Publications

Found 89 results
[ Type(Desc)] Year
Journal Article
A Maitra, and G Arya. "Model Accounting for the Effects of Pulling-Device Stiffness in the Analyses of Single-Molecule Force Measurements." Physical Review Letters 104, no. 10 (2010).
SE Root, NE Jackson, S Savagatrup, G Arya, and DJ Lipomi. "Modelling the morphology and thermomechanical behaviour of low-bandgap conjugated polymers and bulk heterojunction films." Energy Environ. Sci. 10, no. 2 (2017): 558-569.
G Arya. "Models for recovering the energy landscape of conformational transitions from single-molecule pulling experiments." Molecular Simulation 42, no. 13 (2016): 1102-1115.
J Pajak, and G Arya. "Molecular Dynamics of DNA Translocation by FtsK." Nucleic Acids Research (2022).
AD Migliori, DE Smith, and G Arya. "Molecular interactions and residues involved in force generation in the T4 viral DNA packaging motor." Journal of Molecular Biology 426, no. 24 (2014): 4002-4017.
T Takahashi, BC Vo Ngo, L Xiao, G Arya, and MJ Heller. "Molecular mechanical properties of short-sequence peptide enzyme mimics." Journal of Biomolecular Structure & Dynamics 34, no. 3 (2016): 463-474.
G Arya, and AZ Panagiotopoulos. "Molecular modeling of shear-induced alignment of cylindrical micelles." Computer Physics Communications 169, no. 1-3 (2005): 262-266.
G Arya, H-C Chang, and EJ Maginn. "Molecular Simulations of Knudsen Wall-slip: Effect of Wall Morphology." Molecular Simulation 29, no. 10-11 (2003): 697-709.
OJ Hehmeyer, G Arya, AZ Panagiotopoulos, and I Szleifer. "Monte Carlo simulation and molecular theory of tethered polyelectrolytes." The Journal of Chemical Physics 126, no. 24 (2007): 244902.
G Arya, and AZ Panagiotopoulos. "Monte Carlo study of shear-induced alignment of cylindrical micelles in thin films." Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics 70, no. 3 (2004).
JT Villanueva, Q Huang, NO Fischer, G Arya, and DJ Sirbuly. "Nanofiber-Based Total Internal Reflection Microscopy for Characterizing Colloidal Systems at the Microscale." The Journal of Physical Chemistry C 122, no. 38 (2018): 22114-22124.
J-J Song, R Bhattacharya, H Kim, J Chang, T-Y Tang, H Guo, SK Ghosh, Y Yang, Z Jiang, H Kim et al. "One-Dimensional Anomalous Diffusion of Gold Nanoparticles in a Polymer Melt." Physical Review Letters 122, no. 10 (2019).
BH-J Lee, and G Arya. "Orientational phase behavior of polymer-grafted nanocubes." Nanoscale 11, no. 34 (2019): 15939-15957.
OJ Hehmeyer, G Arya, and AZ Panagiotopoulos. "Phase Transitions of Confined Lattice Homopolymers†." Journal of Physical Chemistry B 108, no. 21 (2004): 6809-6815.
SE Root, S Savagatrup, CJ Pais, G Arya, and DJ Lipomi. "Predicting the Mechanical Properties of Organic Semiconductors Using Coarse-Grained Molecular Dynamics Simulations." Macromolecules 49, no. 7 (2016): 2886-2894.
LI Kioupis, G Arya, and EJ Maginn. "Pressure-enthalpy driven molecular dynamics for thermodynamic property calculation II: applications." Fluid Phase Equilibria 200, no. 1 (2002): 93-110.
Y Yang, Q Lu, C-M Huang, H Qian, Y Zhang, S Deshpande, G Arya, Y Ke, and S Zauscher. "Programmable site-specific functionalization of DNA origami with polynucleotide brushes." Angewandte Chemie International Edition 60, no. 43 (2021): 23241-23247.
D Wang, L Yu, C-M Huang, G Arya, S Chang, and Y Ke. "Programmable Transformations of DNA Origami Made of Small Modular Dynamic Units." J Am Chem Soc 143, no. 5 (2021): 2256-2263.
D Meluzzi, and G Arya. "Quantification of DNA cleavage specificity in Hi-C experiments." Nucleic Acids Research 44, no. 1 (2016): e4.
A Phadke, C Zhang, B Arman, C-C Hsu, RA Mashelkar, AK Lele, MJ Tauber, G Arya, and S Varghese. "Rapid self-healing hydrogels." Proceedings of the National Academy of Sciences of the United States of America 109, no. 12 (2012): 4383-4388.
BH-J Lee, NA Kotov, and G Arya. "Reconfigurable Chirality of DNA-Bridged Nanorod Dimers." Acs Nano (2021).
D Meluzzi, and G Arya. "Recovering ensembles of chromatin conformations from contact probabilities." Nucleic Acids Research 41, no. 1 (2013): 63-75.
V Simões, BK Cizubu, L Harley, Y Zhou, J Pajak, NA Snyder, J Bouvette, MJ Borgnia, G Arya, A Bartesaghi et al. "Redox-sensitive E2 Rad6 controls cellular response to oxidative stress via K63-linked ubiquitination of ribosomes." Cell Reports 39, no. 8 (2022): 110860.
G Arya, and T Schlick. "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, no. 44 (2006): 16236-16241.
B Gao, G Arya, and AR Tao. "Self-orienting nanocubes for the assembly of plasmonic nanojunctions." Nature Nanotechnology 7, no. 7 (2012): 433-437.

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