Hi Marco, Many thanks for your substantive remarks regarding the details of applying RDF +/- OWL to this particular issue. These are very important points to flesh out, and your experience obviously provides valuable insight on the problem. Regarding the other knowledge representation projects related to the encapsulation of investigation-related information, in addition to the two you mention - SWAN and EXPO - there are also - in no particular order: 1) the community-based Ontology of Biomedical Investigation (OBI/FuGO) effort; 2) the ExperiBase project; 3) the proteomics-related ontologies in the Charelston Core project from Xiaoshu Wang and his colleagues; 4) the work Matthias Samwald and colleagues have been doing on The Semantic Synapse project; 5) several efforts related to this topic from the bioimaging community which are under consideration for inclusion in the OBI effort: b) the Neuroimaging Informatics Technology Initiative [NIfTI - http://nifti.nimh.nih.gov/]; c) work from the fMRI Data Center (http://www.fmridc.org/f/fmridc/dmt/index.html); d) the Biomedical Research Information Network (BIRN) [XCEDE schema - http://www.nbirn.net/Resources/Downloads/XCEDE/index.htm]; e) the RSNA-sponsored RadLex project [http://www.rsna.org/RadLex/]); 6) the software classification effort sponsored by the NIH NCBCs (http://www.na-mic.org/Wiki/index.php/SDIWG:NCBC_Software_Classification); 7) BrainML (http://brainml.org). These employ a range of formal syntactical implementations from XML Schemas on through OWL-based ontologies. I've taken the liberty of adding these to the SPE Wiki page cited below. OBI, by the way, is the proposed new name for what was formerly known as FuGO, which in the course of broadening it's community-outreach and inclusion has found the need to broaden the scope of the ontology. Larisa N. Soldatova who is the lead author on the EXPO ontology has been interacting with the OBI/FuGO group with an eye toward interfacing/integrating EXPO with OBI. I expect I'm preaching to the converted here on this issue, but obviously, as Marco points out, ensuring these efforts have commensurate, formal semantic implementations will be an absolute pre-requisite for these individual efforts to fully realize their intended goals. This does not necessarily imply they all must use the same normative syntax or link to a single, foundational ontology but provisions *MUST* be made to ensure they are algorithmically commensurate, if they are to contribute to the overall semantically-specified, biomedical investigation-related knowledge ecosystem. Cheers, Bill On Aug 29, 2006, at 3:03 AM, Marco Brandizi wrote:
Bill Bug Senior Research Analyst/Ontological Engineer Laboratory for Bioimaging & Anatomical Informatics www.neuroterrain.org Department of Neurobiology & Anatomy Drexel University College of Medicine 2900 Queen Lane Philadelphia, PA 19129 215 991 8430 (ph) 610 457 0443 (mobile) 215 843 9367 (fax) Please Note: I now have a new email - [EMAIL PROTECTED] This email and any accompanying attachments are confidential. This information is intended solely for the use of the individual to whom it is addressed. Any review, disclosure, copying, distribution, or use of this email communication by others is strictly prohibited. If you are not the intended recipient please notify us immediately by returning this message to the sender and delete all copies. Thank you for your cooperation. |
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