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Open semantic annotation of scientific publications using DOMEO
Paolo Ciccarese1, Marco Ocana, Tim Clark
1Harvard Medical School and Massachusetts General Hospital, Boston MA, USA. tim_clark@harvard.edu.
Journal of Biomedical Semantics
|May 1, 2012
Summary
Domeo is a new annotation tool that supports web annotations and biomedical data sharing. It aids scientists and curators in tasks like note-taking, semantic tagging, and text mining result curation.
Area of Science:
- Biomedical Informatics
- Scientific Software Development
Background:
- A shared software framework for web annotations was developed using an open representation model.
- This framework supports performing, versioning, sharing, and viewing various types of web annotations.
Purpose of the Study:
- To introduce the Domeo Annotation Tool and its user interface.
- To demonstrate the utility of the tool for diverse biomedical use cases.
Main Methods:
- Domeo was developed alongside the Annotation Ontology (AO) open model.
- Development was guided by alpha users including scientists, curators, and industry professionals.
- Use cases were incrementally implemented, including personal note-taking, group annotation, and semantic tagging.
Main Results:
- The Domeo user interface is reported.
- Domeo has been deployed in beta release within the NIH Neuroscience Information Framework (NIF).
- Production deployment in NIF is scheduled for a future release.
Conclusions:
- Domeo provides a versatile platform for web annotation in biomedical research.
- The tool facilitates collaboration and data curation for scientists and curators.
- Future work will detail integration with text mining services and frameworks.
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