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Bioinformatics Advance Access published online on January 29, 2009
Bioinformatics, doi:10.1093/bioinformatics/btp059
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© The Author (2009). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

CORNA: Testing gene lists for regulation by microRNAs

X. Wu 1,* and M. Watson 1

1 Institute for Animal Health, Compton, RG20 7NN, UK

*To whom correspondence should be addressed. Mr. Michael Watson, E-mail: michael.watson{at}bbsrc.ac.uk


  Abstract

Motivation: With the increasing use of post-genomics techniques to examine a wide variety of biological systems in laboratories throughout the world, scientists are often presented with lists of genes that they must make sense of. A consistently challenging problem is that of defining co-regulated genes within those gene lists. In recent years, microRNAs have emerged as a mechanism for regulating several cellular processes. In this paper, we report on how gene lists and microRNA targets data may be integrated to test for significant associations between gene lists and microRNAs.

Results: We discuss CORNA, a package written in R and released under the GNU GPL, which allows users to test gene lists for signifi-cant microRNA-target associations using one of three separate sta-tistical tests, to link microRNA targets to functional annotation and to visualize quantitative data associated with those data.

Availability: CORNA is available as an R package from http://corna.sf.net

Associate Editor: Prof. Ivo Hofacker

Received on November 19, 2008; revised on January 6, 2009; accepted on January 25, 2009

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[Abstract] [Full Text] [PDF]


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