research. Potential
directions include 3D integration, near-data processing, in-data processing and
reconfigurable architectures.

 

This workshop will focus on architecture and design of hardware
accelerators for computational biology and bioinformatics problems. We plan to
present and discuss a variety of acceleration techniques, accelerator
architectures and their implications on the development of computational
biology. This year, we plan to extend the industry angle, by providing a
keynote and invited talks from leading industry research specialists.

 

Submission
Guidelines

Interested authors are encouraged to submit papers (2-5 pages)
through EasyChair: https://easychair.org/conferences/?conf=aacbb2022

 

The full version should be a PDF file similar to ISCA-2022
submission format. For formatting instructions please refer to: https://www.iscaconf.org/isca2022/submit/guidelines.php

 

List of
Topics

This workshop focuses on architecture and design of hardware and
software accelerators for computational biology and bioinformatics problems.

Topics of interest include, but are not limited to the following:

•
Hardware and software algorithms/applications in the fields of computational biology, such as (but not limited to):

o
Bioinformatics

o
Genomics

o
Proteomics

o
Protein structure prediction

o
Covid-19 pandemic

•
Bioinformatics and computational biology accelerator architecture and design based on (but not limited to):

o
3D memory-logic stack

o
Near-data processing

o
In-data processing

o
FPGAs and reconfigurable

•
Emerging memory technologies and their impact on
bioinformatics and computational biology

•
Impact of bioinformatics and biology
applications on computer architecture research

•
Bioinformatics and computational
biology-inspired hardware/software trade-offs

 

 

Keynote Speakers

  • Tajana Rosing, Prof. of Computer Science and
    Engineering, director of System Energy Efficiency Lab, UCSD
  • Onur Mutlu, Prof. of Computer Science, ETH Zurich and
    CMU

Committees

Program Committee

  • Ananth Kalyanaraman, WSU
  • Can Alkan, Bilkent University
  • Engin Ipek, University of Rochester
  • Jason Cong, UCLA
  • Mattan Erez, UT Austin
  • Mircea Stan, UVA
  • Onur Mutlu, ETH/CMU
  • Ran Ginosar, Technion
  • Ronnie Ronen, Technion
  • Yuan Xie, UCSB

Organizing committee

* Department of Engineering, Bar Ilan University

^ Department of Electrical and Computer Engineering, University
of California, San Diego

 

Important Notes

Presenting a paper in the workshop does not preclude publication in other venues

 

Contact

All questions about submissions should be emailed to Leonid Yavits
(leonid.yavits@gmail.com)

 

 

 

4th Accelerator Architecture in Computational Biology and Bioinformatics workshop (AACBB-2022)