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UID:submissions.supercomputing.org_SC25_sess215_ws_ai4s111@linklings.com
SUMMARY:Compute4Biology: Taking Stock of High Performance Computing Needs 
 for Foundation Models in Biological Sciences
DESCRIPTION:Pratik Dutta (Stony Brook University) and Tirthankar Ghosal (O
 ak Ridge National Laboratory (ORNL))\n\nFoundation models are driving a pa
 radigm shift across the life sciences, yet their transformative potential 
 is fundamentally coupled to high-performance computing (HPC). The computat
 ional workloads from genomics, transcriptomics, proteomics, chemistry, and
  biomedical literature are remarkably diverse, creating distinct challenge
 s for HPC infrastructure. This paper presents the first systematic, cross-
 domain analysis of these HPC needs. We characterize and compare the specif
 ic bottlenecks inherent to each domain—from the massive I/O of genomics to
  the intense memory pressure of proteomics and the unique compute kernels 
 of molecular modeling. Analyzing these diverse workloads allows us to iden
 tify key trade-offs in hardware utilization and software design. We conclu
 de by outlining a unified set of best practices and co-design principles f
 or building next-generation HPC systems capable of accelerating discovery 
 across the full spectrum of AI-driven science.\n\nRecording: Livestreamed,
  Recorded\n\nRegistration Category: Technical Program Reg Pass, Workshop R
 eg Pass\n\nSession Chairs: Gokcen Kestor (Barcelona Supercomputing Center 
 (BSC); University of California, Merced); Dong Li (University of Californi
 a, Merced); and Murali Emani (Argonne National Laboratory (ANL))\n\n
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