Publications

H. Khamis, S. Rudnizky and A. Kaplan, “Mobile nucleosomes and the accessibility of transcription factors to DNA: a modified dynamic equilibrium model”, 

R. Zananiri*, V. Gaydar*, D. Yahalom, O. Malik, S. Rudnizky, A. Kaplan#, and A. Henn#, “Auxiliary ATP binding sites power rapid unwinding by RecBCD”, bioRxiv 210823 (2017). PDF

S. Rudnizky*, H. Khamis*, O. Malik, A. Squires, A. Meller, P. Melamed and A. Kaplan, “Single-molecule DNA unzipping reveals asymmetric modulation of a transcription factor by its binding site sequence and context”, Nucleic Acids Research, gkx1252 (2017). PDF

O. Malik*, H. Khamis*, S. Rudnizky and A. Kaplan, “The mechano-chemistry of a monomeric reverse transcriptase”, Nucleic Acids Research 45, 12954 (2017). PDF

O. Malik*, H. Khamis*, S. Rudnizky, A. Marx and A. Kaplan, “Pausing kinetics dominates strand-displacement polymerization by Reverse Transcriptase”, Nucleic Acids Research 45, 10190 (2017). PDF

S. Rudnizky, O. Malik, A. Bavly, L. Pnueli, P. Melamed and A. Kaplan, “Nucleosome mobility and the regulation of gene expression: Insights from single-molecule studies“, Protein Science 26, 1266 (2017). PDF

S. Rudnizky, A. Bavly, O. Malik, L. Pnueli, P. Melamed and A. Kaplan, “H2A.Z controls the stability and mobility of nucleosomes to regulate expression of the LH genes”, Nature Communications 7, 12958 (2016).PDF

T. Liu*, A. Kaplan*, L. Alexander, S. Yan, J-D. Wen, L. Lancaster,  C. Wickersham, K. Fredrick, H. Noller, I. Tinoco and C. Bustamante, “Direct measurement of the mechanical work during translocation by the ribosome”,  eLife 2014;3:e03406 (*) Equal contribution. PDF

K. Aathavan*, A. T. Politzer*, A. Kaplan*, J. R. Moffitt*, Y. R. Chemla, S. Grimes, P. J. Jardine, D. L. Anderson, and C. Bustamante, “Substrate Interactions and Promiscuity in a Viral DNA Packaging Motor”, Nature 461, 669 (2009). (*) Equal contribution. PDF

M. F. Andersen, A. Kaplan, T. Grünzweig, and N. Davidson, “Decay of Quantum Correlations in Atom Optics Billiards with Chaotic and Mixed Dynamics”, Phys. Rev. .Lett. 97, 104102 (2006).

N. Davidson, A. Kaplan, M. F. Andersen, and T. Grunzweig, “Classical and quantum dynamics with ultra cold atoms in billiards”, in “Quantum Computer, Algorithms and Chaos”, Volume 162 International School of Physics Enrico Fermi, Edited by: G. Casati, D.L. Shepelyansky, P. Zoller and G. Benenti ( IOS Press, Amsterdam 2006).

A. Kaplan, M. F. Andersen, T. Grünzweig, and N. Davidson, “Hyperfine spectroscopy of optically trapped atoms”, J. Opt. B: Quant. Semiclass. Opt. 7, R103 (2005).

M.F. Andersen, T. Grünzweig, A. Kaplan, and N. Davidson, “Revivals of Coherence in Chaotic Atom Optics Billiards”, Phys. Rev. A 69, 063413 (2004).

M. F. Andersen, A. Kaplan, T. Grünzweig, and N. Davidson, “Supression of Dephasing of Optically Trapped Atoms”, Phys. Rev. A 70, 013405 (2004).

A. Kaplan, N. Friedman, M. Andersen, and N. Davidson, “Stable regions and singular trajectories in chaotic soft wall billiards”, Physics D 187, 136 (2004).

A. Kaplan, M. Andersen, N. Friedman and N. Davidson, “Atom optics billiards”, in Chaotic dynamics and transport in classical and quantum systems, Editors: P. Collet, M. Courbage, S. Metens, A. Neishtast and G. Zaslavsky, NATO science series II, vol. 182 (Springer, 2004).

M. F. Andersen, A. Kaplan, T. Grünzweig, and N. Davidson, “Echo spectroscopy and Atom Optics Billiards”, Communications in Nonlinear science and numerical simulation 8, 289 (2003).

M. F. Andersen, A. Kaplan, and N. Davidson, “Echo spectroscopy and quantum stability of trapped atoms”, Phys. Rev. Lett. 90, 023001 (2003).

A. Kaplan, N. Friedman, N. Davidson, “Optimized single-beam dark optical trap”, J. Opt. Soc. Am B 19, 1233 (2002).

A. Kaplan, M. F. Andersen, and N. Davidson, “Suppression of inhomogeneous broadening in rf spectroscopy of optically trapped atoms”, Phys. Rev. A 66, 045401 (2002).

M. F. Andersen, A. Kaplan, N. Friedman and N. Davidson, “Stable islands in chaotic atom- optics billiards, caused by curved trajectories”, J. Phys. B: At. Mol. Opt. Phys. 35, 2183 (2002).

N. Friedman, A. Kaplan, N. Davidson, “Dark Optical Traps for Cold Atoms”, Adv. At. Mol. Opt. Phys. 48, 99 (2002). Citations: 23

A. Kaplan, N. Friedman, and N. Davidson, “Acousto-optic lens with very fast focus scanning”, Opt. Lett. 26, 1078 (2001).

A. Kaplan, N. Friedman, M. Andersen, and N. Davidson, “Observation of Islands of Stability in Soft Wall Atom-Optics Billiards”, Phys. Rev. Lett. 87, 274101 (2001).

N. Friedman, A. Kaplan, D. Carasso, and N. Davidson, “Observation of chaotic and regular dynamics in atom-optics billiards”, Phys. Rev. Lett. 86, 1518 (2001).

N. Friedman, A. Kaplan, and N. Davidson, “Acousto-optic scanning system with very fast nonlinear scans”, Opt. Lett. 25, 1762 (2000).