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BioGRID: a general repository for interaction datasets.

Chris Stark1, Bobby-Joe Breitkreutz, Teresa Reguly

  • 1Ontario Cancer Institute, Princess Margaret Hospital, 610 University Avenue, Toronto, Ontario, Canada M5G 2M9.

Nucleic Acids Research
|December 31, 2005
PubMed
Summary
This summary is machine-generated.

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BioGRID offers a comprehensive, freely accessible database of over 116,000 protein and genetic interactions for multiple species. This resource facilitates the study of gene function and biological networks.

Area of Science:

  • * Molecular Biology
  • * Bioinformatics
  • * Systems Biology

Background:

  • * Understanding gene and protein interactions is crucial for deciphering cellular functions and network properties.
  • * Access to unified, curated interaction datasets is essential for biological research.

Purpose of the Study:

  • * To present BioGRID release version 2.0, a comprehensive database of physical and genetic interactions.
  • * To provide a freely accessible resource for researchers studying gene and protein interactions.

Main Methods:

  • * Exhaustive curation of published literature, particularly for Saccharomyces cerevisiae.
  • * Inclusion of over 116,000 interactions from Saccharomyces cerevisiae, Caenorhabditis elegans, Drosophila melanogaster, and Homo sapiens.
  • * Development of a web interface for data search and retrieval, alongside downloadable datasets.

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Main Results:

  • * BioGRID release 2.0 contains >116,000 interactions.
  • * Over 30,000 new interactions were added from 5,778 sources, primarily from Saccharomyces cerevisiae literature.
  • * The database offers a hyper-linked web interface, downloadable data files (tab-delimited, PSI-MI XML), and pre-computed graphical layouts.

Conclusions:

  • * BioGRID provides a valuable, up-to-date resource for biological network analysis.
  • * The database supports research into gene/protein function and global network properties.
  • * Integration with visualization tools like Osprey enhances data exploration capabilities.