Keith Van Nostrand  

Assistant Research Professor
(410) 293-6640

vannostr@usna.edu

Degrees

University of Rochester School of Medicine and Dentistry

Ph.D., Biophysics, Structural and Computational Biology, dissertation defense completed Dec. 2011

Master of Science in Biophysics, June, 2007

Houghton College

Bachelor of Science (Magna cum Laude distinction), Chemistry, May 2002

Minor:  Mathematics

Profile

United States Naval Academy, Department of Chemistry, Dr. Judith A. Harrison, Principle Investigator

  • Prediction of hydrocarbon fuel mixture properties using molecular dynamics simulations
  • Construction and presentation of whitepapers and collaborative meetings for progress assessment
  • Application of LAMMPS and home FORTRAN molecular dynamics code using AIREBO potential
  • Development of property prediction method and analysis using PERL and C++ programs
  • Management of software, calculations, and output data on local USNA and DoD computer clusters

Publications

Keith P. Van Nostrand, Scott D. Kennedy, Douglas H. Turner, and David H. Mathews. “Molecular Mechanics Investigation of an Adenine-Adenine Non-Canonical Pair Conformational Change.” Journal of Chemical Theory and Computation, 2011, 7, pp. 3779-3792.

Sean T. Rigby, Keith P. Van Nostrand, April E. Rose, Robert J. Gorelick, David H. Mathews, and Robert A. Bambara. “Factors that Determine the Efficiency of HIV-1 Strand Transfer Initiated at a Specific Site.”  Journal of Molecular Biology, 2009, 394, pp. 695-707.

Kamila Reblova, Zora Strelcova, Petr Kulhanek, Ivana Besseova, David H. Mathews, Keith Van Nostrand, Ilyas Yildirim, Douglas H. Turner, and JiriSponer. “An RNA Molecular Switch: Intrinsic Flexibility of 23S rRNA Helices 40 and 68 5 '-UAA/5 '-GAN Internal Loops Studied by Molecular Dynamics Methods.” Journal of Chemical Theory and Computation, 2010, 6, pp. 910-929.

Mor M. Naor, Keith Van Nostrand, and Christoph Dellago. “Car-ParrinelloMolecular Dynamics Simulation of the Calcium Ion in Liquid Water.” Chemical Physics Letters, 2003, 369, pp. 159-164.

Conference Presentations

11th Annual Complex Matter Workshop, Ithaca, New York, June 2011

Sound Bite Presentation: “Molecular Mechanics Investigation of an Adenine-Adenine Non-Canonical Pair Conformational Change”

Center for Computational Research Symposium, Rochester, NY, March 2011

Presentation: “Modeling RNA Conformational Change Pathways”

Rustbelt RNA Meeting and International Conference of RNA Nanotechnology, Cleveland, Ohio, October 2010

Presentation: “Modeling RNA Conformational Change Pathways”

RNA Upstate New York Conference, Albany, New York, October 2010

Poster: “Molecular Mechanics Analysis of Minimum Energy RNA Conformational Change Pathways”

18th Annual International Conference: Intelligent Systems for Molecular Biology (ISMB), Boston, Massachusetts, July 2010

Poster: “Molecular Mechanics Analysis of Minimum Energy RNA Conformational Change Pathways”

15th Annual RNA Society Meeting, Seattle, Washington, June 2010

Poster: “Molecular Mechanics Analysis of Minimum Energy RNA Conformational Change Pathways”

10th Annual Complex Matter Workshop, Ithaca, New York, June 2010

Sound Bite Presentation: “Molecular Mechanics Analysis of Minimum Energy RNA Conformational Change Pathways”

Rustbelt RNA Meeting, Mt. Sterling, Ohio, October 2009

Poster: “Molecular Mechanics Analysis of Minimum Energy RNA Conformational Change Pathways”

Journal of Biomolecular Structure and Dynamics Special Issue: The 16thConversation, Albany, New York, June 2009

Poster: “Molecular Mechanics Analysis of Minimum Energy RNA Conformational Change Pathways”

16th Annual International Conference: Intelligent Systems for Molecular Biology (ISMB), Toronto, Ontario, July 2008

Poster: “Molecular Mechanics Analysis of Minimum Energy RNA Conformational Change Pathways”

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