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g:Profiler--a web server for functional interpretation of gene lists (2011 update)
Jüri Reimand1, Tambet Arak, Jaak Vilo
1University of Tartu, Institute of Computer Science, Tartu, Estonia. juri.reimand@ut.ee
Nucleic Acids Research
|June 8, 2011
Summary
g:Profiler is a web tool that helps researchers interpret gene lists for biological insights. The 2011 update enhances functional analysis with new features for gene lists, DNA polymorphisms, and protein interaction networks.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomics
Background:
- Interpreting candidate gene lists is crucial in biomedical research.
- Existing tools require comprehensive functional analysis methods.
Purpose of the Study:
- To present the 2011 update of g:Profiler, a web tool for functional gene list analysis.
- To introduce new features for enhanced interpretation of biological data.
Main Methods:
- Utilizing g:GOSt and g:Cocoa for interpreting gene lists, ordered lists, and collections.
- Integrating biomedical ontologies, pathways, regulatory motifs, and protein-protein interactions.
- Implementing biomolecule ID mapping, gene expression similarity search, and gene homology search.
Main Results:
- Added support for functional analysis of DNA polymorphisms via chromosomal queries.
- Introduced network analysis to identify enriched protein-protein interaction modules.
- Expanded functional analysis to include human disease genes.
- Improved statistics and filtering for more concise results.
Conclusions:
- The updated g:Profiler provides a comprehensive and versatile resource for functional gene interpretation.
- The new features facilitate deeper insights into genetic variations, regulatory networks, and disease associations.
- g:Profiler supports a wide range of species, serving as a valuable tool for diverse research communities.
