Publications

PUBLICATIONS

Published Work

Research articles, reviews, book chapters, patents, and preprints.

• Equal contribution  ·  † Corresponding author

Submitted + Preprints

Yilmaz, B., Jaffe, M., Wang, M., Singh, V.R., Woloszyn, K., Canary, J.W., Ohayon, Y.P., Vecchioni, S.†, Sha, R.† ChemRxiv · 2025 · Preprint DNA Chalk: Calcium Carbonate Functionalized 3D DNA Crystals for Responsive Materials.

Wang, M., Horvath, A., Woloszyn, K., Singh, V.R., Klingsberg, J., Rizk, J.A., Canary, J.W., Ohayon, Y.P., Vecchioni, S.†, Sha, R.† ChemRxiv · 2025 · Preprint Shape Shifting Crystals: Encoded Single-Stranded DNA for 3D Signal Propagation.

Horvath, A., Woloszyn, K., Rizk, J.A., Wang, M., Rueb, J., Perren, L., Jaffe, M., Mao, C., Ohayon, Y.P., Canary, J.W., Jonoska, N., Vecchioni, S.†, Sha, R.† ChemRxiv · 2025 · Preprint Topology-Based Lattice Engineering in Condensed Soft Matter.

Vecchioni, S.†, Singh, P., De, A., Chapa, M., Singh, V.R., Woloszyn, K., Liu, R., Liu, B., Yang, C.-F., Ohayon, Y.P., Sha, R., Canary, J.W., Hihath, J., Anantram, M.P., Botana, A.S. ChemRxiv · 2025 · Review preprint Topological Matter: A Unified Perspective on Real and Momentum Space.

Published Works

Perren, L., Livernois, W., Woloszyn, K., Janowski, J., Faiaz, L., Singh, V.R., Jaffe, M., Mao, C., Canary, J.W., Ohayon, Y.P., Sha, R., Anantram, M.P., Vecchioni, S.† Science Advances · 2026 · In press Topology-Enforced Synthesis of Atomically-Precise Silver Nanoclusters in 3D DNA Lattices.

Woloszyn, K., Horvath, A., Jaffe, M., Perren, L., Rueb, J., Mahiba, S., Jonoska, N., Ohayon, Y.P., Canary, J.W., Vecchioni, S.†, Sha, R.† Nature Communications · 2026 · 17 · 3136 Blunt-Force Assembly of Programmable DNA Architectures Using π–π Stacking.

Liu, B., Lu, B., De, A., Kim, K., Perren, L., Woloszyn, K., Petrova, G., Li, R., Yang, C.-F., Mao, C., Botana, A.S., Ohayon, Y.P., Canary, J.W., Sha, R., Anantram, M.P., Vecchioni, S.†, Hihath, J.† Matter · 2026 · 9(1) · 102470 Electrical Control of a Metal-Mediated DNA Memory.

Al-Zarah, H., Singh, V.R., Woloszyn, K., Perren, L., Klingsberg, J., Posnjak, G., Liedl, T., Mandal, T., Mao, C., Hihath, J., Ohayon, Y.P., Canary, J.W., Habuchi, S., Sha, R.†, Vecchioni, S.† Angewandte Chemie International Edition · 2026 · 65(1) · e16745 · HOT Paper DNA Glass: Encasing Diffraction-Quality, Mesoporous DNA Crystals in Architected Silica.

Lingala, S., Fisiuk, A., Stephen, M., Mohanrao, R., Klingsberg, J., Vecchioni, S., Volvovitz, E.S., Rozhkov, S., Mallikaratchy, P. ACS Omega · 2025 · 10(39) · 45113–45123 Modification of Deoxyribonucleic Acid with Indole-Linked Nucleotides Induces BZ- and Z-Conformation and Alters Its Sensitivity to Enzymatic Cleavage.

De, A., Lu, B., Ohayon, Y.P., Woloszyn, K., Livernois, W., Perren, L., Yang, C.-F., Mao, C., Botana, A.S., Hihath, J., Canary, J.W., Sha, R., Anantram, M.P.†, Vecchioni, S.† Small · 2025 · 21(25) · 2411518 Transmetalation for DNA-Based Molecular Electronics.

