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| Current Institution | University of California, Berkeley |
| Department | Biophysicist |
| Disciplines | |
| Address | Berkeley California 94720 United States Phone: (510) 643-6245 |
Profile viewed 2950 times
Education
University of Illinois at Urbana-Champaign
Ph.D.,
Biophysics
(1994)
University of Illinois at Urbana-Champaign
M.S.,
Physics
(1989)
Work Experience
Lecturer
University of California, Berkeley
(Jan 2011 - Present)
Adjunct Faculty
California State University, East Bay
(Feb 2011 - Present)
Lecturer
California State University, East Bay
(Sep 2010 - Present)
Achievements
General
Publication Summary
Publications
- J. L. Adelman, J. D. Chodera, I.-F. W. Kuo, T. F. Miller III, and D. Barsky. The mechanical properties of PCNA: Implications for the loading and function of a DNA sliding clamp. Biophys. J. 98(12): 3062-3069, 2010. This article featured on the journal cover, 16 June 2010.
- D. Barsky, T. A. Laurence, C. Venclovas. How Proteins Slide on DNA. In Biophysics of DNA-protein interactions: From single molecules to biological systems, M.C. Williams and L.J. Maher, III, eds. Springer (in press) 2010.
- A. Y. Park, S. Jergic, A. Politis, B. T. Ruotolo, D. Hirshberg, L. L. Jessop, J. L. Beck, D. Barsky, M. O'Donnell, N. E. Dixon, C. V. Robinson. A Single Subunit Directs the Assembly of the Escherichia coli DNA Sliding Clamp Loader. Structure 18(3), 285-292, 2010.
- T. A. Laurence, Y. Kwon, A. Johnson, C. W. Hollars, M. O'Donnell, J. A. Camarero, and D. Barsky. Diffusion Constant of a DNA Sliding Clamp Measured by Single Molecule Fluorescence Spectroscopy. J. Biol. Chem. 283(34), 22895-22906, 2008.
- M. Zhou, A. M. Sandercock, C. S. Fraser, G. Ridlova, E. Stephens, M. R. Schenauer, T. Yokoi-Fong, J. A. Leary, J. W. Hershey, D. Barsky, J. Doudna, C. V. Robinson. Mass spectrometry reveals modularity and a complete subunit interaction map of the eukaryotic translation factor eIF3. Proc. Nat. Acad. Sci. 105(47), 18139-18144, 2008.
- M. Cosman, J. B. Pesavento, A. Zemla, P. T. Beernink, R. Balhorn, and D. Barsky. Identification of a thermo-regulated glutamine-binding protein from Yersinia pestis. Protein & Peptide Lett. 15(9), 887-894, 2008.
- T. A. Laurence, Y. Kwon, E. Yin, C. W. Hollars, J. A. Camarero, and D. Barsky. Correlation Spectroscopy of Minor Fluorescent Species: Signal Purification and Distribution Analysis. Biophys. J., 92:2184-2198, 2007.
- R. Rieger, P. S. Leung, M. R. Jeddeloh, Y. F. Suen, M. J. Kurth, M. H. Nantz, K. S. Lam, D. Barsky, A. A. Ansari, R. L. Coppel, I. R. Mackay, and M. E. Gershwin. Identification of 2-nonynoic acid, a cosmetic component, as a potential trigger of primary biliary cirrhosis. J. Autoimmunity 27:716, 2006.
- P. J. Beuning, S. M. Simon, A. Zemla, D. Barsky, and G. C. Walker. A Non-Cleavable UmuD Variant that Acts as a UmuD′ Mimic. J. Biol. Chem. 281(14):9633-9640, 2006.
- P. J. Beuning, D. Sawicka, D. Barsky, and G. C. Walker. Two Processivity Clamp Interactions Differentially Alter the Dual Activities of UmuC. Mol. Microbiol. 59(2):460-474, Jan. 2006.
- D. Barsky and C. Venclovas. DNA Sliding Clamps: Just the Right Twist to Load onto DNA. [Invited Perspective] Curr. Biol. 15: R989-R992, Dec. 2005.
- A. Zemla, C. E. Zhou, T. Slezak, T. Kuczmarski, D. Rama, C. Torres, D. Sawicka, and D. Barsky. AS2TS system for protein structure modeling and analysis. Nucleic Acids Res. 33:W111-W115 2005.
- K. A. Miller, D. Sawicka, D. Barsky, and J. S. Albala. Domain mapping of the Rad51 paralog protein complexes. Nucleic Acids Res. 32(1): 169-178, 2004.
