A coding framework for DNA self-assembly

This paper proposes a novel framework in which DNA self-assembly can be analyzed for error detection/location. The proposed framework relies on coding and mapping functions that allow to establish the presence of erroneous bonded tiles based on the pattern to be assembled (as defined by the tile set) and its current aggregate. As a widely used pattern and instantiation of this process, the Sierpinski Triangle self-assembly is analyzed in detail. Different properties are proposed and shown to be applicable for tile error detection/correction. Simulation results are presented to show the application of the proposed coding framework to the Sierpinski Triangle self-assembly for nano-manufacturing.