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Distributed Representations of Bio-Ontologies for Semantic Web Services

Distributed Representations of Bio-Ontologies for Semantic Web Services,CA Joslyn,DDG Gessler,SE Schmidt,KM Verspoor

Distributed Representations of Bio-Ontologies for Semantic Web Services   (Citations: 4)
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We introduce the Semantic Moby/VPIN distributed refactoring of the Gene Ontology optimized for semantic web architectures. We show through an order-theoretical analysis that this alternative representation preserves the original topology, and through Formal Concept Analysis that additional information about ambiguous inheritance may be revealed by the reconstruction.
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    • ...We need a formal grounding for knowledge integration over distributed semantic hierarchies, and thus turn to the mathematics of hierarchy, that is order theory, or the theory of lattices and ordered sets (posets) [1, 3]. Our research program [7, 8, 9, 10, 11, 12, 17, 18] is built on the representation of taxonomic ontologies as ordered sets...

    Cliff A. Joslynet al. Knowledge Integration in OpenWorlds: Utilizing the Mathematics of Hier...

    • ...The close similarity of the annotated ordered set representations of these taxonomies to concept lattices in Formal Concept Analysis (FCA) [GW99] suggests pursuing their representation within FCA, in order to gain a deeper understanding of their mathematical structure and optimize their management and analytical tractibility (see also [JoCGeD06])...
    • ...This is something we have addressed specifically elsewhere [JoCGeD06], including proposing a method to measure this degree of lattice-ness based on the FCA reconstruction of the (un-annotated) GO...
    • ...We see future work in this line of research in evolving measures and tools to make the technique operable for large ontologies (see also [JoCGeD06])...

    Tim B. Kaiseret al. Concept Lattice Representations of Annotated Taxonomies

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