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Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data

BACKGROUND: Biomedical researchers are strongly encouraged to make their research outputs more Findable, Accessible, Interoperable, and Reusable (FAIR). While many biomedical research outputs are more readily accessible through open data efforts, finding relevant outputs remains a significant challe...

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Autores principales: Cano, Marco, Tsueng, Ginger, Zhou, Xinghua, Hughes, Laura D., Mullen, Julia L., Xin, Jiwen, Su, Andrew I., Wu, Chunlei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9176648/
https://www.ncbi.nlm.nih.gov/pubmed/35677074
http://dx.doi.org/10.1101/2021.09.02.458726
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author Cano, Marco
Tsueng, Ginger
Zhou, Xinghua
Hughes, Laura D.
Mullen, Julia L.
Xin, Jiwen
Su, Andrew I.
Wu, Chunlei
author_facet Cano, Marco
Tsueng, Ginger
Zhou, Xinghua
Hughes, Laura D.
Mullen, Julia L.
Xin, Jiwen
Su, Andrew I.
Wu, Chunlei
author_sort Cano, Marco
collection PubMed
description BACKGROUND: Biomedical researchers are strongly encouraged to make their research outputs more Findable, Accessible, Interoperable, and Reusable (FAIR). While many biomedical research outputs are more readily accessible through open data efforts, finding relevant outputs remains a significant challenge. Schema.org is a metadata vocabulary standardization project that enables web content creators to make their content more FAIR. Leveraging schema.org could benefit biomedical research resource providers, but it can be challenging to apply schema.org standards to biomedical research outputs. We created an online browser-based tool that empowers researchers and repository developers to utilize schema.org or other biomedical schema projects. RESULTS: Our browser-based tool includes features which can help address many of the barriers towards schema.org-compliance such as: The ability to easily browse for relevant schema.org classes, the ability to extend and customize a class to be more suitable for biomedical research outputs, the ability to create data validation to ensure adherence of a research output to a customized class, and the ability to register a custom class to our schema registry enabling others to search and re-use it. We demonstrate the use of our tool with the creation of the Outbreak.info schema—a large multi-class schema for harmonizing various COVID-19 related resources. CONCLUSIONS: We have created a browser-based tool to empower biomedical research resource providers to leverage schema.org classes to make their research outputs more FAIR.
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spelling pubmed-91766482022-06-09 Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data Cano, Marco Tsueng, Ginger Zhou, Xinghua Hughes, Laura D. Mullen, Julia L. Xin, Jiwen Su, Andrew I. Wu, Chunlei bioRxiv Article BACKGROUND: Biomedical researchers are strongly encouraged to make their research outputs more Findable, Accessible, Interoperable, and Reusable (FAIR). While many biomedical research outputs are more readily accessible through open data efforts, finding relevant outputs remains a significant challenge. Schema.org is a metadata vocabulary standardization project that enables web content creators to make their content more FAIR. Leveraging schema.org could benefit biomedical research resource providers, but it can be challenging to apply schema.org standards to biomedical research outputs. We created an online browser-based tool that empowers researchers and repository developers to utilize schema.org or other biomedical schema projects. RESULTS: Our browser-based tool includes features which can help address many of the barriers towards schema.org-compliance such as: The ability to easily browse for relevant schema.org classes, the ability to extend and customize a class to be more suitable for biomedical research outputs, the ability to create data validation to ensure adherence of a research output to a customized class, and the ability to register a custom class to our schema registry enabling others to search and re-use it. We demonstrate the use of our tool with the creation of the Outbreak.info schema—a large multi-class schema for harmonizing various COVID-19 related resources. CONCLUSIONS: We have created a browser-based tool to empower biomedical research resource providers to leverage schema.org classes to make their research outputs more FAIR. Cold Spring Harbor Laboratory 2022-06-02 /pmc/articles/PMC9176648/ /pubmed/35677074 http://dx.doi.org/10.1101/2021.09.02.458726 Text en https://creativecommons.org/licenses/by/4.0/This work is licensed under a Creative Commons Attribution 4.0 International License (https://creativecommons.org/licenses/by/4.0/) , which allows reusers to distribute, remix, adapt, and build upon the material in any medium or format, so long as attribution is given to the creator. The license allows for commercial use.
spellingShingle Article
Cano, Marco
Tsueng, Ginger
Zhou, Xinghua
Hughes, Laura D.
Mullen, Julia L.
Xin, Jiwen
Su, Andrew I.
Wu, Chunlei
Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data
title Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data
title_full Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data
title_fullStr Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data
title_full_unstemmed Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data
title_short Schema Playground: A tool for authoring, extending, and using metadata schemas to improve FAIRness of biomedical data
title_sort schema playground: a tool for authoring, extending, and using metadata schemas to improve fairness of biomedical data
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9176648/
https://www.ncbi.nlm.nih.gov/pubmed/35677074
http://dx.doi.org/10.1101/2021.09.02.458726
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