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PhosphaBase: an ontology-driven database resource for protein phosphatases.

K J Wolstencroft1, R Stevens, L Tabernero

  • 1School of Biological Sciences, University of Manchester, Manchester, United Kingdom. kwolstencroft@cs.man.ac.uk <kwolstencroft@cs.man.ac.uk>

Proteins
|November 24, 2004
PubMed
Summary

PhosphaBase is a new database for protein phosphatases, crucial enzymes in cell signaling and disease. This resource centralizes knowledge on phosphatases, aiding research and potential diagnostic tool development.

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Bioinformatics

Background:

  • Protein phosphatases are key enzymes regulating cellular processes through dephosphorylation.
  • Dysregulation of phosphatases is linked to major human diseases like cancer, diabetes, and neurodegenerative disorders.
  • A centralized resource for phosphatase information is needed to support growing research.

Purpose of the Study:

  • To establish PhosphaBase, the first public, ontology-driven database for protein phosphatases.
  • To consolidate and organize diverse information on the protein phosphatase family.
  • To provide a sustainable platform for phosphatase research and potential diagnostic applications.

Main Methods:

  • Developed a formal, domain-specific DAML+OIL ontology for protein phosphatases.

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  • Integrated data from heterogeneous biological sources.
  • Utilized Gene Ontology terms for efficient data extraction and organization.

    • Main Results:

    • Created PhosphaBase, a comprehensive database resource for protein phosphatases.
    • Established an ontology-driven architecture for robust data management and sustainability.
    • Enabled data centralization for the phosphatase research domain.

    Conclusions:

    • PhosphaBase provides a unique, centralized repository for protein phosphatase information.
    • The ontology-driven approach ensures a sustainable and expandable resource.
    • PhosphaBase has the potential to advance phosphatase research and aid in the development of diagnostic tools for related diseases.