Publications

Found 89 results

]

2018

S-W Hsu, AL Rodarte, M Som, G Arya, and AR Tao. "Colloidal Plasmonic Nanocomposites: From Fabrication to Optical Function." Chemical Reviews 118, no. 6 (2018): 3100-3120.

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.

S Kilic, S Felekyan, O Doroshenko, I Boichenko, M Dimura, H Vardanyan, LC Bryan, G Arya, CAM Seidel, and B Fierz. "Single-molecule FRET reveals multiscale chromatin dynamics modulated by HP1α." Nature Communications 9, no. 1 (2018).

2017

T-Y Tang, and G Arya. "Anisotropic Three-Particle Interactions between Spherical Polymer-Grafted Nanoparticles in a Polymer Matrix." Macromolecules 50, no. 3 (2017): 1167-1183.

Z Shi, CE Castro, and G Arya. "Conformational Dynamics of Mechanically Compliant DNA Nanostructures from Coarse-Grained Molecular Dynamics Simulations." Acs Nano 11, no. 5 (2017): 4617-4630.

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.

2016

CR Murthy, B Gao, AR Tao, and G Arya. "Dynamics of nanoparticle assembly from disjointed images of nanoparticle-polymer composites." Physical Review. E 93, no. 2 (2016).

G-M Nam, and G Arya. "Free-energy landscape of mono- and dinucleosomes: Enhanced rotational flexibility of interconnected nucleosomes." Physical Review. E 93, no. 3 (2016).

AV Zaretski, SE Root, A Savchenko, E Molokanova, AD Printz, L Jibril, G Arya, M Mercola, and DJ Lipomi. "Metallic Nanoislands on Graphene as Highly Sensitive Transducers of Mechanical, Biological, and Optical Signals." Nano Letters 16, no. 2 (2016): 1375-1380.

G Arya. "Models for recovering the energy landscape of conformational transitions from single-molecule pulling experiments." Molecular Simulation 42, no. 13 (2016): 1102-1115.

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.

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.

D Meluzzi, and G Arya. "Quantification of DNA cleavage specificity in Hi-C experiments." Nucleic Acids Research 44, no. 1 (2016): e4.

MY Hamed, and G Arya. "Zinc finger protein binding to DNA: an energy perspective using molecular dynamics simulation and free energy calculations on mutants of both zinc finger domains and their specific DNA bases." Journal of Biomolecular Structure & Dynamics 34, no. 5 (2016): 919-934.

2015

CR Murthy, B Gao, AR Tao, and G Arya. "Automated quantitative image analysis of nanoparticle assembly." Nanoscale 7, no. 21 (2015): 9793-9805.

H Kabra, Y Hwang, HL Lim, M Kar, G Arya, and S Varghese. "Biomimetic Material-Assisted Delivery of Human Embryonic Stem Cell Derivatives for Enhanced In Vivo Survival and Engraftment." Acs Biomaterials Science & Engineering 1, no. 1 (2015): 7-12.

KL Gurunatha, S Marvi, G Arya, and AR Tao. "Computationally Guided Assembly of Oriented Nanocubes by Modulating Grafted Polymer–Surface Interactions." Nano Letters 15, no. 11 (2015): 7377-7382.

D Meluzzi, and G Arya. "Efficient estimation of contact probabilities from inter-bead distance distributions in simulated polymer chains." Journal of Physics. Condensed Matter : an Institute of Physics Journal 27, no. 6 (2015): 064120.

VV Singh, K Kaufmann, J Orozco, J Li, M Galarnyk, G Arya, and J Wang. "Micromotor-based on–off fluorescence detection of sarin and soman simulants." Chemical Communications 51, no. 56 (2015): 11190-11193.

GD Hattemer, and G Arya. "Viscoelastic Properties of Polymer-Grafted Nanoparticle Composites from Molecular Dynamics Simulations." Macromolecules 48, no. 4 (2015): 1240-1255.

2014

AD Migliori, N Keller, TI Alam, M Mahalingam, VB Rao, G Arya, and DE Smith. "Evidence for an electrostatic mechanism of force generation by the bacteriophage T4 DNA packaging motor." Nature Communications 5 (2014).

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.

V Agrawal, G Arya, and J Oswald. "Simultaneous Iterative Boltzmann Inversion for Coarse-Graining of Polyurea." Macromolecules 47, no. 10 (2014): 3378-3389.

G-M Nam, and G Arya. "Torsional behavior of chromatin is modulated by rotational phasing of nucleosomes." Nucleic Acids Research 42, no. 15 (2014): 9691-9699.

2013

SI Walker, BJ Callahan, G Arya, JD Barry, T Bhattacharya, S Grigoryev, M Pellegrini, K Rippe, and SM Rosenberg. "Evolutionary dynamics and information hierarchies in biological systems." Annals of the New York Academy of Sciences 1305, no. 1 (2013): 1-17.

Pages