A major goal for post-genomic biology will be to understand how the one dimensional (1D) genome gives rise to the staggering 3D complexity of the mammalian brain. To address this problem, it will be necessary to spatially map transcripts, proteins, and the networks they form in the brain at a genome-wide level. In this Bioengineering Research Partnership, 3 groups with complementary expertise and an established history of collaboration will combine forces to achieve this goal. (1) At UCLA, Desmond Smith will map gene expression patterns at a genome-wide scale in the mouse brain at volumetric resolutions of 11 ul and 1 ul. This project will employ microarray technology in combination with voxelation, a method for rapid acquisition of expression patterns in the brain. (2) At PNNL, Dick Smith will use voxelation to map protein expression patterns at high throughput using mass spectrometry (FT-ICR MS), again at resolutions of 11 ul and 1 ul. (3) At USC, Richard Leahy will perform image analysis of the data produced by the first 2 aims to create 3D transcript and protein atlases and to extract meaning from the large multivariate data sets that will result. Thus, the first 2 aims will display the relationship between the transcriptome and the proteome in the 3D space of mammalian brain, while the third aim will display the relationships between the brain transcriptome and proteome in the conceptual ID space of the genome.

Agency
National Institute of Health (NIH)
Institute
National Institute of Neurological Disorders and Stroke (NINDS)
Type
Research Project (R01)
Project #
1R01NS050148-01A1
Application #
6943327
Study Section
Special Emphasis Panel (ZRG1-MDCN-K (55))
Program Officer
Tagle, Danilo A
Project Start
2005-09-20
Project End
2010-08-31
Budget Start
2005-09-20
Budget End
2006-08-31
Support Year
1
Fiscal Year
2005
Total Cost
$508,792
Indirect Cost
Name
University of California Los Angeles
Department
Pharmacology
Type
Schools of Medicine
DUNS #
092530369
City
Los Angeles
State
CA
Country
United States
Zip Code
90095
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Ghazalpour, Anatole; Bennett, Brian; Petyuk, Vladislav A et al. (2011) Comparative analysis of proteome and transcriptome variation in mouse. PLoS Genet 7:e1001393
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Chin, Mark H; Qian, Wei-Jun; Wang, Haixing et al. (2008) Mitochondrial dysfunction, oxidative stress, and apoptosis revealed by proteomic and transcriptomic analyses of the striata in two mouse models of Parkinson's disease. J Proteome Res 7:666-77

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