Agreed, although it can get complicated quickly. For example, the
part of relations go through is_a, (a part_of some b, b subclassOf c
=> a part_of some c) and there can be negations in the GO
annotations. If you get into subproperties, some of which are
transitive and some not it gets even more complicated.
However, the reason that I did the part_of computation in Pellet,
aside from wanting to make sure it was correct, was to demonstrate
one way to go about getting the correct inferences and then deploying
them in a system that could respond quickly to queries.
-Alan
On Sep 14, 2007, at 8:40 AM, Chimezie Ogbuji wrote:
On Fri, 2007-09-14 at 05:04 -0400, Alan Ruttenberg wrote:
In my opinion SQL (with entailments pre-computed) still turns out
to be a far superior choice to existing semantic web technology -
I'd be interested to see the SPARQL equivalents of the following
queries:
http://wiki.geneontology.org/index.php/Example_Queries
FYI: you don't necessarily need entailment to compute some of those
transitive traversals (at least if your RDF query language supports
functional recursion: like Versa [1]). I could sketch out
examples, but
I'm not quite familiar with the corresponding RDF terminology for the
queries on that (interesting) list.
For instance, you can evaluate ancestor / descendent traversals with
functions such as transitive-closure:
transitive-closure($listOfURIs,'.. Versa expression ..')
[[[
Apply an expression transitively, starting with the given RDF nodes,
making sure to avoid circularity. The expression could return nested
lists/sets, in which
case, every object in the topmost list is searched for a resource
terminating the leftmost path
in the tree and the found objects are used for the next transitive
lookup.
]]]
[1] http://www.xml.com/pub/a/2005/07/20/versa.html
--
Chimezie Ogbuji
Lead Systems Analyst
Thoracic and Cardiovascular Surgery
Cleveland Clinic Foundation
9500 Euclid Avenue/ W26
Cleveland, Ohio 44195
Office: (216)444-8593
[EMAIL PROTECTED]
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