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Applications deployed by WP10 on testbed1

Applications deployed by WP10 on testbed1. V. Breton DataGrid conference. List of applications. Bio-informatics Bio-informatics web portal : IBCP (C. Blanchet) Parasitology : LBP Clermont (N. Jacq) Phylogenetics : BBE Lyon (T. Sylvestre) Search for primers : Centrale Paris (K. Kurata)

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Applications deployed by WP10 on testbed1

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  1. Applications deployed by WP10 on testbed1 V. Breton DataGrid conference

  2. List of applications • Bio-informatics • Bio-informatics web portal : IBCP (C. Blanchet) • Parasitology : LBP Clermont (N. Jacq) • Phylogenetics : BBE Lyon (T. Sylvestre) • Search for primers : Centrale Paris (K. Kurata) • Statistical genetics : CNG Evry (N. Margetic) • Update and mirroring of genomics data bases : LPC Clermont (Y. Legrè) • Medical imaging • MR image simulation: CREATIS (H. Benoit-Cattin) • Medical data and metadata management : CREATIS (J. Montagnat) • Simulation platform for PET/SPECT based on Geant4 : GATE collaboration (L. Maigne)

  3. Bio-informatics applications fall in three categories • CPU-intensive algorithms requiring little transfer of data • Phylogenetics (BBE Lyon) • Statistical genetics (CNG Evry) • CPU-intensive algorithms requiring large transfer of data (à la GridBlast) • Genomics comparative analysis (IBCP, …) • Search for primers (Centrale Paris) • Biological data management on the grid • Update and mirroring of genomics data bases (LPC) • Comparison of parasitology data bases (LBP)

  4. Medical imaging applications fall in the same three categories • CPU-intensive algorithms requiring little transfer of data • MRI simulator (CREATIS) • Simulator for PET/SPECT based on Geant4 (GATE) • CPU-intensive algorithms requiring large transfer of data (either input or output file) • Image databases indexation • Epidemiological studies • Medical data management • Security enforcement on a grid-wide environment • Metadata management

  5. Middleware components used • All applications require WP1 tools for grid computing • Bio-informatics algorithms • Medical imaging simulators • … • Data management applications require WP2 GDMP, replica manager and Spitfire • Grid metadata manager wanted

  6. WP10 goals between now and the end of the year • Deploy the applications listed • Test algorithms on a significant scale (several tens of CPU) to get biomedically meaningful results • Demonstrate the relevance of biomedical data and metadata management on the grid • Have DataGrid nodes in biomedical laboratories • Need for training of system engineers to install EDG in their lab • Discuss with WP2 and WP5 tools for metadata management

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