Olga Dudko

Title	Researcher
Institution	University of California San Diego
Department	Physics
Address	9500 Gilman Drive #0374 La Jolla CA 92093
Phone	858-534-8340
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Bibliographic

Publications

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.

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Pierse CA, Dudko O. Distinguishing Signatures of Multipathway Conformational Transitions. Phys Rev Lett. 2017 Feb 24; 118(8):088101. PMID: 28282172.

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Zhang Y, Dudko O. First-Passage Processes in the Genome. Annu Rev Biophys. 2016 Jul 05; 45:117-34. PMID: 27391924.

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Dudko O. Decoding the mechanical fingerprints of biomolecules. Q Rev Biophys. 2016 Jan; 49:e3. PMID: 26498560.

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Zhang Y, Dudko O. Statistical mechanics of viral entry. Phys Rev Lett. 2015 Jan 09; 114(1):018104. PMID: 25615507.

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Lucas JS, Zhang Y, Dudko O, Murre C. 3D trajectories adopted by coding and regulatory DNA elements: first-passage times for genomic interactions. Cell. 2014 Jul 17; 158(2):339-352. PMID: 24998931; PMCID: PMC4113018.

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Garai A, Zhang Y, Dudko O. Conformational dynamics through an intermediate. J Chem Phys. 2014 Apr 07; 140(13):135101. PMID: 24712815.

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Pierse CA, Dudko O. Kinetics and energetics of biomolecular folding and binding. Biophys J. 2013 Nov 05; 105(9):L19-22. PMID: 24209869; PMCID: PMC3824551.

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Zhang Y, Dudko O. A transformation for the mechanical fingerprints of complex biomolecular interactions. Proc Natl Acad Sci U S A. 2013 Oct 08; 110(41):16432-7. PMID: 24062442; PMCID: PMC3799329.

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Suzuki Y, Dudko O. Single molecules in an extension clamp: extracting rates and activation barriers. Phys Rev Lett. 2013 Apr 12; 110(15):158105. PMID: 25167317.

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Dudko O, Graham TG, Best RB. Locating the barrier for folding of single molecules under an external force. Phys Rev Lett. 2011 Nov 11; 107(20):208301. PMID: 22181779.

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Suzuki Y, Dudko O. Biomolecules under mechanical stress: a simple mechanism of complex behavior. J Chem Phys. 2011 Feb 14; 134(6):065102. PMID: 21322735.

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Suzuki Y, Dudko O. Single-molecule rupture dynamics on multidimensional landscapes. Phys Rev Lett. 2010 Jan 29; 104(4):048101. PMID: 20366741.

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Dudko O, Mathé J, Meller A. Nanopore force spectroscopy tools for analyzing single biomolecular complexes. Methods Enzymol. 2010; 475:565-89. PMID: 20627171.

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Dudko O. Single-molecule mechanics: new insights from the escape-over-a-barrier problem. Proc Natl Acad Sci U S A. 2009 Jun 02; 106(22):8795-6. PMID: 19470467; PMCID: PMC2690008.

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Dudko O, Hummer G, Szabo A. Theory, analysis, and interpretation of single-molecule force spectroscopy experiments. Proc Natl Acad Sci U S A. 2008 Oct 14; 105(41):15755-60. PMID: 18852468; PMCID: PMC2572921.

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Best RB, Paci E, Hummer G, Dudko O. Pulling direction as a reaction coordinate for the mechanical unfolding of single molecules. J Phys Chem B. 2008 May 15; 112(19):5968-76. PMID: 18251532.

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Dudko O, Mathé J, Szabo A, Meller A, Hummer G. Extracting kinetics from single-molecule force spectroscopy: nanopore unzipping of DNA hairpins. Biophys J. 2007 Jun 15; 92(12):4188-95. PMID: 17384066; PMCID: PMC1877759.

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Dudko O, Weiss GH, Chernomordik V. Mean time-of-flight of photons in transillumination measurements of optically anisotropic tissue with an inclusion. Phys Med Biol. 2006 Sep 21; 51(18):4719-33. PMID: 16953052; PMCID: PMC1808338.

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Dudko O, Hummer G, Szabo A. Intrinsic rates and activation free energies from single-molecule pulling experiments. Phys Rev Lett. 2006 Mar 17; 96(10):108101. PMID: 16605793.

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Gupta V, Parisi M, Sturgill D, Nuttall R, Doctolero M, Dudko O, Malley JD, Eastman PS, Oliver B. Global analysis of X-chromosome dosage compensation. J Biol. 2006; 5(1):3. PMID: 16507155; PMCID: PMC1414069.

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Dudko O, Berezhkovskii AM, Weiss GH. Time-dependent diffusion coefficients in periodic porous materials. J Phys Chem B. 2005 Nov 17; 109(45):21296-9. PMID: 16853761.

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Dudko O, Szabo A. Time-dependent rate coefficients for diffusion-influenced reactions with centrosymmetric potentials. J Phys Chem B. 2005 Mar 31; 109(12):5891-4. PMID: 16851641.

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Dudko O, Weiss GH. Estimation of anisotropic optical parameters of tissue in a slab geometry. Biophys J. 2005 May; 88(5):3205-11. PMID: 15731380; PMCID: PMC1305470.

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Dudko O, Berezhkovskii AM, Weiss GH. Diffusion in the presence of periodically spaced permeable membranes. J Chem Phys. 2004 Dec 08; 121(22):11283-8. PMID: 15634083.

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Dudko O, Weiss GH, Chernomordik V, Gandjbakhche AH. Photon migration in turbid media with anisotropic optical properties. Phys Med Biol. 2004 Sep 07; 49(17):3979-89. PMID: 15470918.

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Dudko O, Berezhkovskii AM, Weiss GH. Rate constant for diffusion-influenced ligand binding to receptors of arbitrary shape on a cell surface. J Chem Phys. 2004 Jul 15; 121(3):1562-5. PMID: 15260704.

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