GOFFA: A Tool for Analyzing Gene Functions
Author Information
Author(s): Sun Hongmei, Fang Hong, Chen Tao, Perkins Roger, Tong Weida
Primary Institution: Z-tech Corporation, National Center for Toxicological Research, FDA
Hypothesis
How can the Gene Ontology be effectively utilized for analyzing genomic and proteomic data?
Conclusion
GOFFA allows users to interactively analyze gene expression results, leading to new discoveries or hypotheses.
Supporting Evidence
- GOFFA ranks GO terms based on their significance for selected genes.
- The tool provides interactive functions to visualize and analyze GO data.
- Statistical analysis identifies enriched GO terms related to biological processes.
Takeaway
GOFFA is a tool that helps scientists understand what genes do by organizing information about them in a way that's easy to explore.
Methodology
GOFFA uses a client-server model with a JAVA client and ORACLE server to analyze gene data and visualize results.
Potential Biases
Potential for type 1 and type 2 errors in determining differentially expressed genes.
Limitations
The accuracy of p-values depends on the choice of reference genes, which can skew results if not properly selected.
Participant Demographics
The study involved six-week old Big Blue rats treated with aristolochic acid.
Statistical Information
P-Value
p<0.01
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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