SI2008 Cyberinfrastructure for Biomedicine
Biomedical, translational and clinical research can and should take advantage of the continued exponential increases in the capacities of computing speed, data storage, networking bandwidth, and more broadly the advances in cyberinfrastructure (CI). Through a series of talks in CI and applications that aim to improve the treatment planning for heart disease through individual patient modeling, to build better tools for mesoscale modeling using advanced tomographic images of the cell, and to build complex computational pipelines for drug design and discovery, we hope to highlight state of the art tools from NBCR and those from the community we serve, towards the goal of personalized medicine through collaborative advances in cyberinfrastructure.
- Aug 4th, Atkinson Hall, SDSC/Calit2 Synthesis Center
- Aug 11th, PFBH Hall, Fung Auditorium
August 4, 2008
- 8:00 am - 12:30 pm Multiscale Visualization and Modelling, Chair: Michel Sanner, TSRI
- 8:00 Opening Remarks John Wooley, Ph.D.
- 8:15Cyberinfrastructure for Biomedicine, Peter W. Arzberger, Ph.D.
- 8:30 am Translating microscopic imaging into multi-scale 3D structural models of normal and failing cardiomyocytes Masahiko Hoshijima, M.D., Ph.D., UCSD
- 9:15 am Multi-scale Geometric Modeling of Biomedical Systems: Bridging the Gap between Imaging and Simulation Zeyun Yu, Ph.D., UCSD
- 10:00 am coffee break
- 10:15 am Multi-scale Morse Theory and Data Streaming for Science Discovery Valerio Pascucci, Ph.D., LLNL
- 11:00 am VisTrails: Provenance and Data Exploration Claudio Silva, Ph.D., U. Utah
- 11:45 am Visual tools for building, visualizing and interacting with multiscale models Michel Sanner, Ph.D., NBCR/TSRI
- 12:30 pm - 2 pm Poster Session
- 2 pm - 6 pm Computer Aided Drug Design for Infectious Diseases, Chair: J. Andrew McCammon, Ph.D.
- 2:00 pm Structure-based drug design targeting HIV-1 reverse transcriptase: overcoming resistance by inhibitor strategic flexibility Eddy Arnold, Ph.D., Rutgers U.
- 2:45 pm Docking and Design with AutoDock David Goodsell, Ph.D., TSRI
- 3:30 pm Tackling Receptor Flexibility in Computer-Aided Drug Design Rommie Amaro, Ph.D., UCSD
- 4:15 pm coffee break
- 4:30 pm Identification of a novel chromophore to restore vision in macular degeneration Anne Hanneken, M.D., Scripps Memorial Hospital
- 5:15 pm The Fluctuating Biological Target of Multiple Conformations: Using Freeze-frame, Click Chemistry in Ligand Design Palmer Taylor, Ph.D., UCSD
Aug 11, 2008
- 8:30 am - 12:30 pm Computational Modeling of Heart Diseases, Chair: Andrew McCulloch, Ph.D.
- 8:30 am The reconstruction of the spontaneous action potential of cardiomyocytes in pulmonary vein Chae Hun Leem, M.D., U. Ulsan
- 9:15 am A concise model for β-adrenergic stimulation of the rabbit ventricular myocyte Jose Puglisi, Ph.D., UC Davis
- 10:00 am A Bioengineering Model of Coronary Circulation Ghassan Kassab, Ph.D., IUPUI
- 10:45 am coffee break
- 11:00 am A Role for Finite Element Models in Improving Diagnosis and Treatment of Ischemic Heart Disease Jeffrey Holmes, M.D., Ph.D., U. Virginia
- 11:45 am Interactions of biventricular pacing with alterations in heart failure Roy Kerckhoff, Ph.D., UCSD
- 12:30 pm Closing Remakrs Peter W. Arzberger, Ph.D., UCSD
- 12:30 pm - 2 pm Poster Session