Category Archives: Biomedical ontologies and representation of Biological Pathways

BioPAX

I’ve been involved since 2005 with BioPAX, which I first approached in search a suitable knowledge base to develop pathway analysis methods. I have been mostly focused on “consuming” BioPAX, which has meant debugging of the specification and some tools … Continue reading

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Beat

Beat is platform for the matching and enrichment of ontologies, which was first implemented in the context of the Bootstrep project. It was aimed at providing a platform where several tasks related to ontology alignment/enrichment can be modularly composed. I … Continue reading

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RDFScape

RDFScape originated as an attempt to “merge” Cytoscape, a popular network analysis software, ¬†with Semantic Web technologies. In its original design, RDFScape was including a variety of experimental features: Cytoscape-based interactive visual interface for RDF-based knowledge bases Interactive visual SPARQL … Continue reading

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