Physics Department

SUMMARY OF FACULTY ACTIVITIES REPORT

FOR JULY 1, 2002 TO JUNE 30, 2003

 

I.                   Publications, Performances, Exhibits

II.                Papers and Presentations Presented at Professional Meetings

III.             Editorships, Offices and Consultancies

IV.       External Grants Received

 

I.  Publications, Performances, Exhibits

 

PHYSICS DEPARTMENT

 

Anderson, Paul R.

 

(with Carmen Molina-Paris and Emil Mottola)  “ Linear Response, Validity of Semi-Classical Gravity, and the Stability of Flat Space.”  To appear in Phys. Rev. D.

 

(with Peter B. Groves and Eric D. Carlson)  “Method to compute the stress-energy tensor for the massless spin ½ field in a general static spherically symmetric spacetime.”  Phys. Rev. D 66 (2002): 124017.

 

 

Bonin, Keith D.

 

(with B. Kourmanov and T. G. Walker)  “Light Torque Nanocontrol, Nanomotors and Nanorockers.”  Opt. Express 10 (2002): 984-989.

 

 

Carlson, Eric D.

 

(with Peter B. Groves and Paul R. Anderson)  “Method to compute the stress-energy tensor for the massless spin 1/2 field in a general static spherically symmetric spacetime.” Phys.Rev. D66 (2002): 124017.

 

 

Cook, Gregory B.

 

(with Harald P. Pfeiffer and Saul A. Teukolsky)  “Comparing Initial-data Sets for Binary Black Holes.”  Phys. Rev. D66 (2002): 024047.

 

 

Guthold, Martin

 

(with R. M. Taylor)  “Visualization and Natural Control Systems for Microscopy.”  Visualization Handbook (C. Johnson & C. Hansen), in press.

 

(with C. Rivetti)  “Single Molecule Analysis of Transcription Complexes.”  Methods in Enzymology, in press.

 

(with D. Dwyer, M. Falvo, S. Washburn, R. Superfine, and D. Erie)  “DNA-functionalized Single-walled Carbon Nanotubes.”  Nanotechnology 13 (2002): 601-604.     

 

 

Kerr, William C.

 

Published Abstracts of Oral Presentations:

 

(with M. J. Rave)  “Berry Phase Effects in a Generalized Kronig-Penney Model.”  Bulletin of the American Physical Society (BAPS), Vol. 48 (2003): 928.

 

(with W. B. Hodge and N. A. W. Holzwarth)  “Pair State Analysis of the Hubbard Hamiltonian in One-Dimension.”  BAPS, Vol. 48 (2003): 272.

 

(with G. Lei and S. N. Kerr)  “Propagation of Nonlinear Schrodinger Solitons in an Electron-Phonon System.”  BAPS, Vol. 48 (2003): 276.

 

(with G. Lei and S. N. Kerr)  “Reusable C++ Code for an Electron-Phonon Simulation.”  OOPSLA ’02 Companion: Conference on Object-Oriented Programming, Systems, Languages, and Applications, pages 74-75, Seattle, WA, 4-8 Nov 2002.

 

 

Kim-Shapiro, Daniel B.

 

Referred Journal Articles

 

(with Xiuli Xu, Virginia L. Lockamy, Kejing Chen, Zhi Huang, Howard Shields, S. Bruce King, Samir K. Ballas, James S. Nichols, Mark T. Gladwin, Constance T. Noguchi, and Alan N. Schechter)  “Effects of Iron Nitrosylation on Sickle Cell Hemoglobin Solubility.”  J. Biol. Chem. 277 (2002): 36787–36792.

 

 

Published Abstracts

 

(with Fouad Azizi, Howard Shields, Mamudu Yakubu, and S. Bruce King)  “Measurements of the Rate of Hemoglobin Denitrosylation.”  Meeting of the Biophysical Society, San Antonio, TX, 3-5 March 2003, Biophys. J.  84(2) (2003):33a.

