05_06_associationsByTarget.ttl

@base <http://www.openphacts.org/api> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix dc: <http://purl.org/dc/elements/1.1/> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix dcterms: <http://purl.org/dc/terms/>.
@prefix api: <http://purl.org/linked-data/api/vocab#> .
@prefix rel: <http://vocab.org/relationship/> .
@prefix void: <http://rdfs.org/ns/void#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .
@prefix sio: <http://semanticscience.org/resource/> .
@prefix ops: <http://www.openphacts.org/api#> .
@prefix cito: <http://purl.org/spar/cito/> .
@prefix foaf: <http://xmlns.com/foaf/0.1/> .
@prefix ncit: <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#> .
@prefix uniprot: <http://purl.uniprot.org/core/> .

<#diseaseByTarget> a api:API ;
        rdfs:label "Disease"@en ;
        api:sparqlEndpoint <http://alpha.openphacts.org:8890/sparql/> ;
        api:contentNegotiation api:parameterBased ;
        api:variable <#input> ;
	api:variable rdf:type ;
	api:dataset <http://rdf.imim.es> ;
	api:vocabulary <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#> ;
	api:vocabulary <http://semanticscience.org/resource/> ;
	api:description "An API configuration to return information about diseases" ;
	api:endpoint [
		a api:ListEndpoint ;
		api:name "Associations for Target: List" ;
		api:description "A list of disease-target associations which correspond to a target {uri}.";
		api:uriTemplate "/disease/assoc/byTarget?uri={uri}" ;
	        api:itemTemplate "{uri}" ;
		api:exampleRequestPath "/disease/assoc/byTarget?uri=http%3A%2F%2Fpurl.uniprot.org%2Funiprot%2FQ9Y5Y9" ;
	        api:selector <#assocByTargetViewer> ;
		api:viewer <#assocByTargetViewer> ;
		api:defaultViewer <#assocByTargetViewer> . ] .

<http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#> api:label "ncit" .
<http://semanticscience.org/resource/> api:label "sio" .

<#input> api:name "uri" ;
        api:label "uri";
        api:value "A target URI. e.g.: http://purl.uniprot.org/uniprot/Q9Y5Y9" ;
        rdfs:range rdfs:Resource .

rdf:type api:name "assoc_type" ;
        api:label "assoc_type" ;
        api:filterVariable "?item";
        api:value "One of the following association type URIs: http://semanticscience.org/resource/SIO_001119 (gene-disease association linked with causal mutation), http://semanticscience.org/resource/SIO_001120 (therapeutic gene-disease association), http://semanticscience.org/resource/SIO_001121 (gene-disease biomarker association), http://semanticscience.org/resource/SIO_001122 (gene-disease association linked with genetic variation), http://semanticscience.org/resource/SIO_001123 (gene-disease association linked with altered gene expression), http://semanticscience.org/resource/SIO_001124 (gene-disease association linked with post-translational modification)" ;
        a rdf:Property .

<#assocByTargetViewer> a api:Viewer ;
	api:name "assocByTargetViewer" ;
	api:template
"?item ops:disease ?disease ;
	ops:gene ?dg_gene_uri ;
	rdf:type ?type ;
	dcterms:description ?description ;
	ops:pmid ?pubmed_id ;
	ops:primarySource ?primarySource ;
	void:inDataset ?assocDataset .
?type	rdfs:label ?type_label .
?disease foaf:name ?diseaseName ;
	ops:diseaseClass ?diseaseClass ;
	void:inDataset ?diseaseDataset .
?diseaseClass foaf:name ?diseaseClassName ;
	void:inDataset ?diseaseClassDataset .
?dg_gene_uri ops:encodes ?uniprot_target_uri ;
	void:inDataset ?geneDataset .
?uniprot_target_uri skos:exactMatch ?cw_target_uri ;
	void:inDataset <http://purl.uniprot.org> .
?cw_target_uri skos:prefLabel ?cw_prefLabel ;
	void:inDataset <http://www.conceptwiki.org> .
";
	api:where
"GRAPH <http://purl.uniprot.org> {
	?uniprot_target_uri uniprot:existence ?existence .
}
GRAPH <http://rdf.imim.es> {
	?item sio:SIO_000628 ?dg_gene_uri .
	?dg_gene_uri rdf:type ncit:C16612 ;
		void:inDataset ?geneDataset .

	?item rdf:type ?type .
	?type rdfs:label ?type_label .

	?item sio:SIO_000253 ?primarySource .

	?item sio:SIO_000628 ?disease .
	?disease rdf:type ncit:C7057 ;
		foaf:name ?diseaseName ;
		void:inDataset ?diseaseDataset .
	?item void:inDataset ?assocDataset .
	OPTIONAL { ?disease sio:SIO_000095 ?diseaseClass .
		?diseaseClass foaf:name ?diseaseClassName ;
                	void:inDataset ?diseaseClassDataset .
	}
	OPTIONAL { ?item dcterms:description ?description .}
	OPTIONAL { ?item sio:SIO_000772 ?pubmed_id . }
}
OPTIONAL {GRAPH <http://www.conceptwiki.org> {
	?cw_target_uri skos:prefLabel ?cw_prefLabel .
}}" .