20th IEEE International Workshop on High Performance Computational Biology
In conjunction with the IEEE International Parallel and Distributed
Processing Symposium
Virtual Workshop
May 17, 2021
08:00 AM - 11:35 AM Pacific Time (GMT -07:00)
All HiCOMB Attendees: The HiCOMB'21 event is FREE but please register by filling out this form to receive the Zoom link info. All IPDPS'21 registered attendees should automatically be able to access the workshop's Zoom link from within the conference' Virtual Platform. (Registration time has now passed)
Prerecorded talk
videos for all paper presentations can be accessed on this YouTube
Playlist.
| Session I (8am - 8:55am) | |
|---|---|
| 08:00-08:05am | Opening Remarks Mehmet Koyuturk, Program Chair |
| 08:05-08:55am | Keynote address: Kathy Yelick, University of
California at Berkeley Genomic Analysis at Scale: Mapping Irregular Computations to Advanced Architectures Slides |
| 08:55-09:00am | Break |
| Session II (9:00am - 11:35am) | |
| 09:00-09:25am | Invited Talk #1: Fabio Vandin, University of
Padova Fast Approximations of Frequent k-mers and Applications Slides |
| 09:25-10:05am | Contributed Session A:
High Performance Genomics |
| 09:25 | GYAN: Accelerating bioinformatics tools in Galaxy with
GPU-awre computation mapping. Gulsum Gudukbay, Jashwant Raj Gunasekaran, Yilin Feng, Mahmut T. Kandemir, Chita R. Das, Anton Nekrutenko, Paul Medvedev, Bjorn Gruning, Nate Coraor, Enis Afgan, Nathan Roach Paper Talk video Slides |
| 09:35 | Accelerating SARS-CoV-2 low
frequency variant calling on ultra deep sequencing data sets. Bryce Kille, Yunxi Liu, Nicolae Sapoval, Michael Nute, Lawrence Rauchwerger, Nancy Amato, Todd J. Treangen Paper Talk video Slides |
| 09:45 | GateKeeper-GPU: Accelerated pre-alignment filtering in short
read mapping. Zulal Bingol, Mohammed Alser, Ozcan Ozturk, Can Alkan Paper Talk video Slides |
| 09:55 | Q&A |
| 10:05-10:30am | Invited Talk #2:
Anil Vullikanti, University of Virginia Designing Interventions in Networked Models of Epidemic Spread. Slides |
| 10:30-11:10am | Contributed Session B: High
Performance Systems Biology |
| 10:30 | GPU acceleration of 3D agent-based biological simulations. Ahmad Hesam, Lukas Breitwieser, Fons Rademakers, Zaid Al-Ars Paper Talk video Slides |
| 10:40 | Efficient memory management in likelihood-based phylogenetic
placement. Pierre Barbera, Alexandros Stamatakis Paper Talk video Slides |
| 10:50 | Accelerating the BPMax algorithm for RNA-RNA interactions. Chiranjeb Mondal, Sanjay Rajopadhye Paper Talk video Slides |
| 11:00 | Q&A |
| 11:10-11:35am | Invited Talk #3: Sriram Sankararaman, University
of California, Los Angeles Probabilistic Models of Large-scale Human Genomic Data. Slides |
| 11:35 | Adjourn |