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2024 | OriginalPaper | Chapter

DNA Self-assembly: Friendship Graphs

Authors : Leyda Almodóvar, Emily Brady, Michaela Fitzgerald, Hsin-Hao Su, Heiko Todt

Published in: Combinatorics, Graph Theory and Computing

Publisher: Springer Nature Switzerland

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Abstract

Based on the flexible tile method for DNA self-assembly, we find a collection of tiles that will construct a nanostructure shaped like a friendship graph or a dumbbell-friendship graph. We find the minimum number of tile and bond-edge types required to construct these graphs in three different scenarios representing distinct levels of laboratory constraints.

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previous chapter Möbius Book Embeddings
next chapter The Pansophy of Semi Directed Graphs
Literature
1.
Pelesko, John A: Self assembly: the science of things that put themselves together. Chapman and Hall/CRC (2007)
2.
Seeman, Nadrian C: An overview of structural DNA nanotechnology. Molecular biotechnology vol. 37(3), pp. 246. Springer (2007)
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Chen, Junghuei and Seeman, Nadrian C: Synthesis from DNA of a molecule with the connectivity of a cube. Nature, vol. 350(6319) pp. 631–633. Springer (1991)
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Jonoska, Natasa and Karl, Stephen A and Saito, Masahico: Three dimensional DNA structures in computing. BioSystems, vol. 52, pp. 143–153. Elsevier (1999)
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Jonoska, Natasa and McColm, Gregory L and Staninska, Ana: Spectrum of a pot for DNA complexes. International Workshop on DNA-Based Computers, pp. 83–94. Springer (2006)
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Almodóvar, Leyda and Mauro, Samantha and Martin, Sydney and Todt, Heiko: Minimal tile and bond-edge types for self-assembling DNA graphs of triangular lattice graphs. Congressus Numeratium vol. 232, pp. 241–263. (2019)
7.
Almodóvar, Leyda and Ellis-Monaghan, Jo and Harsy, Amanda and Johnson, Cory and Sorrells, Jessica: Computational complexity and pragmatic solutions for flexible tile based DNA self-assembly. arXiv preprint arXiv:2108.00035 (2021)
8.
Ellis-Monaghan, Jo and Pangborn, Greta and Beaudin, Laura and Miller, David and Bruno, Nick and Hashimoto, Akie: Minimal tile and bond-edge types for self-assembling DNA graphs. Discrete and Topological Models in Molecular Biology, pp. 241–270. Springer (2014)
9.
P. Erdős, A. Rényi and V. Sós, On a problem of graph theory, Studia Sci. Math. Hungar., 1 (19661), 215–235.
Metadata
Title
DNA Self-assembly: Friendship Graphs
Authors
Leyda Almodóvar
Emily Brady
Michaela Fitzgerald
Hsin-Hao Su
Heiko Todt
Copyright Year
2024
Book
Combinatorics, Graph Theory and Computing

Print ISBN: 978-3-031-62165-9

Electronic ISBN: 978-3-031-62166-6

Copyright Year: 2024

DOI
https://doi.org/10.1007/978-3-031-62166-6_27

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