Creating a Structured AOP Knowledgebase

Creating a Structured AOP Knowledgebase via Ontology-Based Annotations


Cataia Ives




Cataia Ives, Ivana Campia, Rong-Lin Wang, Clemens Wittwehr, Stephen Edwards


Integrated Systems Toxicology Division, NHEERL, U.S. Environmental Protection Agency, RTP, NC, USA European Commission’s Joint Research Centre, Exposure Methods and Measurements Division, NERL, U.S. Environmental Protection Agency, Cincinnati, OH, USA


The Adverse Outcome Pathway (AOP) framework is increasingly used to integrate data from traditional and emerging toxicity testing paradigms. As the number of AOP descriptions has increased, so has the need to define the AOP in terms that can be interpreted computationally. We will present a comprehensive annotation of AOPs housed in the AOP-Wiki as of December 4, 2017 using terms from existing biological ontologies. Following review by the original AOP authors, these terms are being included in the AOP-Wiki, and the selected ontologies will be used to drive author-selected annotation of new AOPs as they are entered. This expanded annotation of AOPs allows computational reasoners to be developed to aid in both AOP development and use, including advanced queries of individual Key Events (KEs) based on semantically equivalent entities. In addition, the incorporation of explicit biological objects will reduce the time required for converting a qualitative AOP description into a conceptual model that can support computational modeling. As high throughput genomics becomes a more important part of the high throughput toxicity testing landscape, the new methods described for annotating KEs will also promote the visualization and analysis of genomics data in an AOP context.

[This is an abstract or a proposed presentation and does not necessarily reflect EPA policy. Mention of trade names or commercial products does not constitute endorsement or recommendation for use.]