Selected References

• N. A. Denesyuk and D. Thirumalai, Coarse-Grained Model for Predicting RNA Folding Thermodynamics Journal of Physical Chemistry 117, 4901-4911 (2013)
• N. A. Denesyuk and D. Thirumalai, Entropic stabilization of the folded states of RNA due to macromolecular crowding, Biophysical Reviews 5, 225-232 (2013)
• Arthur La Porta, N. A. Denesyuk and Michel de Messieres, Optimal reconstruction of the folding landscape using differential energy surface analysis, Physical Review E 87 032716 (2013)
• N. A. Denesyuk and D. Thirumalai, Crowding Promotes the Switch from Hairpin to Pseudoknot Conformation in Human Telomerase RNA, Journal of the American Chemical Society 133 p. 11858-61 (2011)
• Michel de Messieres, N. A. Denesyuk and Arthur La Porta, Noise associated with nonconservative forces in optical traps, Physical Review E 84 031108 (2011)
• N. A. Denesyuk and J. D. Weeks, Equilibrium and Nonequilibrium Effects in the Collapse of a Model Polypeptide, Physical Review Letters 102 108101 (2009)
• N. A. Denesyuk and J. D. Weeks, A new approach for efficient simulation of Coulomb interactions in ionic fluids, Journal of Chemical Physics 128 124109 (2008)
• N. A. Denesyuk and G. Gompper, Mixing A and B homopolymers with AC diblock copolymers: phase behavior of asymmetric polymer blends, Macromolecules 39, 5497 - 5511 (2006).
• N. A. Denesyuk and J. P. Hansen, Wetting transitions of ionic solutions, Journal of Chemical Physics 121, 3613 - 3624 (2004).
• N. A. Denesyuk, Conformational properties of bottle-brush polymers, Physical Review E 67, 051803 (2003).
• N. A. Denesyuk, Effect of correlated random copolymers at a liquid-liquid interface: Is it comparable with that of diblock copolymers?, Journal of Chemical Physics 114, 4696 - 4701 (2001).

Research Interests

• Coarse Grained RNA models
• Molecular Crowding of Nucleic Acid and Protein Structures
• Theory of random and block copolymers
• Theoretical studies of surface wetting
• Generalized Debye theory of screening
• Simulation of a model protein
• Dynamics of helices

Images and Animations

• Polymer simulation
• Helix dynamics