06_04_tissuesByProtein.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 void: <http://rdfs.org/ns/void#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .
@prefix ops: <http://www.openphacts.org/api#> .
@prefix uniprot: <http://purl.uniprot.org/core/> .
@prefix obo: <http://purl.obolibrary.org/obo/> .
@prefix oboowl: <http://www.geneontology.org/formats/oboInOwl#> .
@prefix nci: <http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#> .
@prefix bfo: <http://purl.obolibrary.org/obo/#> .
@prefix so: <http://purl.org/obo/owl/SO#> .
@prefix nx: <http://www.nextprot.org#> .
@prefix wi: <http://purl.org/ontology/wi/core#> .
@prefix ns: <http://www.nanopub.org/nschema#> .
@prefix obo-rel: <http://purl.org/obo/owl/OBO_REL#> .
@prefix prv: <http://purl.org/net/provenance/ns#> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix ops-terms: <http://www.openphacts.org/terms#> .


<#tissue> a api:API ;
        rdfs:label "Tissue"@en ;
        api:sparqlEndpoint <http://alpha.openphacts.org:8890/sparql/> ;
        api:contentNegotiation api:parameterBased ;
        api:variable <#input> ;
	api:variable wi:evidence ;
	api:variable obo-rel:has_quality ;
	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 tissues" ;
	api:endpoint <#tissueByProteinListEndpoint>.

<#tissueByProteinListEndpoint> a api:ListEndpoint ;
	api:name "[PREVIEW] Tissues for Protein: List" ;
	api:description "A page of items corresponding to assertions that a given protein is expressed in a tissue.";
	api:variable <http://www.conceptwiki.org/concept/UUID-neXtProtGold> ;
        api:variable <http://www.conceptwiki.org/concept/UUID-neXtProtSilver> ;
	api:uriTemplate "/tissue/byProtein?uri={uri}" ;
	api:itemTemplate "{uri}" ;
	api:exampleRequestPath "/tissue/byProtein?uri=http%3A%2F%2Fpurl.uniprot.org%2Funiprot%2FP55795" ;
	api:selector [
		api:where
"GRAPH <http://purl.uniprot.org> {
	?uniprot_target_uri [] []
}
GRAPH ?item {
	?nextprot_target_uri bfo:BFO_0000066 ?tissue ;
		obo-rel:has_quality ?quality .
}
	?nanopub ns:hasAssertion ?item ;
		ns:hasProvenance ?prov .
GRAPH ?prov {
	?item a ?evidence_type ;
		prv:usedData ?data_used ;
		wi:evidence ?evidence_qual_uri ;
		prov:wasDerivedFrom ?derived_from ;
		prov:wasGeneratedBy ?generated_by .
	?evidence_qual_uri rdfs:label ?evidence_qual_label .
}
GRAPH <http://www.nextprot.org/caloha> {
	?tissue rdfs:label ?tissue_label .
}"
		] ;
	api:viewer <#tissueListViewer> ;
	api:defaultViewer <#tissueListViewer> .

<http://www.conceptwiki.org/concept/UUID-neXtProtGold> api:name "gold" .
<http://www.conceptwiki.org/concept/UUID-neXtProtSilver> api:name "silver" .

<#input> api:name "uri" ;
        api:label "uri";
        api:value "A protein URI. e.g.: http://purl.uniprot.org/uniprot/P55795" ;
        rdfs:range rdfs:Resource .

wi:evidence api:name "evidence" ;
	api:label "evidence" ;
	api:value "'gold' or 'silver'" ;
	api:filterVariable "?item" ;
	a rdf:Property .

obo-rel:has_quality api:name "quality" ;
        api:label "quality" ;
        api:value "One of: none, moderate, high, low, medium, negative, positive, strong, weak." ;
        api:filterVariable "?nextprot_target_uri" ;
        a rdf:Property .

<#tissueListViewer> a api:Viewer ;
	api:name "tissueListViewer" ;
	api:template
"?item ops-terms:tissue ?tissue ;
	ops-terms:protein ?nextprot_target_uri ;
	obo-rel:has_quality ?quality ;
	a ?evidence_type ;
	prv:usedData ?data_used ;
	wi:evidence ?evidence_qual_uri ;
	prov:wasDerivedFrom ?derived_from ;
	prov:wasGeneratedBy ?generated_by ;
	void:inDataset <http://www.nextprot.org> .
?nextprot_target_uri skos:exactMatch ?uniprot_target_uri .
?uniprot_target_uri void:inDataset <http://purl.uniprot.org> .
?tissue rdfs:label ?tissue_label ;
	void:inDataset <http://www.nextprot.org/caloha> .
?evidence_qual_uri rdfs:label ?evidence_qual_label ;
	void:inDataset <http://www.nextprot.org> .
";
	api:where
"GRAPH <http://purl.uniprot.org> {
        ?uniprot_target_uri [] []
}
GRAPH ?item {
        ?nextprot_target_uri bfo:BFO_0000066 ?tissue ;
                obo-rel:has_quality ?quality .
}
        ?nanopub ns:hasAssertion ?item ;
                ns:hasProvenance ?prov .
GRAPH ?prov {
        ?item a ?evidence_type ;
                prv:usedData ?data_used ;
                wi:evidence ?evidence_qual_uri ;
                prov:wasDerivedFrom ?derived_from ;
                prov:wasGeneratedBy ?generated_by .
        ?evidence_qual_uri rdfs:label ?evidence_qual_label .
}
GRAPH <http://www.nextprot.org/caloha> {
        ?tissue rdfs:label ?tissue_label .
}" .