Make new connections with the Whole Brain Catalog

An open source, downloadable, multi-scale, virtual catalog of the mouse brain and its cellular constituents.

This next generation open environment has been developed by a team of researchers from the UC San Diego to connect members of the worldwide neuroscience community to facilitate solutions for today’s intractable challenges in brain research. We welcome you to read more about it, participate in the Catalog’s forums, keep abreast of recent developments, and subscribe to our mailing list. Enjoy your journey into the brain!

To download, right-click a link below and select "save target as" or "save link as."
Download HD Versions  .mov [370MB] |  .wmv [130MB]
Download Smaller Versions  .mov [40MB] |  .wmv [40MB]

5 Easy Ways to Explore

1 Explore the datasets across multiple scales.

The Whole Brain Catalog allows users to integrate data in a common multi-scale spatial framework. Our environment allows us to view slices through the brain, 3D representations of brain parts as well as cell and molecule models. We support 2D slice images, 2D tomograms, 3D cell morphologies, 3D EM surface meshes, and 3D EM volumes. Learn more...

2 View data closely at high resolution.

We have integrated the ability to view images that are gigabytes. In order to explore multiple, massive datasets on your personal computer in a single environment we have implemented a design in which images are broken into tiles. Inspect the highest resolution view via your web browser through links from the Whole Brain Catalog. Learn more...

3 Observe accurately simulated neurons.

We have the ability to accurately show neuron simulations. By submitting your simulation and firing information about cells, you can extend the life of your data and provide useful information to modelers. Learn more...

4 Readily search for content.

When you bring up the context menu for an object you will see an option to open in Neurolex.org. This will bring up the information about the type of object in a Web browser. The vocabulary is also tied to segmented objects constructed in Jinx. Learn more...

5 Contribute your own research.

Users may contribute all the multiple scales of data using upload tools to semantically tag their data, which makes it readily searchable. Researchers can create their own views and combinations of data to reveal unique views. Learn more...

See other things you can do in Whole Brain Catalog »