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BioGRID: Biological General Repository for Interaction Datasets

Ben Bachman Georgia Institute of Technology 28 June, 2006. BioGRID: Biological General Repository for Interaction Datasets. Overview. Database of protein-protein interactions Removes redundancies Search protein of interest Retrieve primary information

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BioGRID: Biological General Repository for Interaction Datasets

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  1. Ben Bachman Georgia Institute of Technology 28 June, 2006 BioGRID: Biological General Repository for Interaction Datasets

  2. Overview • Database of protein-protein interactions • Removes redundancies • Search protein of interest • Retrieve primary information • Physical and genetic interaction data • Links to other databases • http://www.thebiogrid.org

  3. Features Overview • Realtime site statistics • Can search an organism by • Genebank ID • Entrez-Gene ID • SGD ID • Gene name • Links to all known related enzymes • Links to information in other databases

  4. Statistics

  5. Search Criteria

  6. Example Search

  7. Example Results

  8. Osprey • Visualization tool • Powered by BioGRID • Shows graphical relationships between proteins • Links to information included in BioGRID

  9. Features Overview • Add in known enzymes • Shows BioGRID data on the enzyme • Visualize links to related enzymes • Extended visualization • View information on relationship between enzymes • Links to database websites with more information

  10. Osprey Example

  11. Osprey Example

  12. Osprey Example

  13. Osprey Example

  14. Osprey Example

  15. Osprey Example

  16. Summary • BioGRID sometimes lacking in information, but instead displays error message • Very well manicured database • Osprey could use a way to find the path between two enzymes • A few small UI problems • Many useful features

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