Chen, X., Fu, P., Woloszyn, K., Zhang, Y., Hu, H., Hou, L., Li, X., Liu, J., Jiang, W., Wang, L., Vecchioni, S., Ohayon, Y.P., Sha, R., Zheng, J., Zhou, F. JACS · 2025 · 147(14) · 11915–11924 Precision Self-Assembly of 3D DNA Crystals Using Microfluidics.

Vecchioni, S.†, Lo, R., Huang, Q., Wang, K., Ohayon, Y.P., Sha, R., Rothschild, L.J., Wind, S.J. Small · 2025 · 21(3) · 2407604 Silver(I)-Mediated 2D DNA Nanostructures.

Vecchioni, S., Ohayon, Y.P., Hernandez, C., Hoshika, S., Mao, C., Benner, S.A., Sha, R. Nano Letters · 2024 · 24(45) · 14302–14306 Six-Letter DNA Nanotechnology: Incorporation of Z-P Base Pairs into Self-Assembling 3D Crystals.

Hihath, J., Vecchioni, S. US Provisional Patent Application · 2024 · 63/726,895 Electrical Control of Metalated DNA.

Hihath, J., Vecchioni, S., et al. US Provisional Patent Application · 2024 · 63/726,906 pH Controllable DNA-Based Electronic Devices.

Janowski, J., Pham, V.A.B., Vecchioni, S.*, Woloszyn, K., Lu, B., Zou, Y., Erkalo, B., Perren, L., Rueb, J., Madnick, J., Mao, C., Saito, M., Ohayon, Y.P., Jonoska, N., Sha, R. PNAS · 2024 · 121(19) · e2321992121 Engineering Tertiary Chirality in Helical Biopolymers.

Huang, Q., Kim, J., Wang, K., Vecchioni, S., Ohayon, Y.P., Seeman, N.C., Jonoska, N., Sha, R. Nano Letters · 2023 · 23(16) · 7593–7598 Environmentally Controlled Oscillator with Triplex Guided Displacement of DNA Duplexes.

Lu, B., Ohayon, Y.P., Woloszyn, K., Yang, C.-F., Yoder, J.B., Rothschild, L.J., Wind, S.J., Hendrickson, W.A., Mao, C., Seeman, N.C., Canary, J.W., Sha, R., Vecchioni, S.† JACS · 2023 · 145(32) · 17945–17953 Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.

Vecchioni, S.†, Sha, R., Ohayon, Y.P. Visions of DNA Nanotechnology at 40 for the Next 40 · Springer · 2023 · 3–15 Beyond Watson-Crick: The Next 40 Years of Semantomorphic Science.

Vecchioni, S.†, Lu, B., Livernois, W., Ohayon, Y.P., Yoder, J.B., Yang, C.-F., Woloszyn, K., Bernfeld, W., Anantram, M.P., Canary, J.W., Hendrickson, W.A., Rothschild, L.J., Mao, C., Wind, S.J., Seeman, N.C., Sha, R.† Advanced Materials · 2023 · 35(29) · 2210938 Metal-Mediated DNA Nanotechnology in 3D: Structural Library by Templated Diffraction.

Zhao, Y., Chandrasekaran, A.R., Rusling, D.A., Woloszyn, K., Hao, Y., Hernandez, C., Vecchioni, S., Ohayon, Y.P., Mao, C., Seeman, N.C., Sha, R. JACS · 2023 · 145(6) · 3599–3605 The Formation and Displacement of Ordered DNA Triplexes in Self-Assembled Three-Dimensional DNA Crystals.

Wang, T., Bai, T., Tan, Z., Ohayon, Y.P., Sha, R., Vecchioni, S., Seeman, N.C., Wei, B. JACS · 2023 · 145(4) · 2455–2460 Mesojunction-Based Design Paradigm of Structural DNA Nanotechnology.

Vecchioni, S., Lu, B., Janowski, J., Woloszyn, K., Jonoska, N., Seeman, N.C., Mao, C., Ohayon, Y.P., Sha, R. Small · 2023 · 19(12) · 2206511 The Rule of Thirds: Controlling Junction Chirality and Polarity in 3D DNA Tiles.

