GOSim – an R-package for computation of information theoretic GO similarities between terms and gene products
2007
GOSim: An R-package for Gene Ontology Similarities
Sample size: 1107
publication
Evidence: moderate
Author Information
Author(s): Fröhlich Holger, Speer Nora, Poustka Annemarie, Beißbarth Tim
Primary Institution: German Cancer Research Center (DKFZ)
Hypothesis
The hypothesis is that genes with expression patterns similar to known genes are involved in similar biological processes.
Conclusion
GOSim provides a flexible and powerful tool to combine biological knowledge with experimental data.
Supporting Evidence
- GOSim allows the calculation of functional similarity of genes based on GO terms.
- It extends existing tools by providing additional functional similarity measures.
- GOSim can cluster genes according to their biological function.
- It evaluates the homogeneity of gene groupings with respect to GO annotations.
Takeaway
GOSim helps scientists understand how similar genes are based on their functions, making it easier to study them.
Methodology
GOSim calculates functional similarities of genes based on their GO annotations using various information theoretic similarity measures.
Limitations
Functional clusters may contain false positives, which should be interpreted with care.
Digital Object Identifier (DOI)
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