FAIRsharing record for: The Open Biodiversity Knowledge Management System

This FAIRsharing record describes: OpenBiodiv utilizes semantic publishing workflows, text mining, common standards, ontology modelling and graph database technologies to establish a robust infrastructure for creating and managing a Biodiversity Knowledge Graph.

OpenBiodiv encompasses data extracted from full-text article XMLs published by Pensoft and taxonomic treatments extracted by Plazi from journals of other publishers. The data from both sources are converted to RDF and are integrated in a graph database which contains the OpenBiodiv-O ontology and a RDF version of the GBIF taxonomic backbone. OpenBiodiv provides the following services: XML-to-RDF conversion workflow and software for JATS TaxPub XML versions of journal articles, RDF conversion of taxonomic hierarchies in CSV (example: GBIF taxonomic backbone), a triple store of close to one billion triples of facts and metadata extracted from literature, SPARQL endpoint, accessible for regular queries and federated queries with other domain-specific or generic endpoints, and predefined SPARQL queries reflecting different research questions.
Within BiCIKL, OpenBiodiv will be developed to provide a LOD version of data liberated from the literature to make them interoperable with other data infrastructures throughout the biodiversity data life cycle.