Skip Navigation


Bioinformatics Advance Access originally published online on May 12, 2007
Bioinformatics 2007 23(14):1868-1870; doi:10.1093/bioinformatics/btm258
This Article
Right arrow Full Text
Right arrow Full Text (Print PDF)
Right arrow All Versions of this Article:
23/14/1868    most recent
btm258v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (1)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Moreira, D. A.
Right arrow Articles by Musen, M. A.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Moreira, D. A.
Right arrow Articles by Musen, M. A.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2007. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

OBO to OWL: a protégé OWL tab to read/save OBO ontologies

Dilvan A. Moreira 1,2,* and Mark A. Musen 1

1Stanford Medical Informatics, Stanford University School of Medicine, Stanford, CA 94002, USA and 2USP, São Paulo, Brazil

*To whom correspondence should be addressed.


  Abstract

The Open Biomedical Ontologies (OBO) format from the GO consortium is a very successful format for biomedical ontologies, including the Gene Ontology. But it lacks formal computational definitions for its constructs and tools, like DL reasoners, to facilitate ontology development/maintenance. We describe the OBO Converter, a Java tool to convert files from OBO format to Web Ontology Language (OWL) (and vice versa) that can also be used as a Protégé Tab plug-in. It uses the OBO to OWL mapping provided by the National Center for Biomedical Ontologies (NCBO) (a joint effort of OBO developers and OWL experts) and offers options to ease the task of saving/reading files in both formats.

Availability: bioontology.org/tools/oboinowl/obo_converter.html

Contact: dilvan{at}stanford.edu

Supplementary information: Supplementary data are available at Bioinformatics online.

Associate Editor: Dmitrij Frishman

Received on February 21, 2007; revised on May 7, 2007; accepted on May 8, 2007

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
E. Antezana, M. Egana, B. De Baets, M. Kuiper, and V. Mironov
ONTO-PERL: An API for supporting the development and analysis of bio-ontologies
Bioinformatics, March 15, 2008; 24(6): 885 - 887.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
S. Aitken, Y. Chen, and J. Bard
OBO Explorer: an editor for open biomedical ontologies in OWL
Bioinformatics, February 1, 2008; 24(3): 443 - 444.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.