Protégé was developed by the Stanford Center for Biomedical Informatics Research at the Stanford University School of Medicine.

Our Team

About BMIR

At the Stanford Center for Biomedical Informatics Research (BMIR) we develop cutting-edge ways to acquire, represent, and process information about human health. Our work enables the Institute of Medicine’s vision for a Learning Health System by translating biomedical data into actionable insights for decision making.

Our research advances the state of the art in semantic technology, biostatistics, and the modeling of biomedical systems to benefit clinical and translational research as well as patient care.

We develop and manage the Protégé system for developing and maintaining ontologies, and the National Center for Biomedical Ontology, which provides both a repository as well as Web services for clinicians and biomedical scientists to use ontologies. We assist the World Health Organization (WHO) by creating the technological infrastructure for the development and dissemination of the International Classification of Diseases, the International Classification of Traditional Medicine, and other ontologies. WHO has designated BMIR an official Collaborating Centre.

BMIR faculty members and staff participate in the Stanford Biomedical Informatics (BMI) graduate program, and we house the BMI program’s support staff. Through our Quantitative Sciences Unit, we offer collaborative support on the application of techniques in biostatistics or biomedical informatics. We also offer short courses, tutorials, and seminars on biomedical informatics and about technologies developed at BMIR.

As healthcare and biomedicine overflow with more data than we can deal with, and as the knowledge base of medicine and biology expands exponentially, we focus on developing the tools and methods needed to translate biomedical data into actionable insights.

A Word About Citing

We would be grateful if scientific publications resulting from projects that make use of Protégé would include the following sentence in the acknowledgments section:

“This work was conducted using Protégé.”

Please use the following reference citation for Protégé:

Musen, M.A. The Protégé project: A look back and a look forward. AI Matters. Association of Computing Machinery Specific Interest Group in Artificial Intelligence, 1(4), June 2015. DOI: 10.1145/2557001.25757003.


Mailing Lists

If you have any questions about Protégé or WebProtégé, please use the mailing lists in order to contact us.

Our mailing lists are the central source of help for Protégé users. Through these mailing lists the Protégé team offers free support to the user community. The mailing list archives contain an extensive source of knowledge regarding all our products. Be sure to check out the archives before submitting a query.

Mailing Lists

Contact Form

If you have feedback about the Protégé website, or things unrelated to the software tools, please use the contact form. We do not guarantee a reply.

If you would like to give us feedback on the website (e.g., broken links), or have a general inquiry that is not a feature request or bug report, or related to the products, please submit a message using the form. We will consider all the feedback, but we will not be able to answer them individually.

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