From genes to personalized healthcare : grid solutions for by N. Jacqet

By N. Jacqet

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Extra resources for From genes to personalized healthcare : grid solutions for the life sciences ; proceedings of HealthGrid 2007 00 / edited by Nicolas Jacq .... [et al.]

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Jacques Colinge, Alexandre Masselot, Marc Giron, Thierry Dessingy, and Jérôme Magnin. Olav: towards high-throughput tandem mass spectrometry data identification. Proteomics, 3(8):1454–1463, Aug 2003. Robertson Craig and Ronald C Beavis. Tandem: matching proteins with tandem mass spectra. Bioinformatics, 20(9):1466–1467, Jun 2004. Partha M Das and Rakesh Singal. Dna methylation and cancer. J Clin Oncol, 22(22):4632–4642, Nov 2004. Frank Desiere, Eric W Deutsch, Nichole L King, Alexey I Nesvizhskii, Parag Mallick, Jimmy Eng, Sharon Chen, James Eddes, Sandra N Loevenich, and Ruedi Aebersold.

2. MS/MS identifications workflows For many years the combination of different search tools and analysis strategies has been proposed to improve the result quality of the identification process [8]. Hence, the development of a platform for MS/MS identification workflows is one of the most interesting topics in bioinformatics for proteomics. The swissPIT project aims at providing a protein identification platform from MS/MS data. It is being developed on a Grid infrastructure in order to perform complex identification workflows.

20 A. Quandt et al. / Grid-Based Analysis of Tandem Mass Spectrometry Data 3. Results In this article we have described swissPIT, the Swiss Protein Identification Toolbox, a new workflow-based platform for the analysis of mass spectrometry data. By giving access to several analysis tools, swissPIT aims to mix different search strategies to increase the overall identification of spectra. We also argue for the need of high-throughput computing infrastructures like Grids in modern mass spectrometry-based proteomics to perform the in-depth analysis with our identification workflows.

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