Lu, B., Woloszyn, K., Ohayon, Y.P., Yang, B., Zhang, C., Mao, C., Seeman, N.C., Vecchioni, S., Sha, R. Angewandte Chemie International Edition · 2023 · 62(6) · e202213451 Programmable 3D Hexagonal Geometry of DNA Tensegrity Triangles.

Lu, B., Vecchioni, S., Ohayon, Y.P., Woloszyn, K., Markus, T., Mao, C., Seeman, N.C., Canary, J.W., Sha, R. Small · 2023 · 19(3) · e2205830 Highly Symmetric, Self-Assembling 3D DNA Crystals with Cubic and Trigonal Lattices.

Vecchioni, S., Sha, R., Seeman, N.C., Rothschild, L.J., Wind, S.J. J. Self-Assembly and Molecular Electronics · 2022 · 17–76 DNA by Design: De novo Computational Framework for DNA Sequence Design and Nanotechnology.

Woloszyn, K., Vecchioni, S., Ohayon, Y.P., Lu, B., Ma, Y., Huang, Q., Zhu, E., Chernovolenko, D., Markus, T., Jonoska, N., Mao, C., Seeman, N.C., Sha, R. Advanced Materials · 2022 · 34(49) · 2206876 · Journal Frontpiece Augmented DNA Nanoarchitectures: A Structural Library of 3D Self-Assembling Tensegrity Triangle Variants.

Lu, B., Vecchioni, S., Ohayon, Y.P., Canary, J.W., Sha, R. Biophysical Journal · 2022 · 121(24) · 4759–4765 · Journal Cover The Wending Rhombus: Self-Assembling 3D DNA Crystals.

Zhang, C., Zheng, M., Ohayon, Y.P., Vecchioni, S., Sha, R., Seeman, N.C., Jonoska, N., Mao, C. JACS · 2022 · 144(19) · 8741–8745 Programming DNA Self-Assembly by Geometry.

Wang, W., Chen, C., Vecchioni, S., Zhang, T., Wu, C., Ohayon, Y.P., Sha, R., Seeman, N.C., Wei, B. Angewandte Chemie International Edition · 2021 · 60(49) · 25781–25786 Reconfigurable Two-Dimensional DNA Lattices: Static and Dynamic Angle Control.

Lu, B., Vecchioni, S., Ohayon, Y.P., Sha, R., Woloszyn, K., Yang, B., Mao, C., Seeman, N.C. ACS Nano · 2021 · 15(10) · 16788–16793 3D Hexagonal Arrangement of DNA Tensegrity Triangles.

Vecchioni, S. Columbia University · 2019 · Doctoral dissertation Biological Nanowires: Integration of the Silver(I) Base Pair into DNA with Nanotechnological and Synthetic Biological Applications.

Vecchioni, S., Capece, M.C., Toomey, E.*, Nguyen, L., Ray, A., Greenberg, A., Fujishima, K., Urbina, J., Paulino-Lima, I.G., Pinheiro, V., Shih, J., Wessel, G., Wind, S.J., Rothschild, L.J. Scientific Reports · 2019 · 9 · 6942 Construction and Characterization of Metal Ion-Containing DNA Nanowires for Synthetic Biology and Nanotechnology.

Vecchioni, S., Capece, M.C., Toomey, E., Rothschild, L.J., Wind, S.J. J. Self-Assembly and Molecular Electronics · 2018 · 6 · 61–90 Methods of Synthesis and Characterization of Conductive DNA Nanowires Based on Metal Ion-Mediated Base Pairing for Single-Molecule Electronics.

Vecchioni, S., Wind, S.J. US Patent Application US20170294608A1 · 2017 Self-Assembled, Electronically-Functional Nucleic Acid Nanostructures and Networks Based on the Use of Orthogonal Base Pairs.

Toomey, E., Xu, J., Vecchioni, S., Rothschild, L.J., Wind, S.J., Fernandes, G.E. J. Phys. Chem. C · 2016 · 120(14) · 7804–7809 Comparison of Canonical versus Silver(I)-Mediated Base-Pairing on Single Molecule Conductance in Polycytosine dsDNA.