Very sensible question, Nigam.
Unfortunately, the nature of this data - both the atlas and each of
these 20,000 GenePainted brains is 2D. The GenePainted brains -
despite having been
There are statistical techniques used to make assertions about 3D
anatomical objects from 2D-based data (
Hi Bill, Maryann,
Thanks for your great response to the GIS queries of the brain. I
absolutely agree it's not a trivial issue to create canonical
coordinates that will work for different types/instances of brains,
while there is only one earth! Bill, you're also right on the target for
my qu
Hello
The Proteomics Standards Initiative have developed a Community Practice
document on "Guidelines for the development of Controlled Vocabularies. This
document was designed initially to guide the development of the PSI and MSI
Controlled vocabularies. However it may be suitable across domains
This is exactly what BIRN has been working on through the Smart Atlas
project and now MBAT. The inverse query is also true: What genes are
expressed here? As Bill indicated, there are several spatially normalized
atlas projects (ABA, GEnepaint) that can do that. We've been working on
spat
Because it was easy to do a proof of concept with it, and because
there are lots of freely available code snippets[1] to add
functionality to it should we want to go in that direction. If you
had a look you can see that I didn't have to write much code, which
is the way I like it :)
Not
I did pass some emails around to the SMART Atlas folks early last week
in order to get their feedback on Alan's work on the Google Maps
Javascript API and backend PERL code to support caching images. The
Google Maps API is one that has come up endless in these atlasing
discussions, and it's nice to
Given the UNIQUE work BIRN, your lab, and Ilya have done in applying
GIS techniques to this problem of creating a SPATIAL-QUERY capable
brain atlasing system (the SMART Atlas), it would be wonderful if
Ilya could vet the scenarios as I outline them below. This is my
best understanding of w
