Methods Corner

A Microarray Tool Provides Pathway and GO Term Analysis

  1. Martin Koch1,*,
  2. Hans-Dieter Royer2,3,
  3. Michael Wiese1

Article first published online: 7 SEP 2011

DOI: 10.1002/minf.201100104

Issue

Molecular Informatics

Molecular Informatics

Volume 30, Issue 11-12, pages 918–921, December 2011

Additional Information

How to Cite

Koch, M., Royer, H.-D. and Wiese, M. (2011), A Microarray Tool Provides Pathway and GO Term Analysis. Mol. Inf., 30: 918–921. doi: 10.1002/minf.201100104

Author Information

  1. 1

    Institute of Pharmaceutical Chemistry II, University of Bonn an der Immenburg 4, 53121 Bonn phone: 0228735210

  2. 2

    Institute of Human Genetics and Anthropology, University of Düsseldorf, Universitätsstr. 1, 40225, Düsseldorf

  3. 3

    Center of Advanced European Studies and Research (Caesar), Ludwig-Erhard-Allee 2, 53175 Bonn

*Institute of Pharmaceutical Chemistry II, University of Bonn an der Immenburg 4, 53121 Bonn phone: 0228735210

Publication History

  1. Issue published online: 9 DEC 2011
  2. Article first published online: 7 SEP 2011
  3. Manuscript Accepted: 4 AUG 2011
  4. Manuscript Received: 1 JUL 2011

Funded by

  • Department of Computer Oriented Statistics and Data Analysis of the University of Augsburg
  • Laboratory of Immunopathogenesis and Bioinformatics at SAIC-Frederic

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Keywords:

  • Bioinformatics;
  • Genomics;
  • Medicinal chemistry

Abstract

Analysis of gene expression profiles is no longer exclusively a task for bioinformatic experts. However, gaining statistically significant results is challenging and requires both biological knowledge and computational know-how. Here we present a novel, user-friendly microarray reporting tool called maRt. The software provides access to bioinformatic resources, like gene ontology terms and biological pathways by use of the DAVID and the BioMart web-service. Results are summarized in structured HTML reports, each presenting a different layer of information. In these report, contents of diverse sources are integrated and interlinked. To speed up processing, maRt takes advantage of the multi-core technology of modern desktop computers by using parallel processing. Since the software is built upon a RCP infrastructure it might be an outset for developers aiming to integrate novel R based applications. Availability: Installer, documentation and various kinds of tutorials are available under LGPL license at the website of our institute http://www.pharma.uni-bonn.de/www/mart. This software is free for academic use.

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