Table 1.
Examples of D2RQ mappings
| Description | Mapping | Generated triple (example) |
|---|---|---|
| Create a triple that defines the value of the title of a given bibliographic reference. | map:somatic_ref_Title a d2rq:PropertyBridge; d2rq:belongsToClassMap map:somatic_ref; d2rq:property bibtex:hasTitle; d2rq:column "SomaticRef15.Title";. |
<http://bioinformatics.istge.it/logvd/resource/somatic_refs/7> <http://data.bibbase.org/ontology/#hasTitle> "Mutations in the p53 gene occur in diverse human tumour types" |
| Create a triple that defines the value of the wild type aminoacid for a given gene variation. Conditional clauses avoid definitions for special cases (empty field, dash character and "NA" value). | map:variation_hasWildTypeResidue a d2rq:PropertyBridge; d2rq:belongsToClassMap map:variation; d2rq:property mio:hasWildTypeResidue; d2rq:column "mutations15.WT_AA"; d2rq:condition "mutations15.WT_AA ! = ('NA')"; d2rq:condition "mutations15.WT_AA ! = ('')"; d2rq:condition "mutations15.WT_AA ! = ('-')";. |
<http://bioinformatics.istge.it/logvd/resource/variations/994> <http://unbsj.biordf.net/ontologies/mutation-impact-ontology.owl#hasWildTypeResidue>"P" |
| Creates a triple that establishes a link to the TP53 human gene description in HGNC as implemented in Bio2RDF. | map:gene_HGNC a d2rq:PropertyBridge; d2rq:belongsToClassMap map:gene; d2rq:property diseasome:hgncId; d2rq:uriPattern "http://bio2rdf.org/hgnc:11998";. |
<http://bioinformatics.istge.it/logvd/resource/genes/TP53> <http://www4.wiwiss.fu-berlin.de/diseasome/resource/diseasome/hgncId> <http://bio2rdf.org/hgnc:11998> |
Three examples of D2RQ mappings between the IARC TP53 Mutation database and its RDF representation. In the first one, the title of a paper is just extracted from the database and associated to an entity representing a given bibliographic reference by means of the bibtex:hasTitle property. In the second example, the one-letter code of the wild type aminoacid corresponding to the location of a given variation is associated to the entity representing the same variation through the mio:hasWildTypeResidue property. The third example creates a connection with an external entity, namely the HGNC identifier of the TP53 gene, by specifying its Linked Data URI.