Hi,
try this query and let me know if it's faster
select ref_id from sentence let $a = in('hasCui') where $a.ref_id contains 
'C0024530' and $a.ref_id contains 'C0013090'

If the relationship between the classes is the following CUI--->SENTENCE 
<--RELATION
in your first query you should have "select expand(out('hasCui')) from CUI" 
and not "select expand(in('hasCui')) from CUI"

Alessandro

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