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- David Doty, Jack H. Lutz, Matthew J. Patitz, Robert T. Schweller, Scott M. Summers, Damien Woods
- 2012 IEEE 53rd Annual Symposium on Foundations of…
- 2012

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. The simulation is "intrinsic" in the sense that the self-assembly process carried out by U is exactly that carried out by… (More)

- Sarah Cannon, Erik D. Demaine, +5 authors Andrew Winslow
- ArXiv
- 2012

We study the difference between the standard seeded model of tile self-assembly, and the " seedless " two-handed model of tile self-assembly. Most of our results suggest that the two-handed model is more powerful. In particular, we show how to simulate any seeded system with a two-handed system that is essentially just a constant factor larger. We exhibit… (More)

- David Doty, Matthew J. Patitz, Dustin Reishus, Robert T. Schweller, Scott M. Summers
- 2010 IEEE 51st Annual Symposium on Foundations of…
- 2010

We consider the problem of fault-tolerance in nanoscale algorithmic self-assembly. We employ a standard variant of Winfree’s abstract Tile Assembly Model (aTAM), the two-handed aTAM, in which square “tiles” – a model of molecules constructed from DNA for the purpose of engineering self-assembled nanostructures –… (More)

In this paper we explore the power of geometry to overcome the limitations of non-cooperative self-assembly. We define a generalization of the abstract Tile Assembly Model (aTAM), such that a tile system consists of a collection of polyomino tiles, the Polyomino Tile Assembly Model (polyTAM), and investigate the computational powers of polyTAM systems at… (More)

- Tyler Fochtman, Jacob Hendricks, Jennifer E. Padilla, Matthew J. Patitz, Trent A. Rogers
- Natural Computing
- 2013

The 2-handed assembly model (2HAM) is a tile-based self-assembly model in which, typically beginning from single tiles, arbitrarily large aggregations of static tiles combine in pairs to form structures. The signal-passing tile assembly model (STAM) is an extension of the 2HAM in which the tiles are dynamically changing components which are able to alter… (More)

- Jacob Hendricks, Matthew J. Patitz
- MCU
- 2013

In this paper, we explore relationships between two models of systems which are governed by only the local interactions of large collections of simple components: cellular automata (CA) and the abstract Tile Assembly Model (aTAM). While sharing several similarities, the models have fundamental differences, most notably the dynamic nature of CA (in which… (More)

- James I. Lathrop, Jack H. Lutz, Matthew J. Patitz, Scott M. Summers
- Theory of Computing Systems
- 2008

This paper explores the impact of geometry on computability and complexity in Winfree’s model of nanoscale self-assembly. We work in the two-dimensional tile assembly model, i.e., in the discrete Euclidean plane ℤ×ℤ. Our first main theorem says that there is a roughly quadratic function f such that a set A⊆ℤ+ is computably enumerable if and only if the set… (More)

- David Doty, Matthew J. Patitz, Scott M. Summers
- Theor. Comput. Sci.
- 2011

We prove that if a set X ⊆ Z 2 weakly self-assembles at temperature 1 in a deterministic (Winfree) tile assembly system satisfying a natural condition known as pumpability, then X is a semilinear set. This shows that only the most simple of infinite shapes and patterns can be constructed using pumpable temperature 1 tile assembly systems, and gives evidence… (More)

- Erik D. Demaine, Matthew J. Patitz, Trent A. Rogers, Robert T. Schweller, Scott M. Summers, Damien Woods
- Algorithmica
- 2013

The Two-Handed Tile Assembly Model (2HAM) is a model of algorithmic self-assembly in which large structures, or assemblies of tiles, are grown by the binding of smaller assemblies. In order to bind, two assemblies must have matching glues that can simultaneously touch each other, and stick together with strength that is at least the temperature $$\tau $$ τ… (More)