1. Project scope and goals
Adverse Outcome Pathways (AOPs) describe the causal linkages in a chemical induced (potentially nano particles and other stressors) cascade of biological responses, across different levels of biological organisation, leading to an adverse health outcome over time. The knowledge needed for AOP development is distributed across disciplines that do not normally collaborate. Evolving a common language and understanding requires interactions of experts within a clearly defined context. Effectopedia – an online collaborative platform - defines this context as a multidimensional organizational space, which can visualize AOPs against chosen pair of dimensions (e.g. time to effect vs. level of biological organization). The visualisation of biological context (using the pathway space) helps scientists with different backgrounds determine the larger scope of their research and the individual experts who might also be active in related area of research. E-mail notifications for new contributions are immediately distributed to interested parties, keeping all information current, documented and open for discussion, whilst giving credit to original authors and reviewers. Effectopedia space also helps biological responses (key events) to be defined just once and shared across pathways that include them. Shared key events become common nodes in the network of connected pathways which can be utilized for vulnerability analysis, hazard assessment or identifying the most used/needed/resource consuming test assays. Effectopedia is a collaborative research platform that is part of AOP-Knowledge Base and is dedicated to quantitative Adverse Outcome Pathway development and modelling.
Several activities are covered in this introductory tutorial as follows:
2. Create a simple AOP
3. Add quantitative data to a test method
4. Derive quantitative relationship
5. Run existing in-silico models.