@prefix ex:<https://purl.expasy.org/sparql-examples/neXtProt/> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix schema: <https://schema.org/> .
@prefix sh: <http://www.w3.org/ns/shacl#> .
ex:NXQ_09429 a sh:SPARQLExecutable, sh:SPARQLSelectExecutable ;
  sh:prefixes _:sparql_examples_prefixes ;
  rdfs:comment '''Check there are no entries which are PE3-PE4 with an expression-profile annotation with evidence from RNAseq and expression profile detected'''@en ;
  schema:keywords "QC", "protein existence", "PE" ;
  schema:target <https://sparql.nextprot.org/sparql> ;
  sh:select '''PREFIX : <http://nextprot.org/rdf/>
PREFIX cv: <http://nextprot.org/rdf/terminology/>

select distinct ?entry where {
  ?entry a :Entry.
  ?entry :existence ?pe.
  filter ( ?pe not in (:Evidence_at_protein_level,:Evidence_at_transcript_level,:Uncertain ))
  ?entry :isoform ?iso .
  ?iso :expression /:evidence ?ev.
  ?ev :experimentalContext / :detectionMethod cv:ECO_0000295. # RNA-seq
  ?ev :expressionLevel ?explevel.
  filter (?explevel not in (:Negative,:Low,:Medium,:High))
}''' .