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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
Chapters
- 00:04Introduction
- 00:56Developing and Running a SeqAPASS Query: Level 1
- 02:43Developing and Running a SeqAPASS Query: Level 2
- 03:47Accessing and Understanding the Data: SeqAPASS Level 1 and Level 2
- 05:54Manipulating Data Settings and Visualizing the Data: SeqAPASS Level 1 and Level 2
- 07:23Developing and Running a SeqAPASS Analysis: Level 3
- 08:28Identify Critical Amino Acid Residues through a Literature Search
- 10:54Visualizing Level 3 SeqAPASS Data and Interpretation of Results
- 13:45Results: SeqAPASS Level 1, 2, and 3 Analyses of the Conservation of Amino Acid Residues and Level 1 and 2 Analyses of μ Opioid Receptor Conservation Across Taxonomic Groups
- 15:10Conclusion
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.
