Ontologies4Cat: investigating the landscape of ontologies for catalysis research data management
Abstract As scientific digitization advances it is imperative ensuring data is Findable, Accessible, Interoperable, and Reusable (FAIR) for machine-processable data. Ontologies play a vital role in enhancing data FAIRness by explicitly representing knowledge in a machine-understandable format. Resea...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
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BMC
2024-02-01
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| Series: | Journal of Cheminformatics |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s13321-024-00807-2 |
| _version_ | 1827326404670259200 |
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| author | Alexander S. Behr Hendrik Borgelt Norbert Kockmann |
| author_facet | Alexander S. Behr Hendrik Borgelt Norbert Kockmann |
| author_sort | Alexander S. Behr |
| collection | DOAJ |
| description | Abstract As scientific digitization advances it is imperative ensuring data is Findable, Accessible, Interoperable, and Reusable (FAIR) for machine-processable data. Ontologies play a vital role in enhancing data FAIRness by explicitly representing knowledge in a machine-understandable format. Research data in catalysis research often exhibits complexity and diversity, necessitating a respectively broad collection of ontologies. While ontology portals such as EBI OLS and BioPortal aid in ontology discovery, they lack deep classification, while quality metrics for ontology reusability and domains are absent for the domain of catalysis research. Thus, this work provides an approach for systematic collection of ontology metadata with focus on the catalysis research data value chain. By classifying ontologies by subdomains of catalysis research, the approach is offering efficient comparison across ontologies. Furthermore, a workflow and codebase is presented, facilitating representation of the metadata on GitHub. Finally, a method is presented to automatically map the classes contained in the ontologies of the metadata collection against each other, providing further insights on relatedness of the ontologies listed. The presented methodology is designed for its reusability, enabling its adaptation to other ontology collections or domains of knowledge. The ontology metadata taken up for this work and the code developed and described in this work are available in a GitHub repository at: https://github.com/nfdi4cat/Ontology-Overview-of-NFDI4Cat . |
| first_indexed | 2024-03-07T14:44:00Z |
| format | Article |
| id | doaj.art-c11b7875e5df40c8b8b7552e9ba450d1 |
| institution | Directory Open Access Journal |
| issn | 1758-2946 |
| language | English |
| last_indexed | 2024-03-07T14:44:00Z |
| publishDate | 2024-02-01 |
| publisher | BMC |
| record_format | Article |
| series | Journal of Cheminformatics |
| spelling | doaj.art-c11b7875e5df40c8b8b7552e9ba450d12024-03-05T20:06:06ZengBMCJournal of Cheminformatics1758-29462024-02-0116111210.1186/s13321-024-00807-2Ontologies4Cat: investigating the landscape of ontologies for catalysis research data managementAlexander S. Behr0Hendrik Borgelt1Norbert Kockmann2Laboratory of Equipment Design, Faculty of Biochemical and Chemical Engineering, TU-Dortmund UniversityLaboratory of Equipment Design, Faculty of Biochemical and Chemical Engineering, TU-Dortmund UniversityLaboratory of Equipment Design, Faculty of Biochemical and Chemical Engineering, TU-Dortmund UniversityAbstract As scientific digitization advances it is imperative ensuring data is Findable, Accessible, Interoperable, and Reusable (FAIR) for machine-processable data. Ontologies play a vital role in enhancing data FAIRness by explicitly representing knowledge in a machine-understandable format. Research data in catalysis research often exhibits complexity and diversity, necessitating a respectively broad collection of ontologies. While ontology portals such as EBI OLS and BioPortal aid in ontology discovery, they lack deep classification, while quality metrics for ontology reusability and domains are absent for the domain of catalysis research. Thus, this work provides an approach for systematic collection of ontology metadata with focus on the catalysis research data value chain. By classifying ontologies by subdomains of catalysis research, the approach is offering efficient comparison across ontologies. Furthermore, a workflow and codebase is presented, facilitating representation of the metadata on GitHub. Finally, a method is presented to automatically map the classes contained in the ontologies of the metadata collection against each other, providing further insights on relatedness of the ontologies listed. The presented methodology is designed for its reusability, enabling its adaptation to other ontology collections or domains of knowledge. The ontology metadata taken up for this work and the code developed and described in this work are available in a GitHub repository at: https://github.com/nfdi4cat/Ontology-Overview-of-NFDI4Cat .https://doi.org/10.1186/s13321-024-00807-2Ontology collectionResearch data managementCatalysisSemantic webOntology classificationMetadata |
| spellingShingle | Alexander S. Behr Hendrik Borgelt Norbert Kockmann Ontologies4Cat: investigating the landscape of ontologies for catalysis research data management Journal of Cheminformatics Ontology collection Research data management Catalysis Semantic web Ontology classification Metadata |
| title | Ontologies4Cat: investigating the landscape of ontologies for catalysis research data management |
| title_full | Ontologies4Cat: investigating the landscape of ontologies for catalysis research data management |
| title_fullStr | Ontologies4Cat: investigating the landscape of ontologies for catalysis research data management |
| title_full_unstemmed | Ontologies4Cat: investigating the landscape of ontologies for catalysis research data management |
| title_short | Ontologies4Cat: investigating the landscape of ontologies for catalysis research data management |
| title_sort | ontologies4cat investigating the landscape of ontologies for catalysis research data management |
| topic | Ontology collection Research data management Catalysis Semantic web Ontology classification Metadata |
| url | https://doi.org/10.1186/s13321-024-00807-2 |
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