Changes between Version 15 and Version 16 of UseCases

Timestamp:

2010/02/09 16:04:05 (15 years ago)

Author:

gordonp

Comment:

--

UseCases

@@ -49 +49 @@
   * Paul (biological hypothesis formulation)
     * predict PPI using homologs (PPI in yeast -> homolog in human) see [http://www.biomedcentral.com/1471-2164/9/426]
-    * workflow overview: could use homolog, protein domain and protein-protein interaction resources (not all currently in one data warehouse so Sem Web could help)
+    * workflow overview: could use homolog, protein domain and protein-protein interaction resources (not all currently in one data warehouse so Sem Web could help).  In brackets are the values for a particular query, Inhibitor of Growth 1 (ING1).
 [[Image(http://www.biomedcentral.com/content/figures/1471-2164-9-426-1.jpg)]]
 
-    * The query in Prolog would be something like:
+    * The query in Prolog would be something like (simplified so it's depending only on known protein domains, whereas in the publication we built our own domain models):
 
       probableNovelInteractors(HumanGene1, HumanGene2) :- hasHomolog(HumanGene1, YeastGene1), hasInteractorFromDB(YeastGene1, YeastGene2), hasHomolog(YeastGene2, HumanGene2), hasHomolog(HumanGene2, OtherModelOrganismGene2), hasHomolog(YeastGene2, OtherModelOrganismGene2), hasProteinDomain(HumanGene1, TargetDomain), hasProteinDomain(OtherModelOrganismGene1, TargetDomain), 
@@ -65 +65 @@
 
     * Now we just need the predicates to exists in various SPARQL endpoints to give use the RDF Facts with predicates corresponding to hasHomolog, hasInteractorFromDB, and hasProteinDomain.  Then we will use SHARE/SADI to create queries in SPARQL than span multiple services. :-)
- 
 
+