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ToxCast Assay Network (TCAN) Viewer: A Visualization Tool for High-throughput Assay Chemical Data (SOT)
Citation:
Kothiya, P., J. Phuong, AND M. Martin. ToxCast Assay Network (TCAN) Viewer: A Visualization Tool for High-throughput Assay Chemical Data (SOT). Presented at Society of Toxicology, San Diego, CA, March 22 - 26, 2015. https://doi.org/10.23645/epacomptox.5178724
Impact/Purpose:
Poster presented at SOT annual meeting in San Diego, CA on March 26, 2015
Description:
USEPA’s ToxCast program has generated high-throughput bioactivity screening (HTS) data on thousands of chemicals. The ToxCast program has described and annotated the HTS assay battery with respect to assay design and target information (e.g., gene target). Recent stakeholder and use-feedback highlighted a need for improved and expanded assay information, as well as improved data visualization tools. We have added additional assay annotations (gene targets and assay vendors), associated quantitative parameters (e.g., activity concentration, efficacy). To foster easier data exploration and visualization we developed Shinyapps-based ToxCast Assay Network (TCAN) Viewer, an R software-based web application. TCAN is a visualization tool currently equipped with two primary views: animated spider plots and assay-gene network. These views enable the user to view data across assays grouped by one or more annotation features (e.g., gene target: PPARA) with respect to a quantitative parameter. The assay-gene network view displays connections across assays based on common gene targets and allows multilayered circles for each node to quickly indicate the response of a particular chemical across the tested concentration range. These animated spider plots display the modeled response (e.g., percent activity of positive control) across a set of assays with the variable of concentration being controlled by the user. The user can dynamically illustrate concentration responses for a set of related assays and chemicals demonstrating concordance across assays or a specific response profile as concentration changes. For example, a set of chemicals may similarly activate PPARA, but the animated spider plots will uniquely illustrate concentration differences between PPARA changes and other endpoints like cytotoxicity and oxidative stress. These new graphical enhancements improves access, analyses and visual display of the large and complex ToxCast data. This work does not necessarily reflect Agency policy.
URLs/Downloads:
DOI: ToxCast Assay Network (TCAN) Viewer: A Visualization Tool for High-throughput Assay Chemical Data (SOT)