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Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation
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Genetica
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JoVE Journal Genetica
Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation

2,371 Views

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16:02 min

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February 10, 2023

DOI:

10.3791/63970-v

DOI:
10.3791/63970-v

•

16:02 min
February 10, 2023

•

9 Views
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1Office of Research and Development, Center for Computational Toxicology and Exposure, Scientific Computing and Data Curation Division,U.S. Environmental Protection Agency, 2Oak Ridge Institute for Science and Education, 3Swenson College of Science and Engineering, Department of Biology,University of Minnesota Duluth, 4University of Wisconsin-Madison Aquatic Sciences Center, 5General Dynamics Information Technology,Research Triangle Park, 6Office of Research and Development, Center for Computational Toxicology and Exposure, Great Lakes Toxicology and Ecology Division,U.S. Environmental Protection Agency

Summary

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Here, we present a protocol to utilize the latest version of the US Environmental Protection Agency Sequence Alignment to Predict Across Species Susceptibility (SeqAPASS) tool. This protocol demonstrates the application of the online tool to rapidly analyze protein conservation and provide customizable and easily interpretable predictions of chemical susceptibility across species.

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Sequence AlignmentProtein ConservationSeqAPASSCross-species ExtrapolationToxicity PredictionBiological PathwayProtein TargetProtein AccessionWeb-based InterfaceSpecies SensitivityChemical Susceptibility

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Vliet, S. M. F., Hazemi, M., Blatz, D., Jensen, M., Mayasich, S., Transue, T. R., Simmons, C., Wilkinson, A., LaLone, C. A. Demonstration of the Sequence Alignment to Predict Across Species Susceptibility Tool for Rapid Assessment of Protein Conservation. J. Vis. Exp. (192), e63970, doi:10.3791/63970 (2023).

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