Lyubomir Penev‡, Mariya Dimitrova§, Georgi Zhelezov§, Teodor Georgiev§Corresponding author: Lyubomir Penev ( l.penev@pensoft.net ) Corresponding author: Teodor Georgiev ( preprint@pensoft.net ) © Lyubomir Penev, Mariya Dimitrova, Georgi Zhelezov, Teodor Georgiev. This is an open access preprint distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Citation:
Penev L, Dimitrova M, Zhelezov G, Georgiev T (2023) Deliverable D6.4 Applications for interoperable access to OpenBiodiv through semantically enhanced queries. ARPHA Preprints. https://doi.org/10.3897/arphapreprints.e102612 |  |
To the best of our knowledge, OpenBiodiv is the first production-stage semantic system running on top of a reasonably-sized biodiversity knowledge graph. It stores biodiversity data in a semantic interlinked format and offers facilities for working with it (Senderov et Penev 2016, Senderov et al. 2018, Penev et al. 2019, Dimitrova et al. 2021). It is a dynamic system that continuously updates its database as new biodiversity information becomes available by several international biodiversity publishers. It also allows its users to ask complex queries via SPARQL (a query language for semantic graph databases) and a simplified semantic search interface.
OpenBiodiv was created during two EU-funded Marie Sklodowska-Curie PhD projects: BIG4 (Grant Agreement No 642241) and IGNITE (Grant Agreement No 764840). During those projects, the backend Ontology-0, the first versions of RDF converters and the basic website functionalities have been created (see Dimitrova et al. 2021 for overview).
After the start of the BiCIKL project, the entire workflow for processing and RDF conversion of full-text articles in XML and Plazi’s treatments in XML has been re-built using up-to-date technological solutions (such as Apache Kaka and Elasticsearch) to fully automatise and speed up the conversion process and to make it trackable and efficient. As a result, the entire graph content has been re-processed and indexed. New user applications described in Milestone MS27 App specifications have been discussed and implemented.
The present deliverable describes the newly built workflow and tools for data extraction, conversion and indexing and the user applications, created in the BiCIKL project.