ISPIDER
ISPIDER

ISPIDER - A Pilot Grid for Integrative Proteomics

In Silico Proteome Integrated Data Environment Resource











The aim of this Bioinformatics and E-Science funded project is to create an informatics platform for proteomics using Grid-based technologies, and to use this to address specific biological problems.  To this end we will construct an In Silico Proteome Integrated Data Environment Resource (ISPIDER) as a proteome Grid. In this project, we refer to proteomics in the most general sense, considering data from gel/mass spectrometry based proteomics through protein-protein interaction data, to structure-based proteome informatics and sequence-based proteome/genome annotation. We plan to develop tools, standards and infrastructure that will integrate these data types to enable novel queries and analyses to be performed. As the field of experimental proteomics is relatively new there have not been any attempts on a large scale to tackle these sorts of problems, where we might wish to conduct proteome-wide queries linking biological data such as gel spots and protein identifications with protein interactions and functional/structural annotations. We believe that the proposed pilot data integration project, involving 3 major centres of bioinformatics innovation in the UK (Manchester, UCL/Birkbeck, EBI), will also foster greater links and co-operation in UK bioinformatics, and will lead to improved data standards, data integration and associated tools that will benefit the wider biological community.