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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…

Soft Condensed Matter · Physics 2022-05-25 Huang Fang , Botond Tyukodi , W. Benjamin Rogers , Michael F. Hagan

Models invoking the chemical master equation are used in many areas of science, and, hence, their simulation is of interest to many researchers. The complexity of the problems at hand often requires considerable computational power, so a…

Biological Physics · Physics 2016-03-02 Fabian Spill , Philip K. Maini , Helen Byrne

Limited bonding valence, usually accompanied by well-defined directional interactions and selective bonding mechanisms, is nowadays considered among the key ingredients to create complex structures with tailored properties: even though…

Soft Condensed Matter · Physics 2017-10-11 Emanuela Bianchi , Barbara Capone , Ivan Coluzza , Lorenzo Rovigatti , Peter D. J. van Oostrum

We design a system with a binary suspension of colloids and a surface that triggers the self-assembly of crystallites with a finite thickness. The proposed design allows controlling the number of layers forming the aggregate and constrains…

Soft Condensed Matter · Physics 2026-05-05 Akshaya Kumar Jena , Aashima Aashima , Pritam Kumar Jana , Bortolo Matteo Mognetti

Modular and reconfigurable robotic systems have been designed to provide a customized solution for the non-repetitive tasks to be performed in a constrained environment. Customized solutions are normally extracted from task-based…

Robotics · Computer Science 2021-11-02 Anubhav Dogra , Sakshay Mahna , Srikant Sekhar Padhee , Ekta Singla

We present a general control-theoretic framework for constructing and analyzing random decoupling schemes, applicable to quantum dynamical control of arbitrary finite-dimensional composite systems. The basic idea is to design the control…

Quantum Physics · Physics 2009-11-11 Lorenza Viola , Emanuel Knill

DNA-mediated multivalent interactions between colloidal particles have been extensively applied for their ability to program bulk phase behaviour and dynamic processes. Exploiting the competition between different types of DNA-DNA bonds,…

The construction of a reaction network containing all relevant intermediates and elementary reactions is necessary for the accurate description of chemical processes. In the case of a complex chemical reaction (involving, for instance, many…

Chemical Physics · Physics 2017-12-19 Gregor N. Simm , Markus Reiher

Designing heterogeneous, self-assembling systems is a central challenge in soft matter and biology. We present a framework that uses gradient-based optimization to invert an analytical yield calculation, tuning systems toward target…

Soft Condensed Matter · Physics 2025-10-21 Livia A. J. Guttieres , Ryan K. Krueger , Remi Drolet , Michael P. Brenner

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

Controlling a dynamical system is the ability of changing its configuration arbitrarily through a suitable choice of inputs. It is a very well studied concept in control theory, with wide ranging applications in medicine, biology, social…

Systems and Control · Electrical Eng. & Systems 2020-07-23 Sergiu Ivanov , Ion Petre

Cellular decision-making based on information received from the external environment is frequently initiated by transmembrane receptors. These receptors are known to propagate such information by triggering a series of irreversible,…

Biological Physics · Physics 2026-05-13 Samuel L. Foley , Margaret E. Johnson

Contour integrals in the complex plane are the basis of effective numerical methods for computing matrix functions, such as the matrix exponential and the Mittag-Leffler function. These methods provide successful ways to solve partial…

Numerical Analysis · Mathematics 2020-03-24 Shev MacNamara , William McLean , Kevin Burrage

We consider an important class of self-assembly problems and using the formalism of stochastic thermodynamics, we derive a set of design principles for growing controlled assemblies far from equilibrium. The design principles constrain the…

Statistical Mechanics · Physics 2017-01-17 Michael Nguyen , Suriyanarayanan Vaikuntanathan

The self-assembly of anisotropic building blocks into complex spatial architectures is an important design strategy in material science but the mechanisms by which the anisotropic interactions influence the early-stage growth and formation…

Soft Condensed Matter · Physics 2026-05-05 Dillip Kumar Mohapatra , Teun W. J. Verouden , Janne-Mieke Meijer

Theoretical studies on chemical reaction mechanisms have been crucial in organic chemistry. Traditionally, calculating the manually constructed molecular conformations of transition states for chemical reactions using quantum chemical…

Chemical Physics · Physics 2024-04-12 Sihao Yuan , Xu Han , Jun Zhang , Zhaoxin Xie , Cheng Fan , Yunlong Xiao , Yi Qin Gao , Yi Isaac Yang

Entanglement is a crucial resource for achieving quantum advantages in quantum computation, quantum sensing, and quantum communication. As shown in this Letter, entanglement is also a valuable resource for the coherent control of the large…

Atomic Physics · Physics 2025-05-19 Adrien Devolder , Timur Tscherbul , Paul Brumer

We present a novel computational paradigm for process design in manufacturing processes that incorporates simulation responses to optimize manufacturing process parameters in high-dimensional temporal and spatial design spaces. We developed…

Computational Engineering, Finance, and Science · Computer Science 2021-07-26 Mojtaba Mozaffar , Jian Cao

Entropy alone can self-assemble hard particles into colloidal crystals of remarkable complexity whose structures are the same as atomic and molecular crystals, but with larger lattice spacings. Although particle-based molecular simulation…

Soft Condensed Matter · Physics 2021-07-06 Thi Vo , Sharon C. Glotzer

Simulation models often have parameters as input and return outputs to understand the behavior of complex systems. Calibration is the process of estimating the values of the parameters in a simulation model in light of observed data from…

Methodology · Statistics 2024-11-15 Özge Sürer