Hi Delia,
What information would you need on the interactions? There's a lot that could be queried (but not all at the same time; this might lead to timeout issues).
Are you for example interested in metabolic conversions, so require a substrate/target relationship (and potentially the enzyme catalyzing that)>
Or, are you more interested in signalling pathways (so interactions between genes, transcripts, proteins, RNAs, and what not)?
If I have a better understanding of your research question, I am able to help.
The following example query takes out all the directed individual interactions from Human models based on WikiPathways and Reactome, including the type of interaction (based on MIM, for details see
https://doi.org/10.1093/bioinformatics/btr336 ):
SELECT DISTINCT ?interaction ?mimtype ?pathway (str(?titleLit) as ?title)
WHERE {
?pathway a wp:Pathway ;
wp:organismName "Homo sapiens";
dc:title ?titleLit .
?interaction dcterms:isPartOf ?pathway .
?interaction a wp:DirectedInteraction .
?interaction wp:source ?source .
?interaction wp:target ?target .
OPTIONAL{?interaction a ?mimtype} .
VALUES ?mimtype {wp:ComplexBinding wp:Conversion wp:Inhibition wp:Catalysis wp:Stimulation wp:TranscriptionTranslation wp:DirectedInteraction} .
}
ORDER BY DESC(?mimtype)
Hope this helps as a start to get your project going! Denise