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First published online on July 6, 2006.
 Copyright © 2006 by The Physiological Society
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jphysiol.2006.112763v1
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Received May 3, 2006
Revised June 2, 2006
Accepted after revision July 4, 2006

Analyzing the developing brain transcriptome with the GenePaint platform

Gonzalo Alvarez-Bolado1 and Gregor Eichele2*

1 Max Planck Institute for Biophysical Chemistry,Goettingen, Germany
2 Max Planck Institute for Biophysical Chemistry, Goettingen, Germany

* To whom correspondence should be addressed. E-mail: gregor.eichele{at}mpihan.mpg.de.

We discuss technical means by which the complexity of gene and protein signaling cascades can be projected onto the complex structure of the mammalian brain. We argue that this requires both robotics as well as novel computational tools to register images of gene expression, annotate expression patterns and quantify gene expression. When sufficiently enriched and detailed, such gene expression/neuroanatomical atlases are hypothesis-generating tools and contain in themselves much of the information needed to investigate function in normal and genetically or otherwise modified brains. To be successful and useful, data-rich and comprehensive gene expression/neuroanatomical atlases have to be web accessible and structured in a way that allows the application of data exploration and mining tools.


Key words: Development • Gene expression • Mouse




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