- B. Lee, L. H. Nguyen, D. Barsky, M. Fernandes, and D. M. Wilson III. Molecular interactions of human Exo1 with DNA. Nucleic Acids Res. 30(4): 942-949, 2002.
- S. A. Long, C. Quan, J. van de Water, M. H. Nantz, M. J. Kurth, D. Barsky, M. E. Colvin, K. S. Lam, R L. Coppel, A. Ansari, and M. E. Gershwin. Synthetic Organic/Peptide Conjugate Mimeotopes of the Major Autoantigen of Primary Biliary Cirrhosis. J. Immunol. 167: 2956-2963, 2001.
- D.M. Wilson, III and D. Barsky. The major human abasic endonuclease ape1. Formation, consequences, and repair of abasic lesions in DNA. [Review article] Mutation Res. 485: 283-307, 2001.
- D. Barsky and M. E. Colvin. Guanine-cytosine base pairs in parallel-stranded DNA: An ab initio study of the keto-amino wobble pair versus the enol-imino minor tautomer pair. J. Phys. Chem. A. 104: 8570-8576, 2000.
- D. Barsky, N. Foloppe, S. Ahmadia, D.M. Wilson, III, and A.D. MacKerell, Jr. New insights into the structure of abasic DNA from molecular dynamics simulations. Nucleic Acids Res. 28(13): 2613-2626, 2000.
- L. H. Nguyen, D. Barsky, J. P. Erzberger, and D. M. Wilson, III. Mapping the protein-DNA interface and the metal binding site of the major human apurinic/apyriminic endonuclease. J. Mol. Biol. 298:447-459, 2000.
- R. Fellers, D. Barsky, F. Gygi, and M. E. Colvin. An ab initio study of DNA base pair hydrogen bonding: A comparison of plane wave versus Gaussian type function methods. Chem. Phys. Lett., 312(5-6): 548-555, 1999.
- D. Barsky, E. T. Kool, and M. E. Colvin. Interaction and solvation energies of nonpolar DNA base analogues and their role in polymerase insertion fidelity. J. Biomol. Structure and Dynamics, 16(6): 1119-1134, 1999.
- J. P. Erzberger, D. Barsky, O. D. Scharer, M. E. Colvin, and D. M. Wilson, III. Elements in abasic site recognition by the major human and Escherichia coli apurinic/apyrimidinic endonucleases. Nucleic Acids Res., 26(11):2771-2778, 1998.
- D. Barsky, M. E. Colvin, G. Zon, and S. M. Gryaznov. Hydration effects on the duplex stability of phosphoramidate DNA-RNA oligomers. Nucleic Acids Res., 25(4):830-835, 1997.
- D. Barsky, B. Pütz, and K. Schulten. Theory of heterogeneous relaxation in compartmentalized tissues. Magn. Reson. in Med., 37:666-675, 1997.
- Q. Dong, D. Barsky, M. E. Colvin, C. F. Melius, S. M. Ludeman, O. M. Colvin, D. D. Bigner, P. Modrich, and H. S. Friedman. A structural basis for a phosphoramide mustard-induced DNA interstrand cross-link at 5'd(GAC). Proc. Natl. Acad. Sci. U.S.A., 92:12170-12174, 1995.
- B. Pütz, D. Barsky, and K. Schulten. Mechanisms of liposomal contrast agents in magnetic resonance imaging (in forum: Liposomes in diagnostic imaging). Journal of Liposome Research, 4(2):771-809, 1994. [Citation numbers unavailable.]
- D. Barsky, B. Pütz, K. Schulten, J. Schoeniger, E. W. Hsu, and S. Blackband. Diffusional edge enhancement observed by NMR in thin glass capillaries. Chem. Phys. Lett., 200(1,2):88-96, 1992.
- D. Barsky, B. Pütz, K. Schulten, and R. L. Magin. Theory of paramagnetic contrast agents in liposome systems. Magn. Reson. in Med., 24(1):1-13, March 1992.
- B. Pütz, D. Barsky, and K. Schulten. Edge enhancement by diffusion in microscopic magnetic resonance imaging. J. Magn. Reson., 97:27-53, 1992.
- B. Pütz, D. Barsky, and K. Schulten. Edge enhancement by diffusion: Microscopic magnetic resonance imaging of an ultra-thin glass capillary. Chem. Phys. Lett., 183:391-396, 1991.
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