Our Mission

Our vision is that all biomedical knowledge and data are disseminated on the Internet using principled ontologies in such a way that the knowledge and data are semantically interoperable and useful for furthering biomedical science and clinical care.

Our mission is to create software and support services for the application of principled ontologies in biomedical science and clinical care, ranging from tools for application developers to software for end-users.

Our Team

Our team at Stanford’s Center for Biomedical Informatics Research (BMIR) has supported the BioPortal software (including its deployable option, the OntoPortal Virtual Appliance) for over 15 years. Led by Dr. Mark Musen, the development and system operations teams perform all modifications, system operations, user support, and outreach for BioPortal.

Our collaborators throughout the biomedical and semantic community participate through their software contributions, their many deployments of public and private Virtual Appliances, and their support and suggestions for our work.

How to cite BioPortal


Whetzel PL, Noy NF, Shah NH, Alexander PR, Nyulas C, Tudorache T, Musen MA. BioPortal: enhanced functionality via new Web services from the National Center for Biomedical Ontology to access and use ontologies in software applications. Nucleic Acids Res. 2011 Jul;39(Web Server issue):W541-5. Epub 2011 Jun 14.

Ontology Recommender

Martínez-Romero, M., Jonquet, C., O’Connor, M. J., Graybeal, J., Pazos, A., Musen, M. A. (2017). NCBO Ontology Recommender 2.0: An Enhanced Approach For Biomedical Ontology Recommendation. Journal of Biomedical Semantics, 8(21), 1-22 (https://jbiomedsem.biomedcentral.com/articles/10.1186/s13326-017-0128-y).

SPARQL Endpoint

Salvadores M, Horridge M, Alexander PR, Fergerson RW, Musen MA, and Noy NF. Using SPARQL to Query BioPortal Ontologies and Metadata. International Semantic Web Conference. Boston US. LNCS 7650, pp. 180195, 2012.

Contact Us

Product Support

Submit questions, feedback, feature requests, and error reports.

Outreach & Software Demos

We're Open Source

BioPortal is a fully open source project. Check us out on GitHub!

The National Center for Biomedical Ontology was founded as one of the National Centers for Biomedical Computing, supported by the NHGRI, the NHLBI, and the NIH Common Fund under grant U54-HG004028.

Copyright © 2005‑2023, The Board of Trustees of Leland Stanford Junior University. All rights reserved.