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We introduce staged self-assembly of Wang tiles, where tiles can be added dynamically in sequence and where intermediate constructions can be stored for later mixing. This model and its various constraints and performance measures are…

Computational Geometry · Computer Science 2008-03-04 Erik D. Demaine , Martin L. Demaine , Sandor P. Fekete , Mashhood Ishaque , Eynat Rafalin , Robert T. Schweller , Diane Souvaine

We investigate the evolutionary dynamics of an idealised model for the robust self-assembly of two-dimensional structures called polyominoes. The model includes rules that encode interactions between sets of square tiles that drive the…

Populations and Evolution · Quantitative Biology 2013-09-03 Iain G. Johnston , Sebastian A. Ahnert , Jonathan P. K. Doye , Ard A. Louis

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…

Computational Complexity · Computer Science 2010-06-16 Matthew J. Patitz , Scott M. Summers

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…

Signal Processing · Electrical Eng. & Systems 2023-04-19 Nicola Anselmi , Luca Tosi , Paolo Rocca , Giovanni Toso , Andrea Massa

The observation by Ke et al. [Science 338, 1177 (2012)] that large numbers of short, pre-designed DNA strands can assemble into three-dimensional target structures came as a great surprise, as no colloidal self-assembling system has ever…

Soft Condensed Matter · Physics 2014-06-12 Aleks Reinhardt , Daan Frenkel

At the cutting edge of materials science, matter is designed to self-organize into structures that perform a wide range of functions. The past two decades have witnessed major innovations in the versatility of building blocks, ranging from…

Soft Condensed Matter · Physics 2022-09-26 Angus McMullen , Maitane Muñoz Basagoiti , Zorana Zeravcic , Jasna Brujic

Self-assembly is a phenomenon observed in nature at all scales where autonomous entities build complex structures, without external influences nor centralised master plan. Modelling such entities and programming correct interactions among…

Computational Complexity · Computer Science 2013-09-26 German Terrazas , Hector Zenil , Natalio Krasnogor

Tile displacement is a newly-recognized mechanism in DNA nanotechnology that exploits principles analogous to toehold-mediated strand displacement but within the context of self-assembled DNA origami tile arrays. Here, we formulate an…

Emerging Technologies · Computer Science 2023-01-06 Erik Winfree , Lulu Qian

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…

Discrete Mathematics · Computer Science 2009-03-11 James I. Lathrop , Jack H. Lutz , Scott M. Summers

Silanization bases on the adsorption, selfassembly and covalent binding of silane molecules onto surfaces, resulting in a densely packed self-assembled monolayer (SAM). Following standard recipes, however, the quality of the monolayer is…

The process of self-assembly is guided by the minimization of free energy, which limits the symmetries available for assembly and ultimately the usefulness of devices fabricated in this fashion. Here, we demonstrate experimentally for the…

General matrix multiplication (GEMM) is the computational backbone of modern AI workloads, and its efficiency is critically dependent on effective tiling strategies. Conventional approaches employ symmetric tile buffering, where the…

Distributed, Parallel, and Cluster Computing · Computer Science 2025-11-21 Chengyue Wang , Wesley Pang , Xinrui Wu , Gregory Jun , Luis Romero , Endri Taka , Diana Marculescu , Tony Nowatzki , Pranathi Vasireddy , Joseph Melber , Deming Chen , Jason Cong

Building structures with hierarchical order through the self-assembly of smaller blocks is not only a prerogative of nature, but also a strategy to design artificial materials with tailored functions. We explore in simulation the…

Soft Condensed Matter · Physics 2020-02-17 Santi Prestipino , Domenico Gazzillo , Gianmarco Munaò , Dino Costa

Within biology, it is of interest to construct DNA complexes of a certain shape. These complexes can be represented through graph theory, using edges to model strands of DNA joined at junctions, represented by vertices. Because guided…

Self-assembly is one of the most promising strategies for making functional materials at the nanoscale, yet new design principles for making self-limiting architectures, rather than spatially unlimited periodic lattice structures, are…

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…

Soft Condensed Matter · Physics 2015-08-12 Jim Madge , Mark A. Miller

Self-assembly is a ubiquitous process in synthetic and biological systems, broadly defined as the spontaneous organization of multiple subunits (e.g. macromolecules, particles) into ordered multi-unit structures. The vast majority of…

Soft Condensed Matter · Physics 2023-08-08 Michael F. Hagan , Gregory M. Grason

A major goal in nanoscience and nanotechnology is the self-assembly of any desired complex structure with a system of particles interacting through simple potentials. To achieve this objective, intense experimental and theoretical efforts…

Soft Condensed Matter · Physics 2014-09-11 Daniel Salgado-Blanco , Carlos I. Mendoza

Self-closing assembly is prone to polymorphism due to thermally-excited bending fluctuations, which permit the formation of off-target assemblies at the point of self-closure. One way to overcome this source of polymorphism is to use…

Soft Condensed Matter · Physics 2025-11-06 Sirui Liu , Thomas E. Videbæk , W. Benjamin Rogers

Self-assembly materials are traditionally designed so that molecular or meso-scale components form a single kind of large structure. Here, we propose a scheme to create "multifarious assembly mixtures", which self-assemble many different…

Disordered Systems and Neural Networks · Physics 2015-06-22 Arvind Murugan , Zorana Zeravcic , Michael P. Brenner , Stanislas Leibler
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