Standardizing free-text data exemplified by two fields from the Immune Epitope Database
We developed a generalizable approach for normalization of free text as found in database fields with content on a specific topic. Creating and testing the rules took a one-time effort for a given field that can now be applied to data as it is being curated. The standardization achieved in two datasets tested produces significantly reduced variance in the content which enhances the findability and usability of that data, chiefly by improving search functionality and enabling linkages with formal ontologies.
Authors
- James A. Overton (ORCID: https://orcid.org/0000-0001-5139-5557)
- Bjoern Peters (ORCID: https://orcid.org/0000-0002-8457-6693)
- Randi Vita (ORCID: https://orcid.org/0000-0001-8957-7612)
- Sebastian Duesing
- Jason W. Bennett (ORCID: https://orcid.org/0000-0001-5879-2037)
Institutions
- La Jolla Institute for Immunology (US)
- University of California San Diego (US)
Publication Details
- Journal
- Journal of Biomedical Semantics
- Published
- 2025-03-22
- DOI
- https://doi.org/10.1186/s13326-025-00324-7
- Primary Topic
- Biomedical Text Mining and Ontologies
- Type
- article
- Field-Weighted Citation Impact
- 0.00