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The dynamic of complex ordering systems with active rotational degrees of freedom exemplified by protein self-assembly is explored using a machine learning workflow that combines deep learning-based semantic segmentation and rotationally…

Soft Condensed Matter · Physics 2021-04-26 Sergei V. Kalinin , Shuai Zhang , Mani Valleti , Harley Pyles , David Baker , James J. De Yoreo , Maxim Ziatdinov

In a self-organizing particle system, an abstraction of programmable matter, simple computational elements called particles with limited memory and communication self-organize to solve system-wide problems of movement, coordination, and…

Distributed, Parallel, and Cluster Computing · Computer Science 2018-12-04 Marta Andrés Arroyo , Sarah Cannon , Joshua J. Daymude , Dana Randall , Andréa W. Richa

Particle-based shape modeling (PSM) is a family of approaches that automatically quantifies shape variability across anatomical cohorts by positioning particles (pseudo landmarks) on shape surfaces in a consistent configuration. Recent…

Computer Vision and Pattern Recognition · Computer Science 2025-07-11 Hong Xu , Shireen Y. Elhabian

This paper gives the first separation of quantum and classical pure (i.e., non-cryptographic) computing abilities with no restriction on the amount of available computing resources, by considering the exact solvability of a celebrated…

Quantum Physics · Physics 2012-10-10 Seiichiro Tani , Hirotada Kobayashi , Keiji Matsumoto

This paper proposes a distributed algorithm which deterministically gathers n (n > 4) asynchronous, fat robots. The robots are assumed to be transparent and they have full visibility. The robots are initially considered to be stationary. A…

Distributed, Parallel, and Cluster Computing · Computer Science 2015-03-20 Sruti Gan Chaudhuri , Krishnendu Mukhopadhyaya

Molecular building blocks interacting at the nanoscale organize spontaneously into stable mono- layers that display intriguing long-range ordering motifs on the surface of atomic substrates. The patterning process, if appropriately…

Mesoscale and Nanoscale Physics · Physics 2011-02-18 Marta Balbás Gambra , Carsten Rohr , Kathrin Gruber , Bianca Hermann , Thomas Franosch

This article presents an educational proposal based on the computational implementation of a model of interaction between particles of different types, as a tool for the development of STEM (Science, Technology, Engineering, and…

Physics Education · Physics 2025-03-12 Matías Hernández

This paper investigates how learning can be used to ease the design of high-quality paths for the assembly of deformable objects. Object dynamics plays an important role when manipulating deformable objects; thus, detailed models are often…

Robotics · Computer Science 2025-06-02 Yitaek Kim , Christoffer Sloth

Arbitrary Pattern Formation is a widely studied problem in autonomous robot systems. The problem asks to design a distributed algorithm that moves a team of autonomous, anonymous and identical mobile robots to form any arbitrary pattern…

Distributed, Parallel, and Cluster Computing · Computer Science 2019-10-08 Kaustav Bose , Ranendu Adhikary , Manash Kumar Kundu , Buddhadeb Sau

Where did elementary particles come from? What mechanisms are responsible for their occurrence and maintenance? Are they compound or truly elementary? Is vacuum primordial soup where elementary particles are born? Are quantum behavior and…

General Physics · Physics 2024-01-17 Vladimir A. Manasson

Algorithmic self-assembly, a generalization of crystal growth processes, has been proposed as a mechanism for autonomous DNA computation and for bottom-up fabrication of complex nanostructures. A `program' for growing a desired structure…

Materials Science · Physics 2010-01-08 Rebecca Schulman , Erik Winfree

Industrial robots can solve very complex tasks in controlled environments, but modern applications require robots able to operate in unpredictable surroundings as well. An increasingly popular reactive policy architecture in robotics is…

Robotics · Computer Science 2021-03-17 Jonathan Styrud , Matteo Iovino , Mikael Norrlöf , Mårten Björkman , Christian Smith

Under sufficient permanent random covalent bonding, a fluid of atoms or small molecules is transformed into an amorphous solid network. Being amorphous, local structural properties in such networks vary across the sample. A natural order…

Disordered Systems and Neural Networks · Physics 2009-10-31 Konstantin A. Shakhnovich , Paul M. Goldbart

We propose a general framework for solving inverse self-assembly problems, i.e. designing interactions between elementary units such that they assemble spontaneously into a predetermined structure. Our approach uses patchy particles as…

Soft Condensed Matter · Physics 2022-07-13 John Russo , Flavio Romano , Lukas Kroc , Francesco Sciortino , Lorenzo Rovigatti , Petr Sulc

Recent advancements in the synthesis of anisotropic macromolecules and nanoparticles have spurred an immense interest in theoretical and computational studies of self-assembly. The cornerstone of such studies is the role of shape in…

Materials Science · Physics 2015-10-30 Amir Haji-Akbari , Sharon C. Glotzer

A single-celled amoeba can solve the traveling salesman problem through its shape-changing dynamics. In this paper, we examine roles of several elements in a previously proposed computational model of the solution-search process of amoeba…

Neural and Evolutionary Computing · Computer Science 2024-04-11 Yusuke Miyajima , Masahito Mochizuki

A challenge of molecular self-assembly is to understand how to design particles that self-assemble into a desired structure and not any of a potentially large number of undesired structures. Here we use simulation to show that a strategy of…

Statistical Mechanics · Physics 2017-02-27 Stephen Whitelam

The term active matter describes diverse systems, spanning macroscopic (e.g. shoals of fish and flocks of birds) to microscopic scales (e.g. migrating cells, motile bacteria and gels formed through the interaction of nanoscale molecular…

Soft Condensed Matter · Physics 2010-03-11 Gautam I. Menon

Experiments have reached a monumental capacity for designing and synthesizing microscopic particles for self-assembly, making it possible to precisely control particle concentrations, shapes, and interactions. However, more physical insight…

Soft Condensed Matter · Physics 2026-02-19 Maximilian C. Hübl , Thomas E. Videbæk , Daichi Hayakawa , W. Benjamin Rogers , Carl P. Goodrich

We study the self-stabilizing leader election problem in anonymous $n$-nodes networks. Achieving self-stabilization with low space memory complexity is particularly challenging, and designing space-optimal leader election algorithms remains…

Distributed, Parallel, and Cluster Computing · Computer Science 2026-02-20 Lelia Blin , Sylvain Gay , Isabella Ziccardi
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