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Bioinformatics Advance Access published online on November 30, 2004
Bioinformatics, doi:10.1093/bioinformatics/bti183
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received October 4, 2004
Revised November 15, 2004
Accepted November 24, 2004

Applications note

MACAT - MicroArray chromosome analysis tool

Joern Toedling 1, Sebastian Schmeier 1, Matthias Heinig 1, Benjamin Georgi 1, and Stefan Roepcke 1*

1 Max Planck Institute for Molecular Genetics, Ihnestr. 73, D-14195 Berlin, Germany; Freie Universitaet Berlin, Bioinformatics programme

* To whom correspondence should be addressed.
Stefan Roepcke, E-mail: roepcke{at}molgen.mpg.de


  Abstract

Summary: By linking differential gene expression to the chromosomal localization of genes, one can investigate microarray data for characteristic patterns of expression phenomena involving sizeable parts of specific chromosomes. We have implemented a statistical approach for identifying significantly differentially expressed chromosome regions. We demonstrate the applicability of the approach on a publicly available data set on acute lymphocytic leukemia.

Availability: The R-package macat can be obtained from http://compdiag.molgen.mpg.de/software/macat.shtml.

Supplementary information: see http://compdiag.molgen.mpg.de/software/macat.shtml.


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