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[bioontology-support] is-a transitive closure (path to root)

Adrian Bivol ABivol at
Fri Mar 30 12:19:41 PDT 2012

Adding Trish:

Hi Trish, can you help us with the question below?

FYI - I am working for the Mooney lab, and I attended the bio-ontology tutorial at Stanford this year.

Thank you,
Adrian Bivol.

From: Adrian Bivol
Sent: Wednesday, March 28, 2012 3:29 PM
To: support at
Subject: is-a transitive closure (path to root)


I would like to obtain the is-a transitive closure generated by the annotator as described here:

To get that, I am trying to get the path to the root for a concept (in an ontology), using the the is_a relations.

I found this:

But I do not know exactly how to extract & parse the path (list of nodes) from the XML returned.


This should get the path from concept ID 33934002 to root, in SNOMED.

Can you help?

Thank you,
Adrian Bivol.

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