Publications

Sangaj, N., Kyriakakis, P., Yang, D., Chang, C.-W., Arya, G., & Varghese, S. (2010). Heparin mimicking polymer promotes myogenic differentiation of muscle progenitor cells. Biomacromolecules, 11(12), 3294–3300. https://doi.org/10.1021/bm101041f

Arya, G. (2010). Chain stiffness and attachment-dependent attraction between polyelectrolyte-grafted colloids. The Journal of Physical Chemistry. B, 114(48), 15886–15896. https://doi.org/10.1021/jp1029085

Dobrovolskaia, I. V., Kenward, M., & Arya, G. (2010). Twist propagation in dinucleosome arrays. Biophysical Journal, 99(10), 3355–3364. https://doi.org/10.1016/j.bpj.2010.09.055

Arya, G., Maitra, A., & Grigoryev, S. A. (2010). A structural perspective on the where, how, why, and what of nucleosome positioning. Journal of Biomolecular Structure & Dynamics, 27(6), 803–820. https://doi.org/10.1080/07391102.2010.10508585

Maitra, A., & Arya, G. (2010). Model accounting for the effects of pulling-device stiffness in the analyses of single-molecule force measurements. Physical Review Letters, 104(10). https://doi.org/10.1103/PhysRevLett.104.108301

Meluzzi, D., Smith, D. E., & Arya, G. (2010). Biophysics of knotting. Annual Review of Biophysics, 39, 349–366. https://doi.org/10.1146/annurev.biophys.093008.131412

Arya, G. (2009). Energetic and entropic forces governing the attraction between polyelectrolyte-grafted colloids. The Journal of Physical Chemistry. B, 113(48), 15760–15770. https://doi.org/10.1021/jp908007z

Grigoryev, S. A., Arya, G., Correll, S., Woodcock, C. L., & Schlick, T. (2009). Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions. Proceedings of the National Academy of Sciences of the United States of America, 106(32), 13317–13322. https://doi.org/10.1073/pnas.0903280106

Arya, G., & Schlick, T. (2009). A tale of tails: how histone tails mediate chromatin compaction in different salt and linker histone environments. The Journal of Physical Chemistry. A, 113(16), 4045–4059. https://doi.org/10.1021/jp810375d

Hehmeyer, O. J., Arya, G., Panagiotopoulos, A. Z., & Szleifer, I. (2007). Monte Carlo simulation and molecular theory of tethered polyelectrolytes. The Journal of Chemical Physics, 126(24), 244902. https://doi.org/10.1063/1.2747600

Arya, G., & Schlick, T. (2007). Efficient global biopolymer sampling with end-transfer configurational bias Monte Carlo. The Journal of Chemical Physics, 126(4), 044107. https://doi.org/10.1063/1.2428305

Arya, G., & Schlick, T. (2006). Role of histone tails in chromatin folding revealed by a mesoscopic oligonucleosome model. Proceedings of the National Academy of Sciences of the United States of America, 103(44), 16236–16241. https://doi.org/10.1073/pnas.0604817103

Arya, G., Zhang, Q., & Schlick, T. (2006). Flexible histone tails in a new mesoscopic oligonucleosome model. Biophysical Journal, 91(1), 133–150. https://doi.org/10.1529/biophysj.106.083006

Arya, G., & Panagiotopoulos, A. Z. (2005). Impact of branching on the phase behavior of polymers. Macromolecules, 38(25), 10596–10604. https://doi.org/10.1021/ma0515376

Arya, G., Rottler, J., Panagiotopoulos, A. Z., Srolovitz, D. J., & Chaikin, P. M. (2005). Shear ordering in thin films of spherical block copolymer. Langmuir : The ACS Journal of Surfaces and Colloids, 21(24), 11518–11527. https://doi.org/10.1021/la0516476

Arya, G., & Panagiotopoulos, A. Z. (2005). Log-rolling micelles in sheared amphiphilic thin films. Physical Review Letters, 95(18), 188301. https://doi.org/10.1103/physrevlett.95.188301

Arya, G., & Panagiotopoulos, A. Z. (2005). Molecular modeling of shear-induced alignment of cylindrical micelles. Computer Physics Communications, 169(1–3), 262–266. https://doi.org/10.1016/j.cpc.2005.03.060

Hehmeyer, O. J., Arya, G., & Panagiotopoulos, A. Z. (2004). Phase transitions of confined lattice homopolymers. Journal of Physical Chemistry B, 108(21), 6809–6815. https://doi.org/10.1021/jp037599k

Arya, G., & Panagiotopoulos, A. Z. (2004). Monte Carlo study of shear-induced alignment of cylindrical micelles in thin films. Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics, 70(3), 9. https://doi.org/10.1103/PhysRevE.70.031501

Arya, G., Chang, H. C., & Maginn, E. J. (2003). Knudsen diffusivity of a hard sphere in a rough slit pore. Physical Review Letters, 91(2), 026102/1-026102/4. https://doi.org/10.1103/PhysRevLett.91.026102

Arya, G., Chang, H. C., & Maginn, E. J. (2003). Molecular simulations of knudsen wall-slip: Effect of wall morphology. Molecular Simulation, 29(10–11), 697–709. https://doi.org/10.1080/0892702031000103257

Kioupis, L. I., Arya, G., & Maginn, E. J. (2002). Pressure-enthalpy driven molecular dynamics for thermodynamic property calculation II: Applications. Fluid Phase Equilibria, 200(1), 93–110. https://doi.org/10.1016/S0378-3812(02)00015-8

Arya, G., Chang, H. C., & Maginn, E. J. (2001). A critical comparison of equilibrium, non-equilibrium and boundary-driven molecular dynamics techniques for studying transport in microporous materials. Journal of Chemical Physics, 115(17), 8112–8124. https://doi.org/10.1063/1.1407002

Arya, G., Maginn, E. J., & Chang, H. C. (2001). Effect of the surface energy barrier on sorbate diffusion in A1PO4-5. Journal of Physical Chemistry B, 105(14), 2725–2735. https://doi.org/10.1021/jp003350g

Arya, G., Maginn, E. J., & Chang, H. C. (2000). Efficient viscosity estimation from molecular dynamics simulation via momentum impulse relaxation. Journal of Chemical Physics, 113(6), 2079–2087. https://doi.org/10.1063/1.482019