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Developmental Anatomic Gene Expression Atlas (AGEA)

The Allen Gene Expression Atlas (AGEA) for the Developing Mouse Brain is used to understand how voxels of the brain are related by gene expression (Correlation), and to find genes expressed at a particular voxel (Gene Finder). Click on the AGEA tab to get started.

Correlation Mode

For the correlation mode, use the seed selector (left column) to select a starting age as well as a "seed" voxel The three columns to the right show correlation maps of how other voxels are related to the seed voxel based upon the gene expression of approximately 2000 genes.
Seed Selector

To begin, select an age from the upper left hand corner. Maps of the age-appropriate reference space are show in sagittal, coronal and horizontal planes in the left-most column. Navigate by clicking on a spot in one plane of view; this will appropriately adjust the other planes of view. Click on the maps to position the red crosshairs on the voxel of interest. Maps are only available for one brain hemisphere, shown by the overlay of reference atlas colors on the Nissl reference space.
Correlation Maps

The correlation maps are shown as heat maps (red is the highest correlation to the seed voxel) with one column for each age. The age chosen with the seed selector is shown, as well as the next youngest and the next oldest ages.
Gene Finder

Once a seed is selected and correlation maps are shown, you can retrieve a list of genes enriched in the region correlated to the seed voxel.

First, click on the "Gene Finder" tab. Then click on "Find Genes" for the particular age you are interested in. The result will be a list of genes with thumbnail images showing expression at the relevant region for both the seed age and the correlation map age.

Please refer to the Informatics Data Processing white paper for additional details.

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