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Large scale deployment of molecular docking application on computational grid infrastructures for combating malaria

: Kasam, V.; Salzemann, J.; Jacq, N.; Mass, A.; Breton, V.


Schulze, B.:
Seventh IEEE International Symposium on Cluster Computing and the Grid, CCGRID 2007
Piscataway: IEEE Computer Society, 2007
ISBN: 0-7695-2833-3
IEEE International Symposium on Cluster Computing and the Grid (CCGrid) <7, 2007, Rio de Janeiro>
Fraunhofer SCAI ()

Computational grids are solutions for several biological applications like virtual screening or molecular dynamics where large amounts of computing power and storage are required. The WISDOM project successfully deployed virtual screening at large scale on EGEE grid infrastructures in the summer 2005 and achieved 46 million dockings in 45 days, which is equivalent to 80 CPU years. WISDOM is one good example of a successful deployment of an embarrassingly parallel application. In this paper, we describe the improvements in our deployment. We screened ZINC database against four targets implicated in malaria. During more than 2 months and a half we have achieved 140 million dockings, representing an average throughput of almost 80,000 dockings per hour. This was made possible by the availability of thousands of CPUs through different infrastructures worldwide. Through the acquired experience, the WISDOM production environment is evolving to enable an easy and faulttolerant deployment of biological tools.