Session 7: Effectopedia Knowledge Integration
ENV/EHS, OECD, Paris, France
Aladjov H., Effectopeda | Free science and engineering downloads at sourceforge.net, 2014-07-18 http://sourceforge.net/projects/effectopedia/?source=directory
Veith G., Aladjov H., Effectopedia the online encyclopaedia of Adverse Outcome Pathways, 2014-07-18, http://www.effectopedia.org/
Effectopedia is a collaborative research platform for AOP development, modelling and use.
The knowledge (qualitative and quantitative) is organized in nested layers with different level of details.
The most abstract layer of pathway representation is a visual diagram of the pathway structure in which each element has its own graphical primitive with customizable annotation. The pathway diagram is automatically generated based on the biological context of the elements. The next level of details is captured in custom build interfaces for the individual elements (chemicals, effects, links, test methods, in silico models, etc.) and provides uniform representation of structured summary information.
In this layer for example in vitro test method description can have general definition of the test protocol, method performance and limitations, and a list of tested chemicals represented with their dose response curves. Each element can refer to additional details which for this example can include detailed description of the test protocol and raw experimental data for the tested chemicals. Some details of the description can be hosted and maintained by third parties.
Special efforts are also made for characterizing the uncertainties from different sources: 1) accuracy, variability and reproducibility of the experimental results, 2) the interpretation of assay outputs with respect to the associated in-vivo effect, and 3) the confidence with which the causality of the linkages between effects can be established.
The overall goal of Effectopedia is to aggregate, in a single source, all information needed to allow the development of quantitative AOPs and their use in decision making context.
Besides different groups of users like scientists, regulators, risk assessors, members of academia, industry, Non-Governmental Organizations (NGOs), and the general public, the structured knowledge will be also available as free web (API) services allowing further use from third party systems.