title: GAzer: gene set analyzer.
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.
  
  
  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).
authors.affiliation: Korean BioInformation Center, KRIBB, Daejeon 305-806, Korea.
authors.forename: Sang-Bae
authors.initials: SB
authors.lastname: Kim
authors.forename: Sungjin
authors.initials: S
authors.lastname: Yang
authors.forename: Seon-Kyu
authors.initials: SK
authors.lastname: Kim
authors.forename: Sang Cheol
authors.initials: SC
authors.lastname: Kim
authors.forename: Hyun Goo
authors.initials: HG
authors.lastname: Woo
authors.forename: David J
authors.initials: DJ
authors.lastname: Volsky
authors.forename: Seon-Young
authors.initials: SY
authors.lastname: Kim
authors.forename: In-Sun
authors.initials: IS
authors.lastname: Chu
mesh_terms: 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