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Physiol. Genomics (May 15, 2007). doi:10.1152/physiolgenomics.00287.2006
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Submitted on December 23, 2006
Accepted on May 2, 2007

A genome-scale map of expression for a mouse brain section obtained using voxelation

Mark H. Chin1, Alex B. Geng2, Arshad H. Khan2, Wei-Jun Qian3, Vladislav A. Petyuk3, Jyl Boline4, Shawn Levy5, Arthur W. Toga4, Richard D. Smith3, Richard M. Leahy6, and Desmond J. Smith2*

1 Human Genetics, UCLA, Los Angeles, California, United States
2 Pharmacology, UCLA School of Medicine, Los Angeles, California, United States
3 Pacific Northwest National Laboratories, Richland, Washington, United States
4 Neurology, David Geffen School of Medicine at UCLA, Los Angeles, California, United States
5 Biomedical Informatics Department, Vanderbilt University, Nashville, Tennessee, United States
6 Signal & Image Processing Institute, University of Southern California, Los Angeles, California, United States

* To whom correspondence should be addressed. E-mail: dsmith{at}mednet.ucla.edu.

Gene expression signatures in the mammalian brain hold the key to understanding neural development and neurological diseases. We have reconstructed 2-dimensional images of gene expression for 20,000 genes in a coronal slice of the mouse brain at the level of the striatum by using microarrays in combination with voxelation at a resolution of 1 mm3. Good reliability of the microarray results were confirmed using multiple replicates, subsequent quantitative RT-PCR voxelation, mass spectrometry voxelation and publicly available in situ hybridization data. Known and novel genes were identified with expression patterns localized to defined substructures within the brain. In addition, genes with unexpected patterns were identified and cluster analysis identified a set of genes with a gradient of dorsal/ventral expression not restricted to known anatomical boundaries. The genome-scale maps of gene expression obtained using voxelation will be a valuable tool for the neuroscience community.




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C. Brochier, M.-C. Gaillard, E. Diguet, N. Caudy, C. Dossat, B. Segurens, P. Wincker, E. Roze, J. Caboche, P. Hantraye, et al.
Quantitative gene expression profiling of mouse brain regions reveals differential transcripts conserved in human and affected in disease models
Physiol Genomics, April 21, 2008; 33(2): 170 - 179.
[Abstract] [Full Text] [PDF]


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