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[bioontology-support] BioPortal - Annotation

Ray Fergerson ray.fergerson at
Wed Jun 19 16:59:58 PDT 2013

We offer rest services for the annotator. Please try this out. The
documentation and example client code is at:

We also have a VM version of the system that you can install. 

We have a couple of years of Pubmed data indexed (available through our
resource index) but it is not systematic yet - primarily because we cannot
handle the volume.


-----Original Message-----
From: bioontology-support-bounces at
[mailto:bioontology-support-bounces at] On Behalf Of Sarah
Sent: Wednesday, June 19, 2013 4:46 AM
To: support at
Subject: [bioontology-support] BioPortal - Annotation


I am not sure, are you a private business?
If not, I see that your annotator is a very useful utility. However, I can
only test it with one piece of text at a time. Do you offer web services
through which I can call the annotator on a major pieces of text? or a
downloadable version or so which I can run locally?

Do you have any collaboration with PubMed? Do you provide any annotation
services that serve their abstracts?

Thank you in advance.

Kind Regards,

Sarah ElShal

Kasteelpark Arenberg 10 - box 2446
3001 Heverlee

Office: 03.11
Mobile: +32 049 207 32 59
Phone: +32 (0)16 328646
Fax: +32 (0)16 321970
Email: sarah.elshal at
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