 

(with Virginia L. Lockamy, Jinming Huang, Howard Shields, Fouad Azizi, Samir K. Ballas, S. and Bruce King)  “In Search of the Physiologically Relevant Mechanism for NO release in Hydroxyurea Therapy.”  Meeting of the Biophysical Society, San Antonio, TX, 3-5 March 2003.  Biophys. J.  84(2)(2003): 34a.

 

(with Zhi Huang, Leigh Hearne, Cynthia E. Irby, S. Bruce King, and Samir K. Ballas)  “Time Dependence of Oxygen-induced Changes in Deformability of Sickle Red Blood Cells.”  Meeting of the Biophysical Society, San Antonio, TX, 3-5 March 2003.  Biophys. J.  84(2)(2003): 31a.

 

(with Kejing Chen, Roy R. Hantgan,  and Samir K Ballas)  “The Effects of High Phosphate Buffer and Dextran on Hemoglobin.  Time Dependence of Oxygen-induced Changes in Deformability of Sickle Red Blood Cells.”  Meeting of the Biophysical Society, San Antonio, TX, 3-5 March 2003.  Biophys. J.  84(2)(2003): 32a.

 

(with X. Xu, N. Y. Spencer, M. Cho, Z. Huang, S. B. King, M. T. Gladwin, and N. Hogg)  “Measurements of Nitric Oxide on the Heme Iron and b-93 Cysteine in Hemoglobin During Cycles of Oxygenation and Deoxygenation.”  Meeting of the Biophysical Society, San Antonio, TX, 3-5 March 2003.  Biophys. J.  84(2)(2003): 34a.

 

(with Jinming Huang, Virginia L. Lockamy, and S. Bruce King)  “Comparison of nitrite and nitrate from Hydroxyurea upon treatments with various biological oxidants.”  Oxygen Society Meeting, San Antonio TX, 11/02, Free Radical Biology and Medicine, 33 (2002): S377.

 

(with Jinming Huang and S. Bruce King)  “Catalse mediated nitreic oxide release from hydroxyurea.”  Oxygen Society Meeting, San Antonio TX,  Free Radical Biology and Medicine 33 (2002): S377.

 

(with Netanya Y. Spencer, Xiuli Xu, Mark T. Gladwin, and Neil Hogg)  “Reoxygenation/Deoxygenation cycles of nitrosyl hemoglobin.”  Oxygen Society Meeting, San Antonio TX, November 2002.  Free Radical Biology and Medicine 33 (2002): S377.

 

(with J. M. Huang, Z. Zou, and S. B. King)  “Mechanism and kinetics of the reactions of hydroxyurea derivatives and hemoglobin.”  American Chemical Society Meeting, Washington, DC, August 2002, ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY 224: 154-BIOL Part 1, ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, Biochemistry 224 (18 August 2002): 154-BIOL Part 1.

 

(with X. Xu, V. L. Lockamy, K. Chen, Z. Huang, H. Shields, S. B. King, S. K. Ballas, J. S. Nichols, M. E. Pease-Fye, M. T. Gladwin, C. T. Noguchi, and A. N. Schechter)  “Inhibition of Sickle Hemoglobin Polymerization by Nitric Oxide.”  National Sickle Cell Disease Program meeting, Washington DC, (September 2002).

 

(with Zhi Huang, M.S., S. Bruce King, and Samir K. Ballas)  “Kinetics of Improved Deformability of Deoxygenated Sickle Erythrocytes upon oxygenation.”  National Sickle Cell Disease Program meeting, Washington DC (September 2002).

 

 

 

Salsbury, Freddie R.

 

(with M. S. Lee and C. L. Brooks, III)  “New and Novel Generalized Born Methods.”  J. Chem. Phys. 116, 24 (2002): 10606-10614.

 

(with M. S. Lee, M. Feig and C. L. Brooks, III)   “A New Analytical Approximation to the Standard Molecular Volume Definition and Its Application To Generalized Born Calculations.”  In press, J. Comp. Chem.

