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Stanford Medical Informatics Preprint Archive
Using Metacomputing Tools to Facilitate Large Scale Analyses of Biological Databases
[pdf version of the paper available from the pacific symposium on biocomputing website.]
"Given the high rate at which biological data are being collected and made public, it is essential that computational tools be developed that are capable of efficiently accessing and analyzing these data. High-performance distributed computing resources can play a key role in enabling large-scale analyses of biological databases. We use a distributed computing environment, LEGION, to enable large-scale computations on the Protein Data Bank (PDB). In particular, we employ the FEATURE program to scan all protein structures in the PDB in search for unrecognized potential cation binding sites. We evaluate the efficiency of LEGION?s parallel execution capabilities and analyze the initial biological implications that result from having a site annotation scan of the entire PDB. We discuss four interesting proteins with unannotated, high-scoring candidate cation binding sites."
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“Bioinformatics will be at the core of biology in the 21st century. In fields ranging from structural biology to genomics to biomedical imaging, ready access to data and analytical tools are fundamentally changing the way investigators in the life sciences conduct research and approach problems. Complex, computationally intensive biological problems are now being addressed and promise to significantly advance our understanding of biology and medicine. No biological discipline will be unaffected by these technological breakthroughs.”
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