reveald: a user-driven domain specific interactive search platform for biomedical research
TRANSCRIPT
Copyright 2011 Digital Enterprise Research Institute. All rights reserved.
Enabling Networked Knowledge
ReVeaLD: A User-driven
Domain Specific Interactive Search
Platform for Biomedical Research
Maulik R. Kamdar, Ali Hasnain, Helena F. Deus
Enabling Networked Knowledge
Enabling Networked Knowledge
~5 compounds
~300 000
compounds~300 interesting
compounds
~ 10 interesting
compounds
Litera
ture
Virtu
al S
cre
enin
g
Query
data
bases
Hypothesis
Generation
(Linked) Data
“Are there Drugs with molecular weight
under 400 tested against ‘Colon Cancer’?”
“Do any Publications refer to assays using ‘Aspirin’ as
the primary Drug in treatment of ‘Prostrate Cancer’?
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Hasnain et. al., EKAW 2012
Enabling Networked Knowledge
SPARQL Query
Chebi DrugBank UniProt Others
Life Sciences Linked Open Data (LSLOD)
LSLOD Catalogue
CanCO
Saved Queries
TransformedQuery
TransformedQuery
TransformedQuery
TransformedQuery
Rule TemplatesExperimental
Datasets
Query Engine
Query Logging
Transformation
Cataloguing & Links Creation
RDFization
Social CollaborativeWorkspace
Chebi:Compound void-ext:subClassOf Granatum:MoleculeDrugBank:Drug void-ext:subClassOf Granatum:Molecule
?molec a Granatum:Molecule
?molec a Chebi:Compound
?molec a DrugBank:Drug
Enabling Networked Knowledge
Availability: http://srvgal78.deri.ie:8080
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
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PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX granatum: <http://chem.deri.ie/granatum/>
PREFIX uniprot: <http://bio2rdf.org/ns/uniprot:>
PREFIX dc: <http://purl.org/dc/elements/1.1/>
SELECT DISTINCT * WHERE {
?x0_Journal_Citation a uniprot:Journal_Citation ;
uniprot:pages ?x1_pages ;
dc:identifier ?x2_identifier ;
uniprot:volume ?x3_volume ;
uniprot:date ?x4_date ;
uniprot:author ?x5_author ;
rdf:void ?x6_void ;
granatum:title ?x7_title .
FILTER( regex( xsd:string( ?x7_title ), "mouse", "is" ) ) .
}
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge
Enabling Networked Knowledge