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arXiv · 1606.05257

DNA brick self-assembly with an off-lattice potential

Aleks Reinhardt·Daan Frenkel
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Abstract

We report Monte Carlo simulations of a simple off-lattice patchy-particle model for DNA `bricks'. We relate the parameters that characterise this model with the binding free energy of pairs of single-stranded DNA molecules. We verify that an off-lattice potential parameterised in this way reproduces much of the behaviour seen with a simpler lattice model we introduced previously, although the relaxation of the geometric constraints leads to a more error-prone self-assembly pathway. We investigate the self-assembly process as a function of the strength of the non-specific interactions. We show that our off-lattice model for DNA bricks results in robust self-assembly into a variety of target structures.

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Aleks Reinhardt, Daan Frenkel. 2016-06-07. DNA brick self-assembly with an off-lattice potential. https://doi.org/10.1039/c6sm01031h

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