Table 3

CE RDF statement examples

RDF Statements

Explanation


wo:ctdcid9681 rdf:type wo:ChemicalCompound.

wo:querycmpd wo:isSimilarTo wo:ctdcid9681;

wo:hasSimilarity "1.000".

wo:ctdcid9681 wo:hasName "Methysergide".

wo:HTR1B rdf:type wo:Gene;

wo:isrelatedTo wo:cid9681;

wo:isInferredFrom "pubmedid8743744".

wo:Autistic_Disorder rdf:type wo:Disease;

wo:isAssociatedWith wo:HTR1B;

wo:isInferredFrom "pubmedid19038234".

A Methysergide-Autistic Disorder relationship is inferred via rule 2 (gene HTR1B). The similar compound (cid = 9681) is Methysergide itself with similarity = 1, it co-occurs with gene HTR1B in a same paper (pubmed id = 8743744), and HTR1B and Autistic_Disorder are co-occurring in another same paper (pubmed id = 19038234). Then we use rule 2 to establish such relations;


wo:ctdcid11865408 rdf:type wo:ChemicalCompound.

wo:querycmpd wo:isSimilarTo wo:ctdcid11865408;

wo:hasSimilarity "0.774".

wo:ctdcid11865408 wo:hasName "Metergoline".

wo:HTR1B rdf:type wo:Gene;

wo:isrelatedTo wo:cid11865408;

wo:isInferredFrom "pubmedid1330643".

wo:Autistic_Disorder rdf:type wo:Disease;

wo:isAssociatedWith wo:HTR1B;

wo:isInferredFrom "pubmedid19038234".

A Methysergide-Autistic Disorder relationship is also inferred via rule 2 (again via HTR1B). Although this is the same relationship, a different evidence path considered (we will do path ranking on these evidence paths later);


wo:cid5486180 rdf:type wo:ChemicalCompound.

wo:querycmpd wo:isSimilarTo wo:cid5486180;

wo:hasSimilarity "0.929".

wo:cid5486180 wo:isActiveIn wo:aid410.

wo:aid410 rdf:type wo:BioAssay;

wo:hasName "p450-cyp1a2".

wo:CYP1A2 rdf:type wo:Gene.

wo:aid410 wo:hasGene wo:CYP1A2.

wo:CYP1A2 wo:isAssociatedWith wo:Lymphoma.

wo:Lymphoma rdf:type wo:Disease.

A Methysergide-Lymphoma relationship is inferred by rule1 (via CYP1A2).


Zhu et al. BMC Bioinformatics 2011 12:256   doi:10.1186/1471-2105-12-256

Open Data