Stephan,

At the bottom of this page:

http://www.slicer.org/slicerWiki/index.php/Slicer3:Module:QueryAtlas

is a link to a spreadsheet that contains the mapping of FreeSurfer segmentation and parcellation names to BIRNLex, NeuroNames, UMLS, and IBVD. The Slicer tool has an ontology mapping function described on that web page.

BIRN has done some ontology work:

http://www.nbirn.net/research/ontology/index.shtm

and there's NeuroLex:

http://neurolex.org/wiki/Main_Page

Nick

On Tue, 2009-04-28 at 20:33 +0200, Stephan Gerhard wrote:

Hi!

I am rather new to the Freesurfer Software, so I'll start with an easy question. Currently I am involved in a SemanticWiki project called ConnetomeWiki, which deals with Brain Regions and their connectivity. This needs to setup a good ontology to start with and I am in the process of merging some of the Neuroscience Information Framework, Wikipedia, Foundational Model of Anatomy and some other vocabularies.

Since there is a big community behind Freesurfer, I also looked into what is available here and I found the files: FreeSurferColorLUT.txt and surface_labels.txt. Am I missing some important files related to this?

Now I thought that it would be nice to "align" my work with the FreeSurfers vocabulary for the benefit of everybody. So could anybody point me to the people that are involved in building the ontologies and inform about the current state of research in this field?

Thanks to anybody helping me with this issues!

Stephan

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