[bioontology-support] Extracting parent child relationships using the web service

[Ray Fergerson]

Mark,



You should use the “tree” call instead. This is the call the UI uses to 
display the hierarchy. It is tuned to give exactly the necessary 
information.



http://data.bioontology.org/documentation#Class



Ray



From: bioontology-support-bounces at lists.stanford.edu 
[mailto:bioontology-support-bounces at lists.stanford.edu] On Behalf Of Mark 
Gerard
Sent: Tuesday, November 12, 2013 10:49 AM
To: bioontology-support at lists.stanford.edu
Subject: [bioontology-support] Extracting parent child relationships using 
the web service



Hi all -

I have been trying to get the hierarchical information as displayed on the 
web interface @"http://bioportal.bioontology.org/" when a term is searched 
in a given ontology -

This is what I intend to achieve => 
https://trac.clinovo.com/clincapture/attachment/ticket/741/howTo.jpg



Context:

Given the information returned by the web service, we intend to 
programmatic-ally build this hierarchy (really, display the fields as shown 
in the screen shot above) in another system (open source application => 
clincapture) which is using bio-portal as the end point for medical coding.

What I have done so for:

1. I am able to use the old "http://rest.bioontology.org" (I am yet to get 
acquainted with the new web service) to extract the coded term for a given 
verbatim term entered by the user in our system

2. I have tried to work with the view extraction service but it seems to me 
that it only returns one subclass of the concept (the immediate sub class) - 
I am looking for the entire hierarchy

3. I have also tinkered with the RDF term service but it would appear that 
the generated xml does not have the entire hierarchy - It would seem that 
the returned xml cannot allow me to walk back to the root element (as 
depicted on the UX)

I know I am missing something or have probably not looked somewhere, can 
anyone give me some leads as to how I can retrieve the information in the 
tree view (With the hierarchy)? I will really appreciate the help!

Mark



-- 


Mark Gerard

Software Developer

 <mailto:sophie.mccallum at clinovo.com> mark.gerard at clinovo.com

Cell: (256) 794323934

Tel: (256) 794323934

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