Publications

Saha, R., Hayakawa, D., Videbæk, T. E., Price, M., Wei, W.-S., Pombo, J., … Fraden, S. (2025). Modular programming of interaction and geometric specificity enables assembly of complex DNA origami nanostructures. Nature Communications, 16(1), 11392. https://doi.org/10.1038/s41467-025-66195-9

Duke, D., Sterling, S., Teng, T., Altunina, A., Martynenko, I. V., Ke, Y., … Arya, G. (2025). Dynamic DNA superstructures with emergent functions. Nanoscale Horizons, 10(11), 2828–2840. https://doi.org/10.1039/d5nh00436e

Sterling, S., Wei, Y., Arya, G., Castro, C., & Ke, Y. (2025). Emerging Research on Gene Delivery to the Nucleus via DNA Origami. JACS Au, 5(9), 4155–4164. https://doi.org/10.1021/jacsau.5c00737

Wei, W.-S., Videbæk, T. E., Hayakawa, D., Saha, R., Pombo, J., Arya, G., … Fraden, S. (2025). Economical and Versatile Subunit Design Principles for Self-Assembled DNA Origami Structures. ACS Nano, 19(34), 30889–30901. https://doi.org/10.1021/acsnano.5c06681

Callioglu, S., Yang, Q., Shao, Y., Lee, B. H., & Arya, G. (2025). Efficient Monte Carlo Simulation of Faceted Nanoparticles Using Analytical Interaction Potentials. American Chemical Society (ACS). https://doi.org/10.26434/chemrxiv-2025-kwkm7

Dargis, R., Pajak, J., Ariyawansa, P., Morais, M. C., Jardine, P. J., & Arya, G. (2025). Regulation of the ordinal DNA translocation cycle in bacteriophage Φ29 through trans-subunit interactions. Proceedings of the National Academy of Sciences of the United States of America, 122(27), e2504780122. https://doi.org/10.1073/pnas.2504780122

Saha, R., Hayakawa, D., Videbaek, T. E., Price, M., Wei, W.-S., Pombo, J., … Fraden, S. (2025). Modular programming of interaction and geometric specificity enables assembly of complex DNA origami nanostructures.

Kang, M., Lin, P.-A., Bunch, J. A., Lipomi, D. J., Arya, G., & Cohen, S. M. (2025). Impact of Grafting Density on the Assembly and Mechanical Properties of Self-Assembled Metal-Organic Framework Monolayers. Journal of the American Chemical Society, 147(8), 6966–6973. https://doi.org/10.1021/jacs.4c17748

Zhou, Y., Çallıoǧlu, Ş., & Arya, G. (2024). From Frustration to Order: Role of Fluid-Fluid Interfaces in Precision Assembly of Nanoparticles. Langmuir : The ACS Journal of Surfaces and Colloids, 40(51), 26800–26810. https://doi.org/10.1021/acs.langmuir.4c03321

Roozbahani, G. M., Colosi, P. L., Oravecz, A., Sorokina, E. M., Pfeifer, W., Shokri, S., … Castro, C. E. (2024). Piggybacking functionalized DNA nanostructures into live-cell nuclei. Science Advances, 10(27), eadn9423. https://doi.org/10.1126/sciadv.adn9423

Wang, Y., Zhou, Y., Yang, Q., Basak, R., Xie, Y., Le, D., … Tao, A. R. (2024). Self-assembly of nanocrystal checkerboard patterns via non-specific interactions. Nature Communications, 15(1), 3913. https://doi.org/10.1038/s41467-024-47572-2

DeLuca, M., Duke, D., Ye, T., Poirier, M., Ke, Y., Castro, C., & Arya, G. (2024). Mechanism of DNA origami folding elucidated by mesoscopic simulations. Nature Communications, 15(1), 3015. https://doi.org/10.1038/s41467-024-46998-y

Shi, C., Yang, D., Ma, X., Pan, L., Shao, Y., Arya, G., … Wang, P. (2024). A Programmable DNAzyme for the Sensitive Detection of Nucleic Acids. Angewandte Chemie (International Ed. in English), 63(12), e202320179. https://doi.org/10.1002/anie.202320179

DeLuca, M., Sensale, S., Lin, P.-A., & Arya, G. (2024). Prediction and Control in DNA Nanotechnology. ACS Applied Bio Materials, 7(2), 626–645. https://doi.org/10.1021/acsabm.2c01045

Wang, S., Lin, P.-A., DeLuca, M., Zauscher, S., Arya, G., & Ke, Y. (2024). Controlling Silicification on DNA Origami with Polynucleotide Brushes. Journal of the American Chemical Society, 146(1), 358–367. https://doi.org/10.1021/jacs.3c09310

Zhou, Y., Bore, S. L., Tao, A. R., Paesani, F., & Arya, G. (2023). Many-body potential for simulating the self-assembly of polymer-grafted nanoparticles in a polymer matrix. Npj Computational Materials, 9(1). https://doi.org/10.1038/s41524-023-01166-6

Tang, Q., Sensale, S., Bond, C., Xing, J., Qiao, A., Hugelier, S., … Lakadamyali, M. (2023). Interplay between stochastic enzyme activity and microtubule stability drives detyrosination enrichment on microtubule subsets. Current Biology : CB, 33(23), 5169-5184.e8. https://doi.org/10.1016/j.cub.2023.10.068

Yang, Y., Lu, Q., Chen, Y., DeLuca, M., Arya, G., Ke, Y., & Zauscher, S. (2023). Spatiotemporal Control over Polynucleotide Brush Growth on DNA Origami Nanostructures. Angewandte Chemie (International Ed. in English), 62(48), e202311727. https://doi.org/10.1002/anie.202311727

Pfeifer, W. G., Huang, C.-M., Poirier, M. G., Arya, G., & Castro, C. E. (2023). Versatile computer-aided design of free-form DNA nanostructures and assemblies. Science Advances, 9(30), eadi0697. https://doi.org/10.1126/sciadv.adi0697

Wang, Y., Sensale, S., Pedrozo, M., Huang, C.-M., Poirier, M. G., Arya, G., & Castro, C. E. (2023). Steric Communication between Dynamic Components on DNA Nanodevices. ACS Nano, 17(9), 8271–8280. https://doi.org/10.1021/acsnano.2c12455

DeLuca, M., Pfeifer, W. G., Randoing, B., Huang, C.-M., Poirier, M. G., Castro, C. E., & Arya, G. (2023). Thermally reversible pattern formation in arrays of molecular rotors. Nanoscale, 15(18), 8356–8365. https://doi.org/10.1039/d2nr05813h

Zhou, Y., & Arya, G. (2022). Discovery of two-dimensional binary nanoparticle superlattices using global Monte Carlo optimization. Nature Communications, 13(1), 7976. https://doi.org/10.1038/s41467-022-35690-8

Zhou, C., Yang, D., Sensale, S., Sharma, P., Wang, D., Yu, L., … Wang, P. (2022). A bistable and reconfigurable molecular system with encodable bonds. Science Advances, 8(46), eade3003. https://doi.org/10.1126/sciadv.ade3003

Barcus, K., Lin, P.-A., Zhou, Y., Arya, G., & Cohen, S. M. (2022). Influence of Polymer Characteristics on the Self-Assembly of Polymer-Grafted Metal-Organic Framework Particles. ACS Nano, 16(11), 18168–18177. https://doi.org/10.1021/acsnano.2c05175

Pajak, J., & Arya, G. (2022). Molecular dynamics of DNA translocation by FtsK. Nucleic Acids Research, 50(15), 8459–8470. https://doi.org/10.1093/nar/gkac668