Changes between Version 15 and Version 16 of UseCases

Show
Ignore:
Timestamp:
2010/02/09 16:04:05 (8 years ago)
Author:
gordonp
Comment:

--

Legend:

Unmodified
Added
Removed
Modified
  • UseCases

    v15 v16  
    4949  * Paul (biological hypothesis formulation) 
    5050    * predict PPI using homologs (PPI in yeast -> homolog in human) see [http://www.biomedcentral.com/1471-2164/9/426] 
    51     * workflow overview: could use homolog, protein domain and protein-protein interaction resources (not all currently in one data warehouse so Sem Web could help) 
     51    * 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). 
    5252[[Image(http://www.biomedcentral.com/content/figures/1471-2164-9-426-1.jpg)]] 
    5353 
    54     * The query in Prolog would be something like: 
     54    * 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): 
    5555 
    5656      probableNovelInteractors(HumanGene1, HumanGene2) :- hasHomolog(HumanGene1, YeastGene1), hasInteractorFromDB(YeastGene1, YeastGene2), hasHomolog(YeastGene2, HumanGene2), hasHomolog(HumanGene2, OtherModelOrganismGene2), hasHomolog(YeastGene2, OtherModelOrganismGene2), hasProteinDomain(HumanGene1, TargetDomain), hasProteinDomain(OtherModelOrganismGene1, TargetDomain),  
     
    6565 
    6666    * 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. :-) 
    67   
    6867 
     68