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180_subcellular_location_ancestors

rq turtle/ttl

Find every broader subcellular location reachable from a given one (here, Endosome membrane, locations:100). The location hierarchy mixes rdfs:subClassOf (is-a) and up:partOf (part-of) edges, so both have to be chained together - rdfs:subClassOf*/up:partOf+/rdfs:subClassOf* - to reach the full set of ancestors; using only one of the two misses e.g. Endosome (is-a) or Membrane (part-of, then is-a)

Use at

PREFIX up: <http://purl.uniprot.org/core/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>

SELECT
  DISTINCT
    ?ancestor
    ?ancestorName
WHERE {
  GRAPH <http://sparql.uniprot.org/locations> {
    <http://purl.uniprot.org/locations/100> rdfs:subClassOf*/up:partOf+/rdfs:subClassOf* ?ancestor .
    ?ancestor skos:prefLabel ?ancestorName .
  }
}

graph TD
classDef projected fill:lightgreen;
classDef literal fill:orange;
classDef iri fill:yellow;
  v1("?ancestor"):::projected 
  v2("?ancestorName"):::projected 
  a1((" "))
  a2((" "))
  c1([http://purl.uniprot.org/locations/100]):::iri 
  c1 --"rdfs:subClassOf"-->  a1
  a1 --"up:partOf"-->  a2
  a2 --"rdfs:subClassOf"-->  v1
  v1 --"skos:prefLabel"-->  v2