ArticleDatabase : the journal of biological databases and curation2019
SOCCOMAS: a FAIR web content management system that uses knowledge graphs and that is based on semantic programming.
Article in Database : the journal of biological databases and curation, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed.
- The CLEAR Principle: organizing data and metadata into semantically meaningful types of FAIR Digital Objects to increase their human explorability and cognitive interoperability.Journal of biomedical semantics · 2025Article
- Suggestions for extending the FAIR Principles based on a linguistic perspective on semantic interoperability.Scientific data · 2025Article
- Anatomy and the type concept in biology show that ontologies must be adapted to the diagnostic needs of research.Journal of biomedical semantics · 2022Article
- FAIR data representation in times of eScience: a comparison of instance-based and class-based semantic representations of empirical data using phenotype descriptions as example.Journal of biomedical semantics · 2021Article
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7 authors.
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Abstract
We introduce Semantic Ontology-Controlled application for web Content Management Systems (SOCCOMAS), a development framework for FAIR ('findable', 'accessible', 'interoperable', 'reusable') Semantic Web Content Management Systems (S-WCMSs). Each S-WCMS run by SOCCOMAS has its contents managed through a corresponding knowledge base that stores all data and metadata in the form of semantic knowledge graphs in a Jena tuple store. Automated procedures track provenance, user contributions and detailed change history. Each S-WCMS is accessible via both a graphical user interface (GUI), utilizing the JavaScript framework AngularJS, and a SPARQL endpoint. As a consequence, all data and metadata are maximally findable, accessible, interoperable and reusable and comply with the FAIR Guiding Principles. The source code of SOCCOMAS is written using the Semantic Programming Ontology (SPrO). SPrO consists of commands, attributes and variables, with which one can describe an S-WCMS. We used SPrO to describe all the features and workflows typically required by any S-WCMS and documented these descriptions in a SOCCOMAS source code ontology (SC-Basic). SC-Basic specifies a set of default features, such as provenance tracking and publication life cycle with versioning, which will be available in all S-WCMS run by SOCCOMAS. All features and workflows specific to a particular S-WCMS, however, must be described within an instance source code ontology (INST-SCO), defining, e.g. the function and composition of the GUI, with all its user interactions, the underlying data schemes and representations and all its workflow processes. The combination of descriptions in SC-Basic and a given INST-SCO specify the behavior of an S-WCMS. SOCCOMAS controls this S-WCMS through the Java-based middleware that accompanies SPrO, which functions as an interpreter. Because of the ontology-controlled design, SOCCOMAS allows easy customization with a minimum of technical programming background required, thereby seamlessly integrating conventional web page technologies with semantic web technologies. SOCCOMAS and the Java Interpreter are available from (https://github.com/SemanticProgramming).
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