Talks

April 14, 2023. Times are in UTC+3.

  1. 9:00 - 9:15
    Opening Remarks
    Onur Mutlu (ETH Zurich)
  2. 9:15 - 9:50
    Accelerating Genome Analysis
    Onur Mutlu (ETH Zurich)
  3. 9:50 - 10:15
    Hardware-Accelerated Genome Sequencing: A Co-Design Approach
    Gagandeep Singh (AMD)
  4. 10:15 - 10:40
    Hardware accelerated detection and classification of pathogens of epidemic significance
    Leonid Yavits (Bar-Ilan University)
  5. 10:40 - 11:05
    Sparsified Genomics: Rethinking Large-Scale Genomic Analyses
    Mohammed Alser (ETH Zurich)
  6. 11:05 - 11:25
    Coffee Break
  7. 11:25 - 11:50
    High-throughput Sequence Alignment using Real Processing-in-Memory Systems
    Izzat El Hajj (American University of Beirut)
  8. 11:50 - 12:15
    GenStore: A High-Performance and Energy-Efficient In-Storage Computing System for Genome Sequence Analysis
    Nika Mansouri Ghiasi (ETH Zurich)
  9. 12:15 - 13:45
    Lunch Break
  10. 13:45 - 14:20
    Accelerating Genome Sequence Analysis via Efficient Hardware/Algorithm Co-Design
    Damla Senol Cali (Bionano Genomics)
  11. 14:20 - 14:45
    Scrooge: A Fast and Memory-Frugal Genomic Sequence Aligner for CPUs, GPUs, and ASICs
    Joel Lindegger (ETH Zurich)
  12. 14:45 - 15:10
    TargetCall: Eliminating the Wasted Computation in Basecalling via Pre-Basecalling Filtering
    Meryem Banu Cavlak (ETH Zurich)
  13. 15:10 - 15:35
    Accelerating the Transformation in How We Analyze the Human Genome
    Damla Senol Cali (Bionano Genomics)
  14. 15:35 - 16:00
    Coffee Break
  15. 16:00 - 16:25
    Filter Before You Parse: Accelerating Any Sequence Aligner
    Mohammed Alser (ETH Zurich)
  16. 16:25 - 16:50
    SRAM-Based MIMD AI-Accelerators for Sequence Alignment: Using the Graphcore IPU for High-Throughput Bioinformatics
    Luk Burchard (Simula Research Laboratory)
  17. 16:50 - 17:15
    Accelerating irregular bioinformatics algorithms on Graphics Processing Units
    Muaaz Awan (NERSC)
  18. 17:15 - 17:40
    Systems for Precision Health
    Reetuparna Das (University of Michigan)
  19. 17:40 - 18:05
    GenPIP: In-Memory Acceleration of Genome Analysis via Tight Integration of Basecalling and Read Mapping
    Haiyu Mao (ETH Zurich)
  20. Virtual
    AirLift: A Fast and Comprehensive Technique for Remapping Alignments between Reference Genomes
    Can Firtina (ETH Zurich)