We found a match
Your institution may have access to this item. Find your institution then sign in to continue.
- Title
RankProd: a bioconductor package for detecting differentially expressed genes in meta-analysis.
- Authors
Hong, Fangxin; Breitling, Rainer; McEntee, Connor W; Wittner, Ben S; Nemhauser, Jennifer L; Chory, Joanne
- Abstract
While meta-analysis provides a powerful tool for analyzing microarray experiments by combining data from multiple studies, it presents unique computational challenges. The Bioconductor package RankProd provides a new and intuitive tool for this purpose in detecting differentially expressed genes under two experimental conditions. The package modifies and extends the rank product method proposed by Breitling et al., [(2004) FEBS Lett., 573, 83-92] to integrate multiple microarray studies from different laboratories and/or platforms. It offers several advantages over t-test based methods and accepts pre-processed expression datasets produced from a wide variety of platforms. The significance of the detection is assessed by a non-parametric permutation test, and the associated P-value and false discovery rate (FDR) are included in the output alongside the genes that are detected by user-defined criteria. A visualization plot is provided to view actual expression levels for each gene with estimated significance measurements.
- Publication
Bioinformatics (Oxford, England), 2006, Vol 22, Issue 22, p2825
- ISSN
1367-4811
- Publication type
Journal Article
- DOI
10.1093/bioinformatics/btl476