Constructing a lattice of Infectious Disease Ontologies from a Staphylococcus aureus isolate repository

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In Goldfain Albert, Cowell Lindsay G. & Smith Barry (eds.), Proceeedings of the Third International Conference on Biomedical Ontology (CEUR 897) (2012)
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Abstract

A repository of clinically associated Staphylococcus aureus (Sa) isolates is used to semi‐automatically generate a set of application ontologies for specific subfamilies of Sa‐related disease. Each such application ontology is compatible with the Infectious Disease Ontology (IDO) and uses resources from the Open Biomedical Ontology (OBO) Foundry. The set of application ontologies forms a lattice structure beneath the IDO‐Core and IDO‐extension reference ontologies. We show how this lattice can be used to define a strategy for the construction of a new taxonomy of infectious disease incorporating genetic, molecular, and clinical data. We also outline how faceted browsing and query of annotated data is supported using a lattice application ontology.

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Barry Smith
University at Buffalo

Citations of this work

Publications by Barry Smith.Barry Smith - 2017 - Cosmos + Taxis 4 (4):67-104.
Ontological representation of CDC Active Bacterial Core Surveillance Case Reports.Albert Goldfain, Barry Smith & Lindsay G. Cowell - 2014 - Proceedings of the Fifth International Conference on Biomedical Ontology 1327:74-77.

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