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Using Pharmabase to perform pharmacological analyses of cell function.

Peter J S Smith1, David Remsen1

  • 1BioCurrents Research Center, Marine Biological Laboratory, Woods Hole, Massachusetts.

Current Protocols in Bioinformatics
|April 23, 2008
PubMed
Summary

Pharmabase is a novel database connecting molecular cell transport to protein function. It offers tailored navigation for researchers studying membrane transport and pharmacology, enhancing drug discovery.

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Area of Science:

  • Pharmacology
  • Molecular Biology
  • Biochemistry

Background:

  • Cellular transport mechanisms are crucial for physiological processes.
  • Understanding protein interactions in transport is key to pharmacology.
  • Existing databases may lack integrated views of molecular transport and function.

Purpose of the Study:

  • To introduce Pharmabase, a database bridging molecular cell transport and protein function.
  • To provide researchers with advanced search and navigation tools for membrane transport and pharmacology.
  • To facilitate the detailed study of individual compounds and their targets.

Main Methods:

  • Development of a database integrating molecular and functional data.
  • Implementation of search functionalities by membrane transport, disease, pathway, and cell type.
  • Creation of a graphic interface for pathway and cell type visualization.
  • Generation of Compound Records detailing compound use and targets.

Main Results:

  • Pharmabase provides a comprehensive resource for membrane transport and pharmacology research.
  • Users can access information through hierarchical keys and cross-references.
  • The database supports tailored access based on investigator expertise.
  • A user community input mechanism is integrated for continuous improvement.

Conclusions:

  • Pharmabase serves as a valuable bridge between molecular mechanisms and functional pharmacology.
  • The database enhances research in cell transport and drug discovery.
  • Its flexible navigation and detailed compound information support diverse research needs.