October 17, 2025Open Access

Databases as Ontologies Part 1 - Background and Software

CHCharles Tapley HoytRWTH Aachen University

Key Points

Encoding databases as ontologies addresses challenges in biocuration, leading to more structured data.
The software developed creates tools for improved data organization, facilitating better access and management.
A repository for storing encoded artifacts in an open and sustainable manner enhances data sharing.
FAIR principles guide the management of data, ensuring it is findable, accessible, interoperable, and reusable.

Abstract

This is the first of a two-part post about encoding databases as ontologies. In this post, I give a background on the problems in biocuration that led me to start encoding databases as ontologies, the software I have written to do it, and the repository I have created to store the resulting artifacts in a FAIR, open, and sustainable way.

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