Uberon: towards a comprehensive multi-species anatomy ontology

Uberon: towards a comprehensive multi-species anatomy ontology

The lack of a single unified species-neutral ontology covering the anatomy of a variety of metazoans is a hindrance to translating model organism research to human health. We have developed an Uber-anatomy ontology to fill this need, filling the gap between the CARO upper-level ontology and species-specific anatomical ontologies. Introduction A number of anatomical ontologies (AOs) exist for sp...

Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon

BACKGROUND Elucidating disease and developmental dysfunction requires understanding variation in phenotype. Single-species model organism anatomy ontologies (ssAOs) have been established to represent this variation. Multi-species anatomy ontologies (msAOs; vertebrate skeletal, vertebrate homologous, teleost, amphibian AOs) have been developed to represent 'natural' phenotypic variation across s...

Multi-Species Anatomy Ontology Development Requires a Pluralist Approach to Label-Class Mapping

Anatomy ontologies and potential users: bridging the gap

MOTIVATION To evaluate how well current anatomical ontologies fit the way real-world users apply anatomy terms in their data annotations. METHODS Annotations from three diverse multi-species public-domain datasets provided a set of use cases for matching anatomical terms in two major anatomical ontologies (the Foundational Model of Anatomy and Uberon), using two lexical-matching applications ...

Distributed Multi-contextual Ontology Evolution - A Step Towards Semantic Autonomy

In today’s world there is a need for knowledge infrastructures that can support several autonomous knowledge bases all using different ontologies and constantly adapting these to their changing local needs. Moreover, these different knowledge bases are expressing their unique points of view and constitute different local contexts. At the same time interoperability is needed in order to connect ...