Related papers: Verification in Staged Tile Self-Assembly

When writing programs involving matrices or tensors in general, it is desirable to rule out the inconsistency of tensor shapes (i.e., the generalization of matrix sizes) before actual computation. For this purpose, some languages provide…

Given an $\mathcal{H}$-polytope $P$ and a $\mathcal{V}$-polytope $Q$, the decision problem whether $P$ is contained in $Q$ is co-NP-complete. This hardness remains if $P$ is restricted to be a standard cube and $Q$ is restricted to be the…

The constraint satisfaction problem (CSP) involves deciding, given a set of variables and a set of constraints on the variables, whether or not there is an assignment to the variables satisfying all of the constraints. One formulation of…

Winfree's abstract Tile Assembly Model (aTAM) is a model of molecular self-assembly of DNA complexes known as tiles, which float freely in solution and attach one at a time to a growing "seed" assembly based on specific binding sites on…

We investigate a fundamental question regarding a benchmark class of shapes in one of the simplest, yet most widely utilized abstract models of algorithmic tile self-assembly. Specifically, we study the directed tile complexity of a $k…

We develop a new symbolic-numeric algorithm for the certification of singular isolated points, using their associated local ring structure and certified numerical computations. An improvement of an existing method to compute inverse systems…

We present a strict separation between the class of "mismatch free" self-assembly systems and general aTAM systems. Mismatch free systems are those systems in which concurrently grown parts must always agree with each other. Tile…

We analyze the number of tile types $t$, bins $b$, and stages necessary to assemble $n \times n$ squares and scaled shapes in the staged tile assembly model. For $n \times n$ squares, we prove $\mathcal{O}(\frac{\log{n} - tb - t\log t}{b^2}…

We prove a Pumping Lemma for the noncooperative abstract Tile Assembly Model, a model central to the theory of algorithmic self-assembly since the beginning of the field. This theory suggests, and our result proves, that small differences…

We study radial symmetric point defects with degree $\frac {k}{2}$ in 2D disk or $\mathbb{R}^2$ in $Q$-tensor framework with singular bulk energy, which is defined by Bingham closure. First, we obtain the existence of solutions for the…

We prove that the abstract Tile Assembly Model (aTAM) of nanoscale self-assembly is intrinsically universal. This means that there is a single tile assembly system U that, with proper initialization, simulates any tile assembly system T.…

Both biological and artificial self-assembly processes can take place by a range of different schemes, from the successive addition of identical building blocks, to hierarchical sequences of intermediates, all the way to the fully…

We show how to design a universal shape replicator in a self-assembly system with both attractive and repulsive forces. More precisely, we show that there is a universal set of constant-size objects that, when added to any unknown hole-free…

We present a quantitative measure of physical complexity, based on the amount of information required to build a given physical structure through self-assembly. Our procedure can be adapted to any given geometry, and thus to any given type…

We prove a result which strongly hints at the computational weakness of a model of tile assembly that has so far resisted many attempts of formal analysis or positive constructions. Specifically, we prove that, in Winfree's abstract Tile…

The design of irregular planar phased arrays (PAs) characterized by a highly-modular architecture is addressed. By exploiting the property of self-replicating tile shapes, also known as rep-tiles, the arising array layouts consist of tiles…

Winfree (1998) showed that discrete Sierpinski triangles can self-assemble in the Tile Assembly Model. A striking molecular realization of this self-assembly, using DNA tiles a few nanometers long and verifying the results by atomic-force…

Let $\mathcal C$ be a real plane algebraic curve defined by the resultant of two polynomials (resp. by the discriminant of a polynomial). Geometrically such a curve is the projection of the intersection of the surfaces $P(x,y,z)=Q(x,y,z)=0$…

Patterned self-assembly tile set synthesis (PATS) aims at finding a minimum tile set to uniquely self-assemble a given rectangular color pattern. For $k \ge 1$, $k$-PATS is a variant of PATS that restricts input patterns to those with at…

We explore the use of templated self-assembly to facilitate the formation of complex target structures made from patchy particles. First, we consider the templating of high-symmetry shell structures around a spherical core particle. We find…