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The Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) Tool: Catalyzing a change in species extrapolation
Citation:
LaLone, C. The Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) Tool: Catalyzing a change in species extrapolation. 2021 Scientific Advisory Committee on Alternative Toxicological Methods (SACATM). NIEHS/NTP virtual meeting, Duluth, MN, September 28 - 29, 2021. https://doi.org/10.23645/epacomptox.16983598
Impact/Purpose:
The Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) tool v1.0 was released publicly in 2016 and has since evolved to incorporate a number of new features for rapid synthesis and evaluation of protein conservation across species to predict chemical susceptibility. The SeqAPASS tool has been applied to challenges in species extrapolation surrounding pesticide and pharmaceutical susceptibility, extrapolation from high throughput screening results, defining the taxonomic domain of applicability for adverse outcome pathways, prediction of bioaccumulation potential, and research hypotheses generation. Examples demonstrating the utility of the SeqAPASS tool toward current regulatory challenges have accompanied new version releases and been described in multiple publications. This presentation will describe the SeqAPASS tool, several examples of how it has been applied, and describe the path forward for continued development and integration in decision-making scenarios.
Description:
The Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) tool v1.0 was released publicly in 2016 and has since evolved to incorporate a number of new features for rapid synthesis and evaluation of protein conservation across species to predict chemical susceptibility. The SeqAPASS tool has been applied to challenges in species extrapolation surrounding pesticide and pharmaceutical susceptibility, extrapolation from high throughput screening results, defining the taxonomic domain of applicability for adverse outcome pathways, prediction of bioaccumulation potential, and research hypotheses generation. Examples demonstrating the utility of the SeqAPASS tool toward current regulatory challenges have accompanied new version releases and been described in multiple publications. SeqAPASS v5.0 has been released with a decision summary report that combines evidence of conservation from primary amino acid sequence, functional domain(s), and critical amino acid comparisons. Current development efforts have advanced toward protein structure creation and similarity comparisons across species, to add a line of evidence of chemical-protein interactions across species. The SeqAPASS tool is the first of its kind to be developed specifically for researchers and decision-makers to extrapolate toxicity knowledge across 100s-1000s of untested organisms in a consistent, transparent, and publicly accessible pipeline using state-of-the-science techniques in bioinformatics. The tool has catalyzed the use of protein sequence information in decision-making and has been recognized in the Revised Guidance Document 150 on Standardised Test Guidelines for Evaluating Chemicals for Endocrine Disruption as a useful tool to address challenges in cross species extrapolation. This presentation will describe the SeqAPASS tool, several examples of how it has been applied, and describe the path forward for continued development and integration in decision-making scenarios.
URLs/Downloads:
DOI: The Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) Tool: Catalyzing a change in species extrapolation
LALONE_SACATM_SEQAPASS AND ORD ECO RESEARCH-M.PDF (PDF, NA pp, 5356.418 KB, about PDF)