ReVeaLD: A User-driven Domain Specific Interactive Search Platform for Biomedical Research

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

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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

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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

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Enabling Networked Knowledge