title: DNA brick self-assembly with an off-lattice potential.
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.
authors.affiliation: Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK. ar732@cam.ac.uk df246@cam.ac.uk.
authors.forename: Aleks
authors.initials: A
authors.lastname: Reinhardt
authors.affiliation: Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK. ar732@cam.ac.uk df246@cam.ac.uk.
authors.forename: Daan
authors.initials: D
authors.lastname: Frenkel
mesh_terms: D004247:DNA / Q000737:chemistry*; D004277:DNA, Single-Stranded / Q000737:chemistry*; D009010:Monte Carlo Method
chemical_list: D004277:DNA, Single-Stranded; D004247:DNA