 

(with W-G. Han, L. Noodleman and C.L. Brooks, III)  “Temperature-dependent behavior of protein-chromophore interactions: a theoretical study of a blue fluorescent antibody.”  In press, ChemPhysChem.

 

 

Williams, Richard T.

 

(with John Wilkinson, Gang Xiong, and K. B. Ucer)  “Lifetime and Oscillator Strength of Excitonic Luminescence in Zinc Oxide.”  Nonlinear Optics 29 (2002): 529.

 

(with S. Tuzemen, S. Dogan, A. Ates, M. Yildirum, Gang Xiong, and John Wilkinson)  “Convertibility of Conductivity Type in Reactively Sputtered ZnO Thin Films.”  Phys. Stat. Sol. (a) (2003): 195, 165.

 

(with Gang Xiong, John Wilkinson, S. Tuzemen, and K. B. Ucer)  “Toward a New Ultraviolet Diode Laser:  Luminescence and p-n Junctions in ZnO Films.”  SPIE (Society of Photo-Instrumentation Engineers) Proceedings 4644 (2002): 256.

 

 

 

II.  Papers and Presentations Presented at Professional Meetings

 

PHYSICS DEPARTMENT

 

Anderson, Paul R.

 

Invited talk:  Linear Response, Validity of Semi-Classical Gravity and the Stability of Flat Space.”  12th Midwest Gravity Meeting,  University of Chicago, 27-28 September 2002. 

 

Invited talk:  “Validity of semiclassical gravity in Minkowski and de Sitter spacetimes.”  April American Physical Society Meeting, Philadelphia, Pennsylvania, 4-7 April 2003.

 

 

Bonin, Keith D.

 

Invited talk:  (with G. Holzwarth, D. Hill, J. Wolfing, and M. Hobson)  Magnetic Beads and Molecular Motors.”  International Symposium on Novel Materials from Clusters to Nanostructures, Jekyll Island, GA, 2-7 June 2002. (Not reported on last year’s form due to early submission deadline of this form.)

 

Invited talk:  (with B. Kourmanov and T.G. Walker)  “Light-Torqued Nanomotors.”  Eleventh Annual Workshop of the Consortium for Nanostructured Materials, Atlanta, GA, 17-18 October 2002.

 

Invited talk:  (with D. Hill and G. Holzwarth)  “Velocity and Drag Forces on Motor-protein-driven Vesicles in Cells.”  SESAPS, Auburn, AL, 31 October-2 November 2002.

 

Invited talk:  (with D. Hill, G. Holzwarth, and M. Hobson)  Vesicle Transport in PC12 Neurites: Forces and Saltatory Motion.”  47th Biophysical Society Annual Meeting, San Antonio, TX, 1-5 March 2003.

 

Invited talk:  (with B. Kourmanov and T.G. Walker)  “Light-Torqued Nanorods.”  104th Annual Meeting of the American Physical Society, Austin, TX, 2-7 March 2003.  Bull. Am. Phys. Soc. 48, No. 1, Part II, (2003): 1365.



Carlson, Eric D.

 

Presentation:  Stress-energy tensor for a fermion field in Schwarzschild spacetime.” Meeting of the American Physical Society, Philadelphia, PA, April 2003.

 

 

Cook, Gregory B.

 

Presentation:  “Toward Astrophysical Black-Hole Binaries.”  Caltech Visitors Program in the Numerical Simulation of Gravitational Wave Sources: Quasi-Adiabatic Evolutions, Caltech, 10-14 June 2002.

 

Presentation:  “Computing Initial Data I: Formalism and History.”  Numerical Relativity Workshop at the Institute for Mathematics and its Applications, University of Minnesota, 24-29 June 2002.

 

Presentation:  “Generating Binary Black Hole Initial Data.”  Caltech Visitors Program in the Numerical Simulation of Gravitational Wave Sources: The Initial Data Problem, Caltech, 2 May 2003.

 

Guthold, Martin

 

Poster:  (with W. Liu, R. Superfine, R. M. Taylor, and S. T. Lord)  “Mechanical Properties of Individual Fibrin Fibers.”  Biophysical Society Meeting, San Antonio, TX, 3 March 2003.

