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Self-assembly processes allow us to design and create complex nanostructures using molecules as building blocks and surfaces as scaffolds. This autonomous driven construction is possible due to a complex thermodynamic balance of…

Mesoscale and Nanoscale Physics · Physics 2017-09-06 Sabrina Simoncelli , Yi Li , Emiliano Cortés , Stefan A. Maier

Protein aggregation is of great importance in biology, e.g., in amyloid fibrillation. The aggregation processes that occur at the cellular scale must be highly stochastic in nature because of the statistical number fluctuations that arise…

Soft Condensed Matter · Physics 2016-06-29 Nitin S. Tiwari , Paul van der Schoot

Automated verification of living organism models allows us to gain previously unknown knowledge about underlying biological processes. In this paper, we show the benefits to use parametric time Petri nets in order to analyze precisely the…

Logic in Computer Science · Computer Science 2015-06-23 Alexander Andreychenko , Morgan Magnin , Katsumi Inoue

Here we demonstrate a synthetic micro-engine, based on long-range controlled movement of colloidal particles, which is induced by a local catalytic reaction. The directed motion at long timescales was achieved by placing specially designed…

Statistical Mechanics · Physics 2008-07-16 Larysa Baraban , Christian Kreidler , Denys Makarov , Paul Leiderer , Artur Erbe

Equilibrium self-assembly and conventional materials processing techniques fall far short of mimicking dynamic self-actuating processes that are commonplace throughout biology. To bridge the gap between living and synthetic matter, we study…

Embedding magnetic colloidal particles in an elastic polymer matrix leads to smart soft materials that can reversibly be addressed from outside by external magnetic fields. We discover a pronounced nonlinear superelastic stress-strain…

Soft Condensed Matter · Physics 2015-10-28 Peet Cremer , Hartmut Löwen , Andreas M. Menzel

Self-assembly processes provide the means to achieve scalable and versatile metamaterials by "bottom-up" fabrication. Despite their enormous potential, especially as a platform for energy materials, self-assembled metamaterials are often…

Applied Physics · Physics 2023-03-09 Jelena Wohlwend , Georg Haberfehlner , Henning Galinski

The behavior of some stochastic chemical reaction networks is largely unaffected by slight inaccuracies in reaction rates. We formalize the robustness of state probabilities to reaction rate deviations, and describe a formal connection…

Computational Complexity · Computer Science 2009-01-28 David Soloveichik

Structured stochastic processes evolving in continuous time present a widely adopted framework to model phenomena occurring in nature and engineering. However, such models are often chosen to satisfy the Markov property to maintain…

Machine Learning · Statistics 2020-07-06 Nicolai Engelmann , Dominik Linzner , Heinz Koeppl

Equilibrating proteins and other biomacromolecules is cardinal for molecular dynamics simulation of such biological systems in which they perform free dynamics without any externally-applied mechanical constraint, until thermodynamic…

Soft Condensed Matter · Physics 2021-02-11 Ashkan Shekaari , Mahmoud Jafari

Quantum mechanical phenomena, such as electronic coherence and entanglement, play a key role in achieving the unrivalled efficiencies of light-energy conversion in natural photosynthetic light-harvesting complexes, and triggered the growing…

Quantum Physics · Physics 2