NCSU Invited Talk: Petascale Computing for Large-Scale Graph Problems and Computational Biology

Abstract

Graph theoretic problems are representative of fundamental kernels in traditional and emerging computational sciences such as chemistry, biology, and medicine, as well as applications in national security. Yet they pose serious challenges for parallel machines due to non-contiguous, concurrent accesses to global data structures with low degrees of locality. Few parallel graph algorithms outperform their best sequential implementation due to long memory latencies and high synchronization costs. In this talk, we consider several graph theoretic kernels for connectivity and centrality and discuss how the features of petascale architectures will affect algorithm development, ease of programming, performance, and scalability. Our large-scale graph algorithms are applied to real-world problems in phylogenetic reconstruction of evolutionary histories, inference of gene function in protein interaction networks, and cancer research.

David A. Bader

Distinguished Professor and Director of the Institute for Data Science

David A. Bader is a Distinguished Professor in the Department of Computer Science at New Jersey Institute of Technology.