Noah Benson
Ph. D. Candidate
Daggett Lab
University of Washington
Research
My research focuses on explaining and characterizing the dynamics of proteins. I analyze proteins in our Dynameomics database to examine dynamics of all proteins broadly using wavelet analysis, flexibility analysis, and graph theory. I have additionally examined a smaller number of methyltransferase proteins with single nucleotide polymorphisms (SNPs) to examine how mutations affect protein dynamics.
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Wavelet Analysis of Protein Motion The motion of proteins is often difficult to interpret, and events of interest in a protein simulation can be difficult to locate. We have used wavelet analysis as a means of quickly scanning simulations for rearrangements and subtle changes in a protein that have physical significance. |
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Benson NC, Rutherford K, Daggett V (2010) Using wavelet analysis to characterize the dynamic effects of polymorphisms in four methyltransferase proteins. In Preparation. Benson NC, Daggett V (2010) Wavelet analysis of protein motion. J. Phys. Chem. Submitted.
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Chemical Environments: Protein Graphs Much research has already found applications of rudimentary graph representations of proteins. By representing similar chemical regions of a protein as nodes in a graph, I hope to simplify the observation of chemical changes over time. |
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Benson NC, Daggett V (2010) A graph theoretic approach to describing protein stability. In Preparation.
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Protein Flexibility Using principal component analysis, we can determine the a primary direction and magnitude of an atom's flexibility. By mining the entire Dynameomics database, we have discovered several interesting things about how proteins move and the relation of those movements to protein chemistry. |
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Benson NC, Daggett V (2008) Dynameomics: large-scale assessment of native protein flexibility. Protein Sci. 17(12): 2038-50. |
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1959 NE Pacific St.
Box 357240
Seattle, WA 98195-7240
Phone: 206-543-9305
Fax: 206-221-2671
email: nben@washington.edu
