About our Workshop

The need for this workshop has become increasingly important as the drive towards precision medicine has accelerated, the challenges in cancer research and clinical application requiring computational solution are growing, and the pursuit of effective predictive models for complex biological systems begin to inform future exascale computing requirements. The role of computation in cancer research has only become more pronounced with the National Strategic Computing Initiative, the Precision Medicine Initiative, the Exascale Initiative from the DOE and the announcement of the "cancer moonshot" at the 2016 US Presidential State of the Union Address.

In the workshop, we bring together the computational community interested in the use high-performance computing, analytics, predictive modeling, and large datasets in cancer research and clinical applications. As a disease-specific workshop, the workshop provides a regular opportunity where individuals with expertise across a variety of computational technologies and applications can convene, cross-educate, share progress, ideas and challenges, and seek opportunities for cross-interest collaboration and innovation. The participation in the workshop is inherently inter-disciplinary, with the common interest in cancer and computation the unifying theme. As such, the workshop provides rich opportunities for attendees to learn about future directions, current applications and challenges and build collaborations. Maintaining a perspective of translation of ideas to clinical application, the workshop will include involvement of interests from the research, clinical and regulatory areas.

Workshop Goals

  • Bring together individuals employing computation in studying, diagnosing, treating, or preventing cancer
  • Attract individuals with HPC and computational skills in technical areas that would contribute to the understanding, diagnostics, treatment and/or prevention of cancer
  • Provide an overview of current applications of computational approaches at several levels in cancer research and clinical application
  • Educate attendees on the ways that computation is used in several areas of cancer research and clinical applications (imaging, genomics, analytics, molecular modeling, complex systems modeling, drug discovery, pathology, etc.)
  • Discuss and bring forward issues and challenges facing greater utilization of computation at all levels in cancer research and clinical applications (e.g. reproducibility, portability, auditability, standards, regulatory compliance, etc.)
  • Explore future opportunities where employing HPC from terascale to exascale will help advance cancer research and clinical communities

Target Audience

The target audience for the workshop is those with shared interests in computational approaches for cancer. The workshop is again expected to attract those developers, researchers, and vendors with technologies and solutions believed to hold potential to address problems in cancer and seeking potential collaborators to work with. The workshop will also attract cancer investigators, clinicians and others who have recognized the need for HPC solutions, seeking an overview of potential solutions and potential collaborators. The third segment of the target audience are those individuals seeking career opportunities in cancer research and/or clinical applications, where the workshop will highlight forward looking directions in these areas.

The first workshop attracted cross-disciplinary participation. A representative sample of expertise self-reported during the workshop and the BoF includes HPC, machine learning, bioinformatics, parallel programming, big data, computer systems architecture, FPGAs, physics, biomedicine, virology, GPU computing, computational physics, pattern recognition, software development, aerospace/computational fluid dynamics, crystallography, mathematics, storage, computer science, structural biology, IT infrastructure, protein structure, visualization, and systems biology.

Workshop Program

Morning Sessions

9:00 - 9:15, Workshop Introduction

9:15 - 10:05, Morning Keynote Presentations

Frank McCormick PhD, FRS, DSc (Hon)
Professor University of California San Francisco Hellen Diller Family Comprehensive Cancer Center
David A. Wood Distinguished Professorship of Tumor Biology and Cancer Research

10:05 - 10:30, Networking among workshop attendees

Opportunities for workshop attendees to get together to discuss ideas, submit questions and priorities for later discussion during panel sessions, and interact with morning speakers.

10:30 - 11:30, Session 1: Applications, Challenges and Opportunities

  • Dr. Juli Klemm - Head, Cancer Biology and Genomics Section, Cancer Informatics Branch - Center for Biomedical Informatics and Information Technology - National Cancer Institute
  • Dr. Joel Saltz - Cherith Chair of Biomedical Informatics, Department of Biomedical Informatics, Stony Brook University
  • Accepted - J. Tan, Y. Huo, L. Li - Using ConvNet to recognize lung nodule from CT user data: A feasability study

11:30 - 11:50, Panel Discussion of Invited Presenters

Interactive Q/A session with participants of workshop

11:50 - 1:30, Lunchbreak

Afternoon Sessions

1:30 - 2:30, Session 2: Collaborations for Cancer

NCI-DOE Exascale co-design collaboration updates

  • F. Streitz, F. McCormick - Molecular Scale Cancer Predictive Simulations
  • R. Stevens, Y. Evrard - Pre-clinical Cancer Predictive Modeling
  • L. Penberthy, G. Tourassi - Population-based Cancer Precision Surveillance

2:30 - 3:00, Combined Q/A Session for NCI-DOE Collaborators

3:00 - 3:40, Collaborative Applications in Computational Approaches for Cancer

  • Accepted - J. Ozik, N. Collier, J. Wozniak, C. Macal, C. Cockrell, M. Stack, G. An - High performance model exploration of mutation patterns in an agent-based model of colorectal cancer
  • Accepted - W. Jiang, S. Yang - High Fidelity and High Throughput Molecular Dynamics Simulations for Small Molecule Cancer Drug Discovery with Department of Energy Leadership Computing

3:40 - 4:00, Networking among workshop attendees

4:00 - 5:00, Session 3: Emerging Computing Technologies for Cancer

Technology highlights - Brief presentations about new computational technologies and resources for use in computational approaches for cancer. Opportunities for technology providers to share information about available resources.

5:00 - 5:20, Afternoon Cancer Collaboration Panel Discussion

5:20 - 5:30, Workshop Wrap-Up

Organizers and Committee Members

2016 Workshop Organizers

  • Thomas Barr - The Research Institute at Nationwide Childrens Hospital
  • Patricia Kovatch - Icahn School of Medicine at Mount Sinai
  • Eric Stahlberg - Frederick National Laboratory for Cancer Research

2016 Program Committee

  • Ilya Shmulevich - Institute for Systems Biology
  • William Richards - Brigham and Womens Hospital, Harvard Medical School
  • Heiko Enderling - Moffit Cancer Center
  • Sunita Chandrasakaran - University of Delaware
  • Thomas Steinke - Zuse Institute Berlin
  • Amy Gryshuk - Lawrence Livermore National Laboratory
  • Claudine Conway - Intel

We look forward to welcoming you to Salt Lake City!