Publications

Ganji, Mahipal, Margreet Docter, Stuart F. Le Grice, and Elio Abbondanzieri. "DNA binding proteins explore multiple local configurations during docking via rapid rebinding." NAR. (accepted)


Ganji, Mahipal, Sung Hyun Kim, Jaco van der Torre, Elio Abbondanzieri, and Cees Dekker. "Intercalation-based single-molecule fluorescence assay to study DNA supercoil dynamics." Nano Letters (2016).


Vtyurina, Natalia N., David Dulin, Margreet W. Docter, Anne S. Meyer, Nynke H. Dekker, and Elio A. Abbondanzieri. "Hysteresis in DNA compaction by Dps is described by an Ising model." Proceedings of the National Academy of Sciences (2016.


"Retrovirus replication: New perspectives on enzyme and substrate dynamics.  In Recent Advances in Human Retroviruses: Principles of Replication and Pathogenesis", J.W. Rausch, E. A, Abbondanzieri, Liu, S., Zhuang, X., and Le Grice, S.F.J.  (2010)  (A.M.L. Lever, K.-T. Jeang, and B. Berkhout, eds.), World Scientific Publishing, pp. 307-345.


News and Views, Molecular biology: Concealed enzyme coordination”, E. A. Abbondanzieri, X. Zhuang, Nature 457, 392-393 (2009).

 

Slide into action: dynamic shuttling of HIV reverse transcriptase on nucleic acid substrates”,S. Liu, E. A. Abbondanzieri, J. W. Rausch, S. F. Le Grice, X. Zhuang, Science 322, 1092-1097 (2008).(Perspective)

 

Dynamic binding orientations direct activity of HIV reverse transcriptase”, E. A. Abbondanzieri, G. Bokinsky, J. W. Rausch, X. J. Zhang, S. F. Le Grice, X. Zhuang, Nature 453, 184-189 (2008).(News and Views)

 

Picocalorimetry of transcription by RNA polymerase”, E. A. Abbondanzieri, J. W. Shaevitz, S. M. Block, Biophysical Journal 89, L61-L63 (2005).

 

Direct observation of base-pair stepping by RNA polymerase”, E. A. Abbondanzieri, W. J. Greenleaf, J. W. Shaevitz, R. Landick, S. M. Block, Nature 438, 460-465 (2005).(Cell Preview, Research Highlights)

 

Passive all-optical force clamp for high-resolution laser trapping”, W. J. Greenleaf, M. T. Woodside, E. A. Abbondanzieri, S. M. Block,Physical Review Letters 95, 208102 (2005).

 

Measurement of the effective focal shift in an optical trap”, K. C. Neuman, E. A. Abbondanzieri, S. M. Block, Optics Letters 30, 1318-1320 (2005).

 

Backtracking by single RNA polymerase molecules observed at near-base-pair resolution”, J. W. Shaevitz, E. A. Abbondanzieri, R. Landick, S. M. Block, Nature 426, 684-687 (2003).

 

Ubiquitous transcriptional pausing is independent of RNA polymerase backtracking”, K. C. Neuman, E. A. Abbondanzieri, R. Landick, S. M. Block, Cell 115, 437-447 (2003).

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