GAzer: gene set analyzer.
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.


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


BACKGROUND
This can be found on the web page (http://integromics.kobic.re.kr/GAzer/supplement.jsp).
Kim
Sang-Bae
SB
Korean BioInformation Center, KRIBB, Daejeon 305-806, Korea.
Yang
Sungjin
S
Kim
Seon-Kyu
SK
Kim
Sang Cheol
SC
Woo
Hyun Goo
HG
Volsky
David J
DJ
Kim
Seon-Young
SY
Chu
In-Sun
IS
D000465:Algorithms; D000818:Animals; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D020407:Internet; D051379:Mice; D005810:Multigene Family / Q000502:physiology*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D051381:Rats; D012984:Software; D018511:Systems Integration; D014584:User-Computer Interface; D015003:Yeasts