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[bioontology-support] Question on NCBO API Usage policies

John Graybeal jgraybeal at
Thu Jun 15 13:26:21 PDT 2017


Thanks for your interest in using BIoPortal, and your attention to these concerns!

The enforced limit is 15 requests per second.

Depending on the size of the abstract and the existing system load, even this amount may overwhelm the system if you are not monitoring thread completion, limiting your backlog, and yielding the system intermittently for other users. (Specifying specific ontologies that you want to use for your annotations may also speed things up considerably.) If you would like to coordinate this further with us, please feel free to contact me offline.


On Jun 15, 2017, at 11:17 AM, Daniel Dopp <danieldopp at<mailto:danieldopp at>> wrote:


My name is Daniel Dopp, I’m an undergraduate researcher working on a Bioinformatics project for Montana State University. For this project we need to annotate roughly 4.4 million document abstracts and would like to use the NCBO Annotator API to do so. As this is quite a few documents and therefore quite a few API calls I would like to know what if any limit there is on API requests per second so that we can limit the speed at which our program runs and avoid any unreasonable load upon your servers.

Thank you,

  *   Daniel Dopp

bioontology-support mailing list
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John Graybeal
Technical Program Manager
Center for Expanded Data Annotation and Retrieval /+/ NCBO BioPortal
Stanford Center for Biomedical Informatics Research
skype: graybealski

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