Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
Review
. 2009 Jun;6(3):243-9.
doi: 10.1586/epr.09.46.

Dual spatial maps of transcript and protein abundance in the mouse brain

Christopher C Park  1 , Vladislav A Petyuk, Wei-Jun Qian, Richard D Smith, Desmond J Smith
Affiliations
Review

Dual spatial maps of transcript and protein abundance in the mouse brain

Christopher C Park et al. Expert Rev Proteomics. 2009 Jun.

Abstract

Integrating quantitative proteomic and transcriptomic datasets promises valuable insights in unraveling the molecular mechanisms of the brain. We concentrate on recent studies using mass spectrometry and microarray data to investigate transcript and protein abundance in normal and diseased neural tissues. Highlighted are dual spatial maps of these molecules obtained using voxelation of the mouse brain. We demonstrate that the relationship between transcript and protein levels displays a specific anatomical distribution, with greatest fidelity in midline structures and the hypothalamus. Genes are also identified that have strong correlations between mRNA and protein abundance. In addition, transcriptomic and proteomic analysis of mouse models of Parkinson's disease are discussed.

PubMed Disclaimer

Figures

Figure 1
Figure 1. Voxelation maps of protein and mRNA levels for selected genes and corresponding ISH images from the Allen Brain Atlas
ISH: In situ hybridization; MS: Mass spectroscopy.
Figure 2
Figure 2. Relationship between mRNA and protein levels
(A) Spatial map of the correlation between detected mRNA and protein levels in a coronal section of the brain. Significance denoted by -log10 p-value of the Pearson correlation coefficient corrected for FDR. (B) Distribution of -log10 p-values for each gene across all voxels corrected for FDR. FDR: False-discovery rate.
Figure 3
Figure 3. Relationship between codon-use frequency and translation efficiency
Percent usage difference shown between the efficiently and inefficiently translated proteins for each codon. Codons ranked from most to least commonly used in the mouse genome.
See this image and copyright information in PMC

Similar articles

See all similar articles

Cited by

References

    1. Lein ES, Hawrylycz MJ, Ao N, et al. Genome-wide atlas of gene expression in the adult mouse brain. Nature. 2007;445(7124):168–176. - PubMed
    1. Gong S, Zheng C, Doughty ML, et al. A gene expression atlas of the central nervous system based on bacterial artificial chromosomes. Nature. 2003;425(6961):917–925. - PubMed

    2. Complete in situ hybridization atlas of all genes in the mouse brain.

    1. Meng F, Forbes AJ, Miller LM, Kelleher NL. Detection and localization of protein modifications by high resolution tandem mass spectrometry. Mass Spectrom. Rev. 2005;24(2):126–134. - PubMed
    1. Stoeckli M, Chaurand P, Hallahan DE, Caprioli RM. Imaging mass spectrometry: a new technology for the analysis of protein expression in mammalian tissues. Nat. Med. 2001;7(4):493–496. - PubMed

    2. Use of MALDI to create 2D protein‑abundance maps from brainsections.

    1. Schwartz SA, Weil RJ, Thompson RC, et al. Proteomic-based prognosis of brain tumor patients using direct-tissue matrix-assisted laser desorption ionization mass spectrometry. Cancer Res. 2005;65(17):7674–7681. - PubMed

Publication types