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Ontology Resources |
Ontology Resources |
A curated list of relevant tutorials, tools and publications from the biomedical ontology community.
- Introduction to Ontologies: Slides from Cold Spring Harbor workshop, October 2018 by Nicole Vasilevsky
- Ontology Development 101: A Guide to Creating Your First Ontology by Natalya F. Noy and Deborah L. McGuinness
- Ontology 101 Tutorial from International Conference on Biological Ontology (ICBO) 2018
- Ontology 101 Open Educational Resource Funded by NIH BD2K Initiative
- Learning SPARQL by Bob DuCharme
- ROBOT tutorial by Becky Jackson and James Overton
- Managing Ontologies with the Ontology Development Kit by Chris Mungall
- Pizza & Wine: The Need for Educational Tools for Foundational Ontologies by Stefan Schulz, Martin Boeker, Ludger Jansen
- Pizza Tutorial for Protégé for Protege 5 by Michael DeBellis. More info..
- Protege: An ontology development software application
- Ontology Development Kit: A toolkit to initialize an OBO library repository and associated files
- Robot: ROBOT is a an tool for working with Open Biomedical Ontologies. See paper here
- VOCOL: An Integrated Environment for Collaborative Vocabulary Development
- Karma Data Integration: A data integration tool
- Knotation: a notation for knowledge representation
- An Intrepid Guide to Ontologies by Mike Bergman, posted on May 16, 2007 in Adaptive Information, Description Logics, Ontologies, Semantic Web, Structured Web
- Monkeying around with OWL: a technical blog on ontologies and ontology engineering by Chris Mungall
- Feed your head: a technical blog on ontologies and ontology engineering by Robert Stevens
- MIRO: guidelines for minimum information for the reporting of an ontology by Nicolas Matentzoglu, James Malone, Chris Mungall and Robert Stevens, Journal of Biomedical Semantics20189:6, https://doi.org/10.1186/s13326-017-0172-7
- What are Ontologies?
- Semantic Web for the Working Ontologist, Second Edition by Dean Allemang and James Hendler
- Linked Data Patterns: A pattern catalogue for modelling, publishing, and consuming Linked Data by Leigh Dodds and Ian Davis
- Biomedical ontologies, data integration and annotation, British sense of humour: a technical blog on ontologies and ontology engineering by James Malone
- ROBOT: A Tool for Automating Ontology Workflows by Rebecca C. Jackson, James P. Balhoff, Eric Douglass, Nomi L. Harris, Christopher J. Mungall & James A. Overton, BMC Bioinformaticsvolume 20, Article number: 407 (2019)
- How to use Ontologies to unlock the full potential of your Scientific Data
- The Trouble with Ontologies, or, How to Build an Ontology by Charles Tapley Hoyt