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Unknown macro: {reg-tm} 3-DViewer">Brain Explorer
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3-D Viewer

Brain Explorer® is an application for viewing brain anatomy and gene expression data in 3D. It is integrated with three Allen Brain Atlas online resources: the Allen Human Brain Atlas, the Allen Mouse Brain Atlas and the Allen Developing Mouse Brain Atlas.

Using Brain Explorer, you can:

View a fully interactive version of the Allen Mouse Brain Atlas in 3D.
View overlapping expression data from different genes.
Investigate probes or samples of interest in more detail with direct links back to the Allen Mouse Brain Atlas.
Navigate the high-resolution 2D ISH images.

Expression data from the Allen Mouse Brain Atlas can be viewed using Brain Explorer v1.4.



For the best performance, please check with your video card vendor for the latest available drivers before using Brain Explorer. The Windows version of Brain Explorer is available here. Double-click the downloaded BrainExplorer2.msi file and follow the prompts.


The Mac version of Brain Explorer is available here. Double-click the downloaded zip file to unpack Brain Explorer.

Installing Atlases

A one-time download containing anatomy files is needed following installation of the Brain Explorer application. The first time you open Brain Explorer, you will be asked to choose to download files for the Developing Mouse and Human Brain atlases. Click on the atlases you would like to use and then click the Install button.

To download missing atlases on the PC, go to the Help menu and select Download Atlases. On the Mac, the command is in the Brain Explorer 2 menu.

Getting Updates

Brain Explorer will inform you when updates to the Brain Explorer application itself or its atlases are available. New data may not be available for viewing until you install the required updates.

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