It Takes the Entire Internet to Map a Mouse's Brain

Illustration for article titled It Takes the Entire Internet to Map a Mouses Brain

Creating a wiring diagram of the human brain's neurons is an oft-discussed idea that remains in the realms of science fiction. Scale that problem down to tackling a mouse brain, however, and you're in the realms of what science can just about manage—with your help.


In fact, that's exactly what a team of scientists from Cold Spring Harbor Laboratory in Long Island, NY, is doing. Creating a circuit diagram of the human brain, you see, would almost certainly transform our understanding of who we are: it should lay bare the biological codes behind our personalities, memories, skills and susceptibilities. Mapping the neurons of the mouse brain is a realistic stepping stone towards that achievement—but the researchers still have their work cut out.

To create images accurate enough to trace out a circuit diagram of the neurons in a brain, the researchers have to inject a series of chemical tracers into the brain and then cut it into incredibly thin slices. They then use extremely high-zoom light microscopes to acquire incredibly detailed images of each brain slice. A picture typically contains a billion pixels—that's an image over 30,000 pixels square—and, in total, a full set of images for a single brain provides 1TB of data.


Unfortuantely, that's the easy part. They have so much data they almost don't know what to do with it all, so they're opening it up for use by the wider scientific community—and even the public. So far, they've uploaded a massive 500TB of images to their project's website, and more data is being added every week.

The long-term goal, of course, is to construct a wiring diagram of how all the neurons are connected and how they work together. The problems is that no two brains are ever alike, so the process isn't as simple as mapping a single brain. Instead, the scientists want to create a generalized diagram that can describe the majority of brains. Partha Mitra, one of the researchers behind the project, explains to Scientific American:

"Mouse brains show individual variation, so building up a statistical description of the variations will require many repeats. Since no one has ever tried doing this, we don't know how many repeats we will need."

Still, by sharing the data amongst the entire scientific community, they're speeding the process up as much as possible. They're hopeful, too: Mitra plans to have a "reasonable first draft" of a rodent brain connectivity map by 2014. [Brain Architecture Project via Scientific American]

Image by Cold Spring Harbor Laboratory


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Ummm, you mean no one here has ever heard of the The Blue Brain Project EPFL?

"Reconstructing the brain piece by piece and building a virtual brain in a supercomputer—these are some of the goals of the Blue Brain Project. The virtual brain will be an exceptional tool giving neuroscientists a new understanding of the brain and a better understanding of neurological diseases.

The Blue Brain project began in 2005 with an agreement between the EPFL and IBM, which supplied the BlueGene/L supercomputer acquired by EPFL to build the virtual brain.

The computing power needed is considerable. Each simulated neuron requires the equivalent of a laptop computer. A model of the whole brain would have billions. Supercomputing technology is rapidly approaching a level where simulating the whole brain becomes a concrete possibility.

As a first step, the project succeeded in simulating a rat cortical column. This neuronal network, the size of a pinhead, recurs repeatedly in the cortex. A rat’s brain has about 100,000 columns of in the order of 10,000 neurons each. In humans, the numbers are dizzying—a human cortex may have as many as two million columns, each having in the order of 100,000 neurons each.

Blue Brain is a resounding success. In five years of work, Henry Markram’s team has perfected a facility that can create realistic models of one of the brain’s essential building blocks. This process is entirely data driven and essentially automatically executed on the supercomputer. Meanwhile the generated models show a behavior already observed in years of neuroscientific experiments. These models will be basic building blocks for larger scale models leading towards a complete virtual brain."