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Bioinformatics Advance Access originally published online on November 15, 2007
Bioinformatics 2008 24(1):137-139; doi:10.1093/bioinformatics/btm541
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Gene Set Expression Comparison kit for BRB-ArrayTools

Xiaojiang Xu , Yingdong Zhao and Richard Simon *

Biometric Research Branch, National Cancer Institute, 9000 Rockville Pike, Bethesda, MD 20892-7434, USA

*To whom correspondence should be addressed.


  Abstract

Summary: A Gene Set Expression Comparison kit is developed as a module of BRB-ArrayTools for discovering biologically meaningful patterns in gene expression data. The kit consists of gene sets of transcription factor (TF) targets, gene sets containing genes whose protein products share the same protein domain and gene sets of microRNA targets. Using this module of BRB-ArrayTools, researchers can efficiently analyze pre-defined sets of gene whose expression is correlated with a categorical quantitative phenotype or patient survival.

Availability: Gene Set Expression Comparison kit is freely available as a module of BRB-ArrayTools for non-commercial users. BRB-ArrayTools is available at http://linus.nci.nih.gov/BRB-ArrayTools.html.

Contact: rsimon{at}mail.nih.gov

Supplementary information: Supplementary data are available at Bioinformatics online.

Associate Editor: David Rocke

Received on July 5, 2007; revised on August 27, 2007; accepted on October 22, 2007

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