Abstract
AbstractFrom a programming perspective, DNA is stunningly simple: a string of bits coding two types of interactions. The specific chemical form of DNA given to us by evolution imposes significant constraints on what is possible with DNA nanotechnology. In this paper, I propose three designs for new digital DNA-like polymers that retain the essential information-bearing properties of DNA while enabling functions not achievable with DNA such as greater stability, programmability, and precision.
Publisher
Springer Nature Singapore
Reference58 articles.
1. D. Doty, B.L. Lee, T.S. Stérin, in A Browser-Based, Scriptable Tool for Designing DNA Nanostructures. eds. C. Geary, M.J. Patitz, 26th International Conference on DNA Computing and Molecular Programming (DNA 26) [Internet]. Dagstuhl, Germany: Schloss Dagstuhl–Leibniz-Zentrum für Informatik; 2020 [cited 2021 Nov 22]. pp. 9:1–9:17. (Leibniz International Proceedings in Informatics (LIPIcs); vol. 174). Available from: https://drops.dagstuhl.de/opus/volltexte/2020/12962
2. S. Badelt, C. Grun, K.V. Sarma, B. Wolfe, S.W. Shin, E. Winfree, A domain-level DNA strand displacement reaction enumerator allowing arbitrary non-pseudoknotted secondary structures. J. R. Soc. Interface 17(167), 20190866 (2020)
3. C.-M. Huang, A. Kucinic, J.A. Johnson, H.-J. Su, C.E. Castro, Integrated computer-aided engineering and design for DNA assemblies. Nat. Mater. 20(9), 1264–1271 (2021)
4. J.N. Zadeh, C.D. Steenberg, J.S. Bois, B.R. Wolfe, M.B. Pierce, A.R. Khan, R.M. Dirks, N.A. Pierce, NUPACK: analysis and design of nucleic acid systems. J. Comput. Chem. 32(1), 170–173 (2011)
5. E. Poppleton, R. Romero, A. Mallya, L. Rovigatti, P. Šulc, OxDNA.org: a public webserver for coarse-grained simulations of DNA and RNA nanostructures. Nucleic Acids Res. 49(W1), W491–8 (2021)