eagle-i eagle-i Network Shared Resource Repositoryeagle-i Network Shared Resource Repository
See it in Search

National Center for Biomedical Ontology


The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.




  • BioPortal ( Software )

    Development stage: Deployed

    Release date: November 2010

    License: Mozilla

    Technical support available.

    Related activities: Community Engagement

    Keywords: Web portal, ontologies.

  • LexGrid ( Software )

    "A data store for terminologies and ontologies unifying disparate formats into a Common Terminological Model."

    Keywords: Ontologies, terminologies

  • NCBO Annotator ( Software )

    Recognizes biomedical terms in user submitted textual metadata.

    Technical support available.

    Release date: April 2009

    Development stage: Production/Stable

    License: Mozilla

    Keywords: Annotation, Curation, text-processing

  • NCBO Ontology Recommender ( Software )

    Technical support available.

    Related activities: Software development

    Keywords: REST Web service

  • NCBO Resource Index ( Software )

    Provides an index of public biomedical resources, annotated with ontology terms from Bioportal.

    License: Mozilla

    Development stage: Production/Stable

    Release date: October 2009

    Technical support available.

    Keywords: automated annotation, ontology based index

  • OBO Converter ( Software )

    Converts OBO format files to OWL and vice versa.

    License: Mozilla

    Development stage: Release V1

    Release date: 2/3/2007

    Keywords: Ontologies, OWL, OBO-Edit

  • PROMPT ( Software )

    "A tool for aligning and mapping ontologies."

    Technical support available.

    Keywords: Ontologies, alignment, mapping, Protege

  • Protege3 ( Software )

    The Protégé 3.x platform supports two main ways of modeling ontologies via the Protégé-Frames and Protégé-OWL editors. Protégé ontologies can be exported into a variety of formats including RDF(S), OWL, and XML Schema.

    Protégé is based on Java, is extensible, and provides a plug-and-play environment that makes it a flexible base for rapid prototyping and application development.

    Protégé is arguably the most popular free ontology editing tool available. Protégé is supported by a strong community of developers and academic, government and corporate users, who are using Protégé for knowledge solutions in areas as diverse as biomedicine, intelligence gathering, and corporate modeling.

    Technical support available.

    Release date: March 8, 2010

    Development stage: Production/Stable

    Keywords: ontologies, Protege, ontology editor

  • Protege4 ( Software )

    Protégé 4 is an OWL 2.0 compliant ontology authoring tool. Protege 4 utilizes the OWL API and it has a extensible plugin infrastructure.

    Technical support available.

    Release date: October 26, 2010

    Development stage: Beta

    Keywords: ontologies, Protege, OWL 2, ontology editor

  • WebProtege ( Software )

    "WebProtégé is an open source, lightweight, web-based ontology editor. The main goal in developing WebProtégé was to support the process of collaborative ontology development in a web environment and to facilitate knowledge acquisition from domain experts."

    License: Mozilla Public License (MPL)

    Programming language: GWT

    Technical support available.

    Keywords: ontologies, WebProtege, Web-Protege, ontology editor

Web Links:

Last updated: 2013-10-01T15:56:06.816-04:00

Copyright © 2016 by the President and Fellows of Harvard College
The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016