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MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data.
Scott W Doniger1, Nathan Salomonis, Kam D Dahlquist
1Gladstone Institute of Cardiovascular Disease, University of California, San Francisco, CA 94141-9100, USA.
Genome Biology
|January 24, 2003
Summary
MAPPFinder integrates Gene Ontology (GO) annotations with GenMAPP software to create global gene-expression profiles. This tool helps researchers quickly find significant gene expression changes and explore gene relationships.
Area of Science:
- Bioinformatics
- Computational Biology
- Systems Biology
Background:
- Gene expression analysis is crucial for understanding biological processes.
- Integrating diverse biological data enhances the interpretation of gene expression patterns.
- Existing tools may lack comprehensive integration with standardized biological ontologies.
Purpose of the Study:
- To introduce MAPPFinder, a novel tool for generating global gene-expression profiles.
- To facilitate the identification of over-represented gene ontology terms in expression data.
- To enable interactive exploration and exchange of gene relationship data.
Main Methods:
- Integration of Gene Ontology (GO) annotations with the GenMAPP software.
- Development of a searchable browser for displaying gene-expression profiles.
- Generation of GenMAPP graphical files for detailed gene relationship exploration.
Main Results:
- MAPPFinder provides a comprehensive global gene-expression profile across biology.
- The tool enables rapid identification of GO terms with significant gene-expression changes.
- Users can explore, annotate, and exchange gene relationship data through generated graphical files.
Conclusions:
- MAPPFinder offers a powerful, integrated approach for analyzing gene expression data.
- The tool enhances biological discovery by linking expression changes to functional annotations.
- Facilitates collaborative research through the exchange of annotated gene relationship files.