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Updated: Dec 17, 2025

Self-assembly of Complex Two-dimensional Shapes from Single-stranded DNA Tiles
Published on: May 8, 2015
Simulations of the 2D self-assembly of tripod-shaped building blocks
Łukasz Baran1, Wojciech Rżysko1, Edyta Słyk1
1Department for Theoretical Chemistry, Institute of Chemical Sciences, Faculty of Chemistry, Maria Curie-Sklodowska University in Lublin, Poland.
Abstract:
We introduce a molecular dynamics (MD) coarse-grained model for the description of tripod building blocks. This model has been used by us already for linear, V-shape, and tetratopic molecules. We wanted to further extend its possibilities to trifunctional molecules to prove its versatility. For the chosen systems we have also compared the MD results with Monte Carlo results on a triangular lattice. We have shown that the constraints present in the latter method can enforce the formation of completely different structures, not reproducible with off-lattice simulations. In addition to that, we have characterized the obtained structures regarding various parameters such as theoretical diffraction pattern and average association number.
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