Program
Schedule
09:25-09:30
Welcome Remarks
09:30-10:30
Keynote
Scale and Complexity: Co-Designing Algorithms and Architectures for Emerging Challenges in Genomics
Prof. Santiago Marco-Sola
10:30-10:50
Talk 1
KENT: Fast Pathogen Screening with NVIDIA Jetson Cluster in Resource-Constrained Areas
Arda İçöz, Ricardo Roman-Brenes, Zülal Bingöl and Can Alkan
10:50-11:10
Talk 2
Helicase: Vectorized Parsing and Bitpacking of Genomic Sequences
Igor Martayan, Loup Lobet, Camille Marchet and Charles Paperman
11:10-11:30
Poster Lightning Talks
See accepted posters below.
11:30-13:00
Poster Session and Lunch
13:00-14:00
14:00-14:20
Talk 3
In-Depth Data Movement Characterization of DNA Read Mapping Algorithms
Berkan Şahin, Ecem İlgün, Klea Zambaku, Ömer Yavuz Öztürk and Can Alkan
14:20-14:40
Talk 4
AutoFFinder: A Reconfigurable Hardware-Accelerated Platform for Multi-Guide CRISPR/Cas9 Off-Target Search
Ofir Yaish, Tommy Tracy, Kevin Skadron and Yaron Orenstein
14:40-14:50
Closing Remarks
Accepted Posters
| Poster | Title | Authors |
|---|---|---|
| 1 | POACHA: Partial Order Alignment Computation Hardware Acceleration | Zeynep Akcil, Berkan Şahin, Toygar Tanriverdi, Zülal Bingöl and Can Alkan |
| 2 | Hardware-Portable Fused GPU Kernels for High-Throughput Biological Foundation Models | Manpreet Singh |
| 3 | TAGMa: A Topology-Aware Software/Hardware Co-Designed Graph-Based Genome Analysis Accelerator | Irini Maria Tzermpou, Konstantina Koliogeorgi, Akmuhammet Ashyralyyev, Nika Mansouri Ghiasi, Anastassis Kapetanakis, Aggelos Ferikoglou, Mohammad Sadrosadati, Sotirios Xydis, Dimitrios Soudris and Onur Mutlu |
| 4 | A Heterogeneous Architecture for Whole-Chromosome Sequence Alignment Acceleration | Oscar Lostes-Cazorla, David Blasco, Alvaro Moreno, Max Doblas, Miquel Moreto and Santiago Marco-Sola |
| 5 | Acceleration of an Optimal Sequence Alignment Library Using RISC-V Custom Instructions | David Blasco, Max Doblas, Juan Carlos Moure, Miquel Moreto and Santiago Marco-Sola |
| 6 | Storage-Centric System Designs for Enabling Fast, Efficient, and Low-Cost Genomic and Metagenomic Analyses | Nika Mansouri Ghiasi and Onur Mutlu |
| 7 | Processing-In-Memory Acceleration of Raw Signal Genome Analysis Inside the Storage Subsystem | Konstantina Koliogeorgi, Melina Soysal, Can Firtina, Nika Mansouri Ghiasi, Rakesh Nadig, Haiyu Mao, Geraldo F. Oliveira, Yu Liang, Klea Zambaku, Mohammad Sadrosadati and Onur Mutlu |