An anatomic gene expression atlas of the adult mouse brain

Ng, L., Bernard, A., Lau, C., Overly, C. C., Dong, H.-W., Kuan, C., Pathak, S., Sunkin, S. M., Dang, C., Bohland, J. W., Bokil, H. S., Mitra, P. P., Puelles, L., Hohmann, J., Anderson, D. J., Lein, E. S., Jones, A. R., Hawrylycz, M. (March 2009) An anatomic gene expression atlas of the adult mouse brain. Nat Neurosci, 12 (3). pp. 356-362. ISSN 1097-6256

URL: https://www.ncbi.nlm.nih.gov/pubmed/19219037
DOI: 10.1038/nn.2281

Abstract

Studying gene expression provides a powerful means of understanding structure-function relationships in the nervous system. The availability of genome-scale in situ hybridization datasets enables new possibilities for understanding brain organization based on gene expression patterns. The Anatomic Gene Expression Atlas (AGEA) is a new relational atlas revealing the genetic architecture of the adult C57Bl/6J mouse brain based on spatial correlations across expression data for thousands of genes in the Allen Brain Atlas (ABA). The AGEA includes three discovery tools for examining neuroanatomical relationships and boundaries: (1) three-dimensional expression-based correlation maps, (2) a hierarchical transcriptome-based parcellation of the brain and (3) a facility to retrieve from the ABA specific genes showing enriched expression in local correlated domains. The utility of this atlas is illustrated by analysis of genetic organization in the thalamus, striatum and cerebral cortex. The AGEA is a publicly accessible online computational tool integrated with the ABA (http://mouse.brain-map.org/agea.

Item Type: Paper
Subjects: bioinformatics > genomics and proteomics > databases > database construction
bioinformatics > genomics and proteomics > annotation > gene expression profiling annotation
organs, tissues, organelles, cell types and functions > organs types and functions > brain
bioinformatics > genomics and proteomics > databases > databases
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > genes, structure and function > gene expression
organism description > animal > mammal > rodent > mouse
CSHL Authors:
Communities: CSHL labs > Mitra lab
Depositing User: CSHL Librarian
Date: March 2009
Date Deposited: 02 Apr 2012 20:17
Last Modified: 03 Feb 2017 16:29
Related URLs:
URI: http://repository.cshl.edu/id/eprint/25868

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