projectdebbie/ontology_deb

The Device, Experimental scaffolds and medical Device ontology (DEB)

DEB ontology

The devices, experimental scaffolds, and biomaterials ontology (DEB) is an open resource for organizing information about biomaterials, their design, manufacture, and biological testing. It was developed using text analysis for identifying ontology terms from a biomaterials gold standard corpus, systematically curated to represent the domain's lexicon. Topics covered were validated by members of the biomaterials research community. The ontology is in .owl format and may be used for searching terms, performing annotations for machine learning applications, standardized meta‐data indexing, and other cross‐disciplinary data exploitation.

Contributing to the ontology

We strive to make DEB as complete as possible, so suggestions for new terms and improvements are welcome!

Suggesting a new DEB term:

1. Check on Bioportal if the term already exists

2. Gather as much necessary information as possible: New term label (required) Definition (required) The superclass under which it should appear (required) Where the term has been used (e.g.: a link to an abstract) Synonyms

3. Communicate with the DEB team: Creat an 'issue' using on of the following titles: Suggestion for a term clarifying term definition Adding synonyms Changing the position of a term in the DEB ontology

4. Please create an issue for each proposed change

We welcome contributions from experts in any area of biomaterials, tissue engineeting and medical devices!

Ontology Map

Built With

• Protege

Versioning

Old versions can be tracked on Bioportal

Authors

• Osnat Hakimi, Dmitry Repchevsky

License

This project is licensed under the GNU GENERAL PUBLIC LICENSE Version 3 - see the LICENSE file for details

Funding

This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 751277

Citation

@article{doi:10.1002/adfm.201909910,
	author = {Hakimi, Osnat and Gelpi, Josep Luis and Krallinger, Martin and Curi, Fabio and Repchevsky, Dmitry and Ginebra, Maria-Pau},
	title = {The Devices, Experimental Scaffolds, and Biomaterials Ontology (DEB): A Tool for Mapping, Annotation, and Analysis of Biomaterials Data},
	journal = {Advanced Functional Materials},
	volume = {30},
	number = {16},
	pages = {1909910},
	keywords = {biomaterials, databases, ontology},
	doi = {10.1002/adfm.201909910},
	url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/adfm.201909910},
	eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1002/adfm.201909910},
	year = {2020}
}

ontology_deb's Issues

propose term

test

Upload the ontology to the Matportal repository

Hi, there is a repository of ontology for Material Science that have been recently created: https://matportal.org

It could be interesting to add the DEBBIE ontology to this portal

This allows then people working in Material Science to more easily find your ontology, search concepts in it, perform annotations of text using your ontology concept

Matportal is part of the OntoPortal Alliance, a project to help deploying ontologies repositories for various domain (https://ontoportal.org/)