 

Poster:  (with J. I. Sizemore and P. L. Cannon)  “Extraction by AFM and PCR-amplification of Single Aptamer Molecules.”  Biophysical Society Meeting, San Antonio, TX, 3 March 2003.

 

Poster:  (with L. Peng and R. Cubicciotti)  “Novel, Single-molecule Methodology to Identify New Aptamers.”  Biophysical Society Meeting, San Antonio, TX, 3 March 2003.

 

 

Holzwarth, George

 

Poster:  (with D. B. Hill, and Keith Bonin)  “Fluctuations in the Number of Motors Pulling a Vesicle in a Living Neurite.”  Biophysical Society Meeting, San Antonio, TX, 1-5 March 2003.

 

Poster:  (with Keith Bonin)  “Tracking Vesicle Motion in Live Cells.”  Annual meeting of the Southeastern Section of the American Physical Society, Auburn, AL, October 2002.

 

 

Holzwarth, Natalie

 

Poster:  (with Yonas Abraham)  “Method for Surface Calculations in a Semi-Infinite Geometry.”  ES2002-Fourteenth Annual Workshop on Recent Developments in Electronic Structure Methods, 6-8 June 2002. (This did not get in last years report.)

 

Poster:  “Pair-state analysis of the eigenstates of an N-electron system.” ES2002-Fourteenth Annual Workshop on Recent Developments in Electronic Structure Methods, 6-8 June 2002.  (This did not get in last years report.)

      

Presentation:  (with William C. Kerr and paper presented by graduate student William B. Hodge)   “Pair state analysis of the Hubbard Hamiltonian in one-dimension.” March 2003 meeting of the American Physical Society, Austin, TX, 3-7 March 2003.

 

Presentation:  (with Ping Tang, graduate student and presenter)  “The electronic structure of the rechargeable battery materials LixFePO4.” March 2003 meeting of the American Physical Society, Austin, TX, 3-7 March 2003.

 

Poster:  (with Yonas Abraham)  “Analysis of surface calculation methods in a semi-infinity geometry.” ES2003 – Fifteenth Annual Workshop on Recent Developments in Electronic Structure Methods, 17-19 May 2003.

 

Poster:  (with Ping Tang)  “Electronic structures of materials related to LixFePO4 and their use in rechargeable batteries.”  ES2003 – Fifteenth Annual Workshop on Recent Developments in Electronic Structure Methods, 17-19 May 2003.

 

 

Kerr, William C.

 

Presentation:  “Nucleation Rates in a One Dimensional System with the Phi^6 Local Potential.”  89th Statistical Mechanics Conference, Rutgers University, 18-20 May 2003.

 

Poster:  (with M. J. Rave)  “Berry Phase Effects in a Generalized Kronig-Penney Model.”  American Physical Society meeting, Austin TX, 3-8 March 2003.

 

Presentation;  (with W. B. Hodge and N. A. W. Holzwarth)  “Pair State Analysis of the Hubbard Hamiltonian in One-Dimension.”  American Physical Society meeting, Austin TX, 3-8 March 2003.

 

Presentation:  (with G. Lei and S. N. Kerr)  “Propagation of Nonlinear Schrodinger Solitons in an Electron-Phonon System.”  American Physical Society meeting, Austin TX, 3-8 March 2003.

 

Poster:  (with G. Lei and S. N. Kerr)  “Reusable C++ Code for an Electron-Phonon Simulation.” Conference on Object-Oriented Programming, Systems, Languages, and Applications, Seattle, WA, 4-8 Nov 2002.

 

 

Kim-Shapiro, Daniel B.

 

(Includes subset of abstracts in Part I. Publications, Performances, Exhibits – those I presented.)

 

(with Lockamy, Virginia L., Huang, Jinming, Shields, Howard, Azizi, Fouad, Ballas, Samir K., and King, S. Bruce)  “In Search of the Physiologically Relevant Mechanism for NO release in Hydroxyurea Therapy.”  Meeting of the Biophysical Society 3/03.  Biophys. J.  84(2) (2003): 34a.

