A Decade of Progress: Open Data Practices in Bioscience at the University of Edinburgh

General Information: This reposotory contains the outcomes of a project executed at the Biosciences Institutes of the University of Edinburgh. This research project assesses the openness and FAIRness (Findable, Accessible, Interoperable, and Reusable) of data linked to publications from these institutes. Here, you will find datasets, analytical codes, and figures that detail our project’s methodology and results aiming to enhance data-sharing practices and promote the adherence to FAIR principles within and beyond our community. This repository is linked to a publication that has been submitted to: Proceedings of the Royal Sociaty B - Biological Sciences The main project: You can find the main repository and workspace of this project on Github containing the data and code of this project and all the previous related projects: Here The Protocol: The protocol for this project can be found on Protocol.io, where detailed step-by-step guidelines are provided to ensure that the research methods are transparent and reproducible. https://www.protocols.io/view/a-protocol-for-assessing-open-data-practices-honou-kxygxyxmdl8j/v2 The main project Contact us: for General Queries, Collaboration and Data Management: [email protected] (BioRDM) or the Principal Investigator and Corresponding Author: Andrew Millar ([email protected]) - Orcid: 0000-0003-1756-3654 Data Collection The Dataset of this project was collected in two different periods by the honour students (Creasey, de Ugarte, Strevens, Usman, Yun Wong) in our department: - Project one from Januray 2023 to June 2023 - Project two from January 2024 to June 2024

Open science fundamentally reshapes the accessibility, transparency, and collaborative nature of scientific discovery.
This study provides a comprehensive evaluation of both the openness and the adherence to FAIR principles (Findable, Accessible, Interoperable, and Reusable) in the context of data-sharing practices in the biosciences at the University of Edinburgh over the last decade, from 2014 to 2023. This evaluation encompassing 555 research papers spanning key areas such as biotechnology, regenerative medicine, infectious diseases, and non-communicable diseases forms the basis of our analysis.
We applied the Open Data Detection in Publications (ODDPub) text mining algorithm to further evaluate the findings and to explore the automation of open science practice assessment across our dataset.
We ran ODDPub on a sample of 555 biological sciences papers. We have included the code that was used, which includes functions from ODDPub. The ODDPub code is licensed via a GNU Affero General Public License.

Deeb, H., Creasey, S., de Ugarte, D. L., Strevens, G., Usman, T., Yun Wong, H., Kutzer, M. A. M., Wilson, E., Zieliński, T., & Millar, A. J. (2024). A Decade of Progress: Open Data Practices in Bioscience at the University of Edinburgh (1.0) [Data set]. Zenodo. https://doi.org/10.5281/zenodo.14169649