I will discuss the current state of progress in high performance computing, biomolecular simulation and algorithms as we are applying them to understanding a range of problems in the use of information technology to understand biological systems. Examples will include the use of pattern discovery algorithms to understand gene expression, the use of massively parallel supercomputing capabilities made available by the Blue Gene architecture to probe the dynamics of protein folding and trans membrane proteins and how this work will impact the translation of basic science into clinical research and ultimately into clinical practice.