Difference between revisions of "FMA (Protege) links to Slicer"
From NAMIC Wiki
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<h1>Progress</h1> | <h1>Progress</h1> | ||
Our plan for the project week is to work on | Our plan for the project week is to work on | ||
| − | + | # Integration of FMA browser with QueryAtlas. | |
| − | + | # Assesment of appropriate prefuse data-structures to hold FMA ontology data. | |
| − | + | # Integration of Query engine to Ion-Florin et al's functional ontology of brain. | |
Revision as of 20:37, 20 June 2008
Home < FMA (Protege) links to Slicer
Key Investigators
- GE: Viswanath Avasarala, Jim Miller
- Harvard: Ion-Florin Talos, Michael Halle, Wendy Plesniak
- Isomics: Steve Pieper
Objective
We are building algorithms to browse Protege's frame based ontologies. This capability will allow us to integrate some very extensive anatomy ontologies like the Foundational Model of Anatomy into Slicer3. Also, we plan to develop reasoning algorithms to work with functional ontologies of brain based on Protege's frame based representation.
Approach, Plan
Based on the idea's presented in the paper, "OQAFMA Querying Agent for the Foundational Model of Anatomy", we will build a query-engine that allows a software program to navigate through Protege ontologies. We will use this capability to develop an ontology browser for FMA.
Progress
Our plan for the project week is to work on
- Integration of FMA browser with QueryAtlas.
- Assesment of appropriate prefuse data-structures to hold FMA ontology data.
- Integration of Query engine to Ion-Florin et al's functional ontology of brain.
References
- Talos I, Rubin D, Halle M, Musen M, Kikinis R. A prototype symbolic model of canonical functional neuroanatomy of the motor system. J Biomed Inform. 2008 Apr;41(2):251-263.
- C. Rosse and J.L.V. Mejino, A reference ontology for biomedical informatics: the Foundational Model of Anatomy. J. Biomed Inform. 36:478-500, 2003.
- P. Mork, J.F. Brinkley, and C. Rosse, OQAFMA querying agent for the Foundational Model of Anatomy: providing flexible and efficient access to a large semantic network. J. Biomed Inform. 36:501-517, 2003.
- Talos I, Rubin D, Halle M, Musen M, Kikinis R. A prototype symbolic model of canonical functional neuroanatomy of the motor system. J Biomed Inform. 2008 Apr;41(2):251-263.
