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Abstract. We introduce the OWL Plugin, a Semantic Web extension of the Protégé ontology development platform. The OWL Plugin can be used to edit ontologies in the Web Ontology Language (OWL), to access description logic reasoners, and to acquire instances for semantic markup. In many of these features, the OWL Plugin has created and facilitated new practices for building Semantic Web contents, often driven by the needs of and feedback from our users. Furthermore, Protégé's flexible open-source platform means that it is easy to integrate customtailored components to build real-world applications. This document describes the architecture of the OWL Plugin, walks through its most important features, and discusses some of our design decisions.

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BioPortal is a repository of biomedical ontologies-the largest such repository, with more than 300 ontologies to date. This set includes ontologies that were developed in OWL, OBO and other languages, as well as a large number of medical terminologies that the US National Library of Medicine distributes in its own proprietary format. We have published the RDF based serializations of all these ontologies and their metadata at sparql.bioontology.org. This dataset contains 203M triples, representing both content and metadata for the 300+ ontologies; and 9M mappings between terms. This endpoint can be queried with SPARQL which opens new usage scenarios for the biomedical domain. This paper presents lessons learned from having redesigned several applications that today use this SPARQL endpoint to consume ontological data.

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