Related papers: Reducing Tile Complexity for the Self-Assembly of …
In this paper, we introduce the following problem in the theory of algorithmic self-assembly: given an input shape as the seed of a tile-based self-assembly system, design a finite tile set that can, in some sense, uniquely identify whether…
The fabrication of versatile building blocks that are reliably self-assemble into desired ordered and disordered phases is amongst the hottest topics in contemporary material science. To this end, microscopic units of varying complexity,…
Obtaining a rigorous and reliable method for linking computer simulations of polymer blends and composites at different length scales of interest is a highly desirable goal in soft matter physics. In this paper a multiscale modeling…
A particular, two-dimensional, tiling model, composed by the so called Wang tiles has been studied at finite temperature by Monte Carlo numerical simulations. In absence of any thermal bath the Wang tiles give the opportunity of building a…
We consider non cooperative binding in so called `temperature 1', in deterministic (here called {\it confluent}) tile self-assembly systems (1-TAS) and prove the standing conjecture that such systems do not have universal computational…
Temperature scaling is a simple method that allows to control the uncertainty of probabilistic models. It is mostly used in two contexts: improving the calibration of classifiers and tuning the stochasticity of large language models (LLMs).…
Is Winfree's abstract Tile Assembly Model (aTAM) "powerful?" Well, if certain tiles are required to "cooperate" in order to be able to bind to a growing tile assembly (a.k.a., temperature 2 self-assembly), then Turing universal computation…
This study develops a novel multiscale computational method for heat conduction problems of composite structures with diverse periodic configurations in different subdomains. Firstly, the second-order two-scale (SOTS) solutions for these…
The design space for a self-assembled multicomponent objects ranges from a solution in which every building block is unique to one with the minimum number of distinct building blocks that unambiguously define the target structure. Using a…
We propose a new and effective means for designing stable and fast-folding polypeptide sequences using a cumulant expansion of the molecular partition function. This method is unique in that $T_{Z}$, the ``cumulant design temperature''…
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…
The emerging field of passive macro-scale tile-based self-assembly (TBSA) shows promise in enabling effective manufacturing processes by harnessing TBSA's intrinsic parallelism. However, current TBSA methodologies still do not fulfill their…
The flexible profile approach proposed earlier to create CTM (compact or reduced order thermal models) is extended to cover the area of conjugate heat transfer. The flexible profile approach is a methodology that allows building a highly…
Three-dimensional icosahedral random tilings with rhombohedral cells are studied in the semi-entropic model. We introduce a global energy measure defined by the variance of the quasilattice points in the orthogonal space. The internal…
In this paper we consider the problem of the strict self-assembly of infinite fractals within tile self-assembly. In particular, we provide tile assembly algorithms for the assembly of the discrete Sierpinski triangle and the discrete…
Patterned self-assembly is a process whereby coloured tiles self-assemble to build a rectangular coloured pattern. We propose self-assembly (SA) hypergraph automata as an automata-theoretic model for patterned self-assembly. We investigate…
There is evidence that the self-assembly of complex molecular systems often proceeds hierarchically, by first building subunits that later assemble in larger entities, in a process that can repeat multiple times. Yet, our understanding of…
In contrast to most self-assembling synthetic materials, which undergo unbounded growth, many biological self-assembly processes are self-limited. That is, the assembled structures have one or more finite dimensions that are much larger…
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…
Parallel tempering Monte Carlo has proven to be an efficient method in optimization and sampling applications. Having an optimized temperature set enhances the efficiency of the algorithm through more-frequent replica visits to the…