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Estimating the Quality of Ontology-Based Annotations by Considering Evolutionary Changes
"... Abstract. Ontology-based annotations associate objects, such as genes and proteins, with well-defined ontology concepts to semantically and uniformly describe object properties. Such annotation mappings are utilized in different applications and analysis studies whose results strongly depend on the ..."
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Abstract. Ontology-based annotations associate objects, such as genes and proteins, with well-defined ontology concepts to semantically and uniformly describe object properties. Such annotation mappings are utilized in different applications and analysis studies whose results strongly depend on the quality of the used annotations. To study the quality of annotations we propose a generic evaluation approach considering the annotation generation methods (provenance) as well as the evolution of ontologies, object sources, and annotations. Thus, it facilitates the identification of reliable annotations, e.g., for use in analysis applications. We evaluate our approach for functional protein annotations in Ensembl and Swiss-Prot using the Gene Ontology.
How do Ontology Mappings Change in the Life Sciences?
, 2012
"... Mappings between related ontologies are increasingly used to support data integration and analysis tasks. Changes in the ontologies also require the adaptation of ontology mappings. So far the evolution of ontology mappings has received little attention albeit ontologies change continu-ously especia ..."
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Mappings between related ontologies are increasingly used to support data integration and analysis tasks. Changes in the ontologies also require the adaptation of ontology mappings. So far the evolution of ontology mappings has received little attention albeit ontologies change continu-ously especially in the life sciences. We therefore analyze how mappings between popular life science ontologies evolve for different match algo-rithms. We also evaluate which semantic ontology changes primarily affect the mappings. We further investigate alternatives to predict or estimate the degree of future mapping changes based on previous ontology and mapping transitions.