 

(with Azizi, Fouad, Shields, Howard, Yakubu, Mamudu, and King, S. Bruce)  “Measurements of the Rate of Hemoglobin Denitrosylation.”  Meeting of the Biophysical Society 3/03.  Biophys. J.  84(2) (2003): 33a.

 

(with Huang, Zhi, Hearne, Leigh, Irby, Cynthia E., King, S. Bruce, and Ballas, Samir K.)  “Time Dependence of Oxygen-induced Changes in Deformability of Sickle Red Blood Cells.”  Meeting of the Biophysical Society 3/03.  Biophys. J.  84(2) (2003): 31a.

 

(with Chen, Kejing, Hantgan, Roy R.,  and Ballas, Samir K.)  “The Effects of High Phosphate Buffer and Dextran on Hemoglobin.  Time Dependence of Oxygen-induced Changes in Deformability of Sickle Red Blood Cells.”  Meeting of the Biophysical Society 3/03.  Biophys. J.  84(2) (2003): 32a.

 

(with Xu, X., Spencer, N. Y., Cho, M., Huang, Z., King, S. B., Gladwin, M. T., and Hogg, N.)  “Measurements of Nitric Oxide on the Heme Iron and b-93 Cysteine in Hemoglobin During Cycles of Oxygenation and Deoxygenation.”  Meeting of the Biophysical Society 3/03.  Biophys. J.  84(2) (2003): 34a.

 

(with Huang, Jinming, Lockamy, Virginia L., and King, S. Bruce)   “Comparison of nitrite and nitrate from Hydroxyurea upon treatments with various biological oxidants.”  Oxygen Society Meeting, San Antonio TX, 11/02.  Free Radical Biology and Medicine 33 (2002): S377.

 

(with Huang, Jinming and King, S. Bruce)  “Catalse mediated nitreic oxide release from hydroxyurea.”  Oxygen Society Meeting, San Antonio TX, 11/02.  Free Radical Biology and Medicine 33 (2002): S377.

 

(with Spencer, Netanya Y., Xu, Xiuli, Gladwin, Mark T., and Hogg, Neil)  “Reoxygenation/Deoxygenation cycles of nitrosyl hemoglobin.”  Oxygen Society Meeting, San Antonio TX, 11/02.  Free Radical Biology and Medicine 33 (2002): S377.

 

(with Huang, J.M., Zou, Z., and King, S. B.)  “Mechanism and kinetics of the reactions of hydroxyurea derivatives and hemoglobin.”  American Chemical Society Meeting, Washington DC, 8/02.  ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY 224: 154-BIOL Part 1, ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY Biochemistry 224 (Aug. 18, 2002): 154-BIOL Part 1.

 

(with Xu, X., Lockamy, V. L., Chen, K., Huang, Z., Shields, H., King, S. B., Ballas, S. K., Nichols, J. S., Pease-Fye, M. E., Gladwin, M. T., Noguchi, C. T., and Schechter, A. N.)  “Inhibition of Sickle Hemoglobin Polymerization by Nitric Oxide.”  National Sickle Cell Disease Program meeting, Washington DC (Sept. 2002).

 

(with Huang, Zhi, King, Bruce, and Ballas, Samir K.)  “Kinetics of Improved Deformability of Deoxygenated Sickle Erythrocytes upon oxygenation.”  National Sickle Cell Disease Program meeting, Washington DC (Sept. 2002).

 

(with King, S.B. and Huang, Z.)  “Lack of cooperativity in iron nitrosylation of hemoglobin.”  Nitric Oxide Society meeting, Prague, Czech Republic, (June 2002).

 

 

Salsbury, Freddie R.

 

Presentation:  “Probing the Electrostatics of Proteins with Generalized Born Methods.” University of California at San Diego, La Jolla, CA, 24 July 2002,

 

Presentation:  (with Lee, Michael S.)  “Macromolecular Simulations with New Generalized Born Methods.”  Austin, TX, American Physical Society, 4 March 2003.

