The FAIR Data Point Populator: collaborative FAIRification and population of FAIR Data Points

bioRxiv (Cold Spring Harbor Laboratory)

Abstract

Abstract Background Use of the FAIR principles (Findable, Accessible, Interoperable and Reusable) allows the rapidly growing number of biomedical datasets to be optimally (re)used. An important aspect of the FAIR principles is metadata. The FAIR Data Point specifications and reference implementation have been designed as an example on how to publish metadata according to the FAIR principles. Various tools to create metadata have been created, but many of these have limitations, such as interfaces that are not intuitive, metadata that does not adhere to a common metadata schema, limited scalability, and inefficient collaboration. We aim to address these limitations in the FAIR Data Point Populator. Results The FAIR Data Point Populator consists of a GitHub workflow together with Excel templates that have tooltips, validation and documentation. The Excel templates are targeted towards non-technical users, and can be used collaboratively in online spreadsheet software. A more technical user then uses the GitHub workflow to read multiple entries in the Excel sheets, and transform it into machine readable metadata. This metadata is then automatically uploaded to a connected FAIR Data Point. We applied the FAIR Data Point Populator on the metadata of two datasets, and a patient registry. We were then able to run a query on the FAIR Data Point Index, in order to retrieve one of the datasets. Conclusion The FAIR Data Point Populator addresses several limitations of other tools. It makes creating metadata easier, ensures adherence to a common metadata schema, allows bulk creation of metadata entries and increases collaboration. As a result of this, the barrier of entry for FAIRification is lower, which enables the creation of FAIR data by more people.

Authors 6

1. Daphne Wijnbergen corresponding Aachen Human Genetics

   Leiden University Medical Center

   Affiliation as printed

   Human Genetics, Leiden University Medical Center, Albinusdreef 2, 2333 ZA, Leiden, The Netherlands

2. Rajaram Kaliyaperumal Aachen Human Genetics

   Leiden University Medical Center

   Affiliation as printed

   Human Genetics, Leiden University Medical Center, Albinusdreef 2, 2333 ZA, Leiden, The Netherlands

3. Luiz Olavo Bonino da Silva Santos Aachen Human Genetics

   Leiden University Medical Center · University of Twente

   Affiliation as printed

   Human Genetics, Leiden University Medical Center, Albinusdreef 2, 2333 ZA, Leiden, The Netherlands

   Semantics, Cybersecurity and Services group, University of Twente, Drienerlolaan 5, 7522 NB, Enschede, The Netherlands

4. Barend Mons Aachen Human Genetics Leiden Academic Centre for Drug Research

   Leiden University · Leiden University Medical Center

   Affiliation as printed

   Human Genetics, Leiden University Medical Center, Albinusdreef 2, 2333 ZA, Leiden, The Netherlands

   Leiden Academic Center for Drug Research, Leiden University, Rapenburg 70, 2311 EZ, Leiden, The Netherlands

5. Marco Roos Aachen Human Genetics

   Leiden University Medical Center

   Affiliation as printed

   Human Genetics, Leiden University Medical Center, Albinusdreef 2, 2333 ZA, Leiden, The Netherlands

6. Eleni Mina Aachen Human Genetics

   Leiden University Medical Center

   Affiliation as printed

   Human Genetics, Leiden University Medical Center, Albinusdreef 2, 2333 ZA, Leiden, The Netherlands