“But, I would also expect CHEBI to class spermine as a polyamine”
ChEBI classifies spermine as a tetraamine, but tetraamine (CHEBI:39166) is a organic amino compound (CHEBI:50047). I think that’s the missing link. I’ll add this comment to the ChEBI SF tracker you already opened:
Hi Val,
I'm attaching a screenshot of the explanation in Protege.
Paola
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OK I expected it to follow CHEBI spermine rather than spermine(4+)?
attached, do you know why we don't?
But, I would also expect CHEBI to class spermine as a polyamine
http://www.ebi.ac.uk/chebi/chebiOntology.do?chebiId=CHEBI:51349
Hi Val,
Back to your question
“I expected it to follow CHEBI spermine rather than spermine(4+) attached, do you know why we don’t?”
It follows both… spermine and spermine(4+) are the conjugate acid/base pair. Similar issue as reported elsewhere, see e.g. the very bottom of https://sourceforge.net/p/geneontology/ontology-requests/11524/
As for your other question
“But, I would also expect CHEBI to class spermine as a polyamine”
ChEBI classifies spermine as a tetraamine, but tetraamine (CHEBI:39166) is a organic amino compound (CHEBI:50047). I think that’s the missing link. I’ll add this comment to the ChEBI SF tracker you already opened:
https://sourceforge.net/p/chebi/curator-requests/2424/
Would you be ok with me closing this ontology ticket?
Cheers,
Paola
yep!
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