 

Presentation:  Given by Lee, Michael S.(1) (with Feig, Michael(2), Brooks III, Charles L.(2), and Salsbury, Jr., Freddie R.(3))  “New trends in generalized Born implicit solvent methods.” (1)Department of Cell Biology & Biochemistry, USAMRIID, 1425 Porter St., Frederick, MD 21702, (2) Department of Molecular Biology, TPC-6, The  Scripps Research Institute, 10550 N. Torrey Pines, La Jolla, CA 92037, (3) Department of Physics, Wake Forest University, Winston-Salem, NC 27106, New Orleans, LA, American Chemical Society, 28 March 2003.

 

 

Williams, Richard T.

 

(with John Wilkinson and Burak Ucer)  “Photoluminescence probe of energy transport in ZnO.”  American Physical Society, Austin, TX, March 2003.

 

(with John Wilkinson, Gang Xiong, and K. B. Ucer)  “Lifetime and oscillator strength of excitonic luminescence in ZnO.”  American Physical Society, Austin, TX, March 2003.

 

Presentation:  “ZnO for blue laser diodes and ultrafast scintillators.”  University of Georgia Physics Colloquium, 17 April 2003.

 

Presentation:  (with John Wilkinson, Gang Xiong, and K. B. Ucer)  “Lifetime and oscillator strength of excitonic luminescence in zinc oxide.”  5th International Conference on Exctonic Processes in Condensed Matter, Darwin, Australia, August 2002.

 

 

III.  Editorship, Offices, and Consultancies

 

PHYSICS DEPARTMENT

 

Matthews, G. E.

 

International Advisory Committee, International Conference on Defects in Insulating Materials

 

Led one-day workshop at Transylvania University on computer-enhanced learning in June 2002.

 

 

Williams, Richard T.

 

Editorial advisory board of Journal of Physics: Condensed Matter, the British journal of condensed matter physics.

 

Editorial Advisory Board of Materials Science Foundation (Trans Tech Publications, Ltd., Zurich).

 

Member, International Advisory Committee and Program Committee, 15th International Conference on Defects in Insulating Materials (ICDIM 2004, Riga, Latvia).

 

Member, International Advisory Committee, 6th International Conference on Excitonic Processes in Condensed Matter (EXCON 2004, Krakow, Poland).

 

Member, International Advisory Committee, 7th International Conference on Inorganic Scintillators and their Applications (SCINT 2003, Valencia, Spain).

 

 

IV.  External Grants Received (actually been funded)

 

PHYSICS DEPARTMENT

 

Anderson, Paul R.

 

$92,947           “Studies of Classical and Quantum Effects and the Validity of the Semiclassical

                        Approximation in Gravity.”  NSF

 

 

Guthold, Martin

 

$227,708         “Novel, Single-molecule Aptamer Selection Method.”  National Cancer Institute

 

$240,000         “Novel Aptamer Discovery Method.”  Beckman Foundation

 

 

Holzwarth, Natalie

 

$13,939           “Contribution to development of Socorro electronic structure code.”  SANDIA

                        National Laboratory

 

 

Kim-Shapiro, Daniel B.

 

$1,563,320      “Effects of Nitric Oxide in Sickle Cell Blood.”  NIH

 

$137,250         Purchase of an Electron Paramagnetic Resonance Spectrometer.  NCBC

 

 

Salsbury, Freddie R.

 

10000 cpu-hrs              “Continuum Solvation Studies of Nucleic Acid Dynamics.”

                                    NCSA

 

10000 cpu-hrs              “Implicit Solvation Studies of Protein.”    NPACI

 

2200 cpu-hrs                “Energetics of Macromolecular Association and Binding Probed Using

                                    Fast Continuum Solvation Models.”   NCSC

 

20000 cpu-hrs              “Coupling of Conformation Change and Protonation.”   NCSA

 

 

William, Richard T.

 

$12,500           “Evaluation of Birefringence-based PTFE Film Inspection.”  Gillette Company