Publications

Iyer, B. V. S., & Arya, G. (2012). Lattice animal model of chromosome organization. Physical Review E Statistical Nonlinear and Soft Matter Physics, 86(1). https://doi.org/10.1103/PhysRevE.86.011911

Gao, B., Arya, G., & Tao, A. R. (2012). Self-orienting nanocubes for the assembly of plasmonic nanojunctions. Nature Nanotechnology, 7(7), 433–437. https://doi.org/10.1038/nnano.2012.83

Arman, B., Reddy, A. S., & Arya, G. (2012). Viscoelastic properties and shock response of coarse-grained models of multiblock versus diblock copolymers: Insights into dissipative properties of polyurea. Macromolecules, 45(7), 3247–3255. https://doi.org/10.1021/ma3001934

Phadke, A., Zhang, C., Arman, B., Hsu, C.-C., Mashelkar, R. A., Lele, A. K., … Varghese, S. (2012). Rapid self-healing hydrogels. Proc Natl Acad Sci U S A, 109(12), 4383–4388. https://doi.org/10.1073/pnas.1201122109

Meluzzi, D., Olson, K. E., Dolan, G. F., Arya, G., & Müller, U. F. (2012). Computational prediction of efficient splice sites for trans-splicing ribozymes. RNA (New York, N.Y.), 18(3), 590–602. https://doi.org/10.1261/rna.029884.111

Ayala, R., Zhang, C., Yang, D., Hwang, Y., Aung, A., Shroff, S. S., … Varghese, S. (2011). Engineering the cell-material interface for controlling stem cell adhesion, migration, and differentiation. Biomaterials, 32(15), 3700–3711. https://doi.org/10.1016/j.biomaterials.2011.02.004

Iyer, B. V., Kenward, M., & Arya, G. (2011). Hierarchies in eukaryotic genome organization: Insights from polymer theory and simulations. BMC Biophysics, 4, 8. https://doi.org/10.1186/2046-1682-4-8

Maitra, A., & Arya, G. (2011). Influence of pulling handles and device stiffness in single-molecule force spectroscopy. Physical Chemistry Chemical Physics : PCCP, 13(5), 1836–1842. https://doi.org/10.1039/c0cp01528h

Yang, D., & Arya, G. (2011). Structure and binding of the H4 histone tail and the effects of lysine 16 acetylation. Physical Chemistry Chemical Physics : PCCP, 13(7), 2911–2921. https://doi.org/10.1039/c0cp01487g

Lim, H. L., Chuang, J. C., Tran, T., Aung, A., Arya, G., & Varghese, S. (2011). Dynamic Electromechanical Hydrogel Matrices for Stem Cell Culture. Adv Funct Mater, 21(1). https://doi.org/10.1002/adfm.201001519

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