Query_160

rq turtle/ttl

• gene
• mutation
• sequence variation
• species
• mouse

Mouse cell lines with a sequence variation

Use at

• https://sparql.cellosaurus.org/sparql

PREFIX cello: <https://purl.expasy.org/cellosaurus/rdf/ontology/>
PREFIX db: <https://purl.expasy.org/cellosaurus/rdf/db/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
select distinct ?cl ?cl_name ?species_ac ?species_label ?seqvar_class ?gene_ac  ?gene_name  where {
  values ( ?generic_species_notation ) { ( "10090") } # NCBI_TaxID accession of Mouse
  ?cl cello:recommendedName ?cl_name .
  ?cl cello:derivedFromIndividualBelongingToSpecies ?species .
  ?species  cello:isIdentifiedByXref ?species_xref .
  ?species cello:name ?species_label .
  ?species_xref cello:accession ?species_ac .
  ?species_xref cello:more_specific_than* ?generic_concept .
  ?generic_concept skos:notation ?generic_species_notation ; skos:inScheme db:NCBI_TaxID . # Mouse = 10090
  ?cl cello:hasSequenceVariationInfo ?annot .
  ?annot cello:hasTarget ?seqvar .
  ?seqvar a ?seqvar_class .
  ?seqvar cello:ofGene ?gene .
  ?gene cello:isIdentifiedByXref ?gene_xref .
  ?gene_xref cello:accession ?gene_ac .
  ?gene_xref rdfs:label ?gene_name .
}
order by ?cl_name
limit 1000
    

graph TD
classDef projected fill:lightgreen;
classDef literal fill:orange;
classDef iri fill:yellow;
  v9("?annot")
  v3("?cl"):::projected 
  v1("?cl_name"):::projected 
  v12("?gene")
  v14("?gene_ac"):::projected 
  v15("?gene_name"):::projected 
  v13("?gene_xref")
  v8("?generic_concept")
  v2("?generic_species_notation")
  v10("?seqvar")
  v11("?seqvar_class"):::projected 
  v4("?species")
  v7("?species_ac"):::projected 
  v6("?species_label"):::projected 
  v5("?species_xref")
  c9([https://purl.expasy.org/cellosaurus/rdf/db/NCBI_TaxID]):::iri 
  bind0[/VALUES ?generic_species_notation/]
  bind0-->v2
  bind00(["10090"])
  bind00 --> bind0
  v3 --"cello:recommendedName"-->  v1
  v3 --"cello:derivedFromIndividualBelongingToSpecies"-->  v4
  v4 --"cello:isIdentifiedByXref"-->  v5
  v4 --"cello:name"-->  v6
  v5 --"cello:accession"-->  v7
  v5 --"cello:more_specific_than"-->  v8
  v8 --"skos:notation"-->  v2
  v8 --"skos:inScheme"-->  c9
  v3 --"cello:hasSequenceVariationInfo"-->  v9
  v9 --"cello:hasTarget"-->  v10
  v10 --"a"-->  v11
  v10 --"cello:ofGene"-->  v12
  v12 --"cello:isIdentifiedByXref"-->  v13
  v13 --"cello:accession"-->  v14
  v13 --"rdfs:label"-->  v15