Exploratory workshop: Connecting BioPAX to other Biomedical Ontologies
BioPAX (![[WWW]](/wiki/modern/img/moin-www.png){kind=small}
http://biopaxwiki.org/) is a collaborative effort to create a common format for representation and exchange of biomolecular pathways.
As part of the on-going BioPAX development, we will be having a two day workshop with Barry Smith( http://ontology.buffalo.edu/smith/), well known scholar of biomedical ontologies.
Workshop Goals:
- Learn about the philosophy and method behing the Open Biomedical
Ontologies.
- Review and discuss the current BioPAX ontology and upcoming issues
from this perspective.
- Report back to the BioPAX community on what we learn.
Participation open to those with an interest in biological knowledge representation, pathway and molecular interaction databases, and semantic web applications for the life sciences. Note that space is limited, and preference may be given to those who register earlier.
When: November 20-21, 2006
Where: Cambridge, Massachusetts. Building/Room to be announced.
Time: Sessions 9:30-12, 1:30-5. Room open 9-6.
Fee: ![[Academic]](/wiki/modern/img/moin-inter.png){kind=small}
$50 , $200. Assistance available - please inquire.
Registration and Inquiries: Please send a note to ![[MAILTO]](/wiki/modern/img/moin-email.png){kind=small}
biopax-smith@mumble.net by November 15, 2006, introducing yourself and your interests. We will respond as to whether there is place as soon as possible, but no later than the 16th. If you need to arrange travel plans and so need to know sooner, please indicate that in your note.
We are seeking donations/sponsors to defray the modest costs of this workshop. Please send mail to biopax-smith@mumble.net.
General discussion of the workshop will be on the BioPAX-boston mailing list: http://groups.google.com/group/BioPAX-Boston
Required preparatory reading:
BioPAX Level 2 Documention http://biopax.org/release/biopax-level2-documentation.pdf
Biomedical Informatics and Granularity http://ontology.buffalo.edu/bio/Gran_Biomed.pdf
Bi! odynamic Ontology: Applying BFO in the Biomedical Domain http://ontology.buffalo.edu/medo/biodynamic.pdf
Fiat Boundaries http://ontology.buffalo.edu/smith/articles/fiat.htm
A Theory of Granular Partitions http://ontology.buffalo.edu/smith/articles/partitions.pdf