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Bioinformatics. 2007 Jul 1;23(13):1697-9. Epub 2007 Apr 27.

GAzer: gene set analyzer.

Author information

  • 1Korean BioInformation Center, KRIBB, Daejeon 305-806, Korea.

Abstract

Gene Set Analyzer (GAzer) is a web-based integrated gene set analysis tool covering previously reported parametric and non-parametric models. Based on a simulation test for the reported algorithms, we classified and implemented three main statistical methods consisting of the z-statistic, gene permutation and sample permutation for ten gene set categories including Gene Ontology (GO) for human, mouse, rat and yeast. This tool identifies significantly altered gene sets scored by z-statistics and P-values from the z-test or permutation test and provides q-values and Bonferroni P-values to correct multiple hypothesis testing. GAzer allows users to observe changes in expression of each gene in a gene set or to see the significance of the gene sets containing a gene(s) of interest, thus allowing interactive data analysis both at the gene and gene set level. Moreover, GAzer offers extensive annotation for each gene.

AVAILABILITY:

The GAzer gene set analyzer is freely available at http://integromics.kobic.re.kr/GAzer/.

SUPPLEMENTARY INFORMATION:

This can be found on the web page (http://integromics.kobic.re.kr/GAzer/supplement.jsp).

PMID:
17468122
[PubMed - indexed for MEDLINE]
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