The Open Source Virtual Brain

A screenshot view of The Whole Brain Catalog software; from the WBC Wiki

The Open Source movement has been an integral part of software development for many years now, and it is starting to explode into the science world. The latest project might even transform brain science communication and understanding to a new level as the new Whole Brain Catalog is now available for anyone to access.

The brain is complicated. The brain is designed with a biological network of connected cells so intricate that a complete visualization or map of the system has yet to be developed. Neuroscientists have been trying to determine a way to create this map for many years, and advances in brain imaging has helped inch us closer toward this realization. The Whole Brain Catalog, from researchers at UC San Diego, is the latest attempt at constructing this map, and they are taking a little inspiration from Google.

The software integrates imaging data and models from anyone who is able to contribute. There is still so much to discover about the structure and function of the brain, and amassing this sort of information from everyone in an organized and visually integrated way could really bring about a revolution in the fundamental understanding of the human brain.

Researchers generating data can provide 2D images, 3D reconstructions, cellular morphologies, and even functional simulations that will all be integrated into the system’s catalog. Users, which may be anyone from other neuroscience professionals to the interested citizen scientists, can explore through actual imagery of slices of the brain and wander around 3D models of brain regions all the way down to molecular structures.

A future goal of the WBC is to integrate their extensive data with the National Institute of Health’s Neuroscience Information Framework (NIF), which currently is a growing online database of all web-based neuroscience resources. Anyone can register today with this open-source program through Neuinfo and search the extensive collection of neuroscience information.

Although the WBC sounds wonderful and exciting, the software is very much in an early, beta-testing stage. We have been trying to install the program here at Neuron News on a Dell laptop running an Intel Celeron 2 GHz, 2 GB RAM, which is just below the minimum computing system for the software (view system requirements). So, the software has loaded up, but quickly took everything this little computer had to offer and crashed it down hard.

If you have the computing resources to try out the latest release of The Whole Brain Catalog (download now), please comment here to let us know about what interesting images and simulations you discover. And, we would also appreciate if you could share your screenshots with Neuron News.

What this sort of software and world-wide open collaboration could also foster is a Zooniverse-inspired citizen science project. The team that started the Galaxy Zoo interface is continuing to help citizen scientists look “upward” with new projects to look at the Moon, Mars, galaxies, solar storms, and more. It would be also exciting to offer the opportunity for people to look “inward,” and enable citizen scientists to help identify and discover new things out of the deluge of data coming from the neuroinformatics and neuroimaging fields. In fact, the interest in participation might exponentially increase from the Zooniverse’s current 300,000-plus world-wide volunteers, since it might be more broadly considered that trying to figure out more about ourselves is paramount to watching for a dark black hole so many light years away.

It is likely that some group has already begun the initial considerations for developing a citizen science-lead, at home discovery interface for the human brain. If not, then we would like to formally propose the idea here on Neuron News, and find out what you think about the possibility of creating an open platform allowing anyone to explore the human mind and help make scientific observations and discoveries by sifting through the increasing collection of brain images and models.

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“3-D brain model could revolutionize neurology” :: :: July 30, 2010 :: [ READ ]

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Last updated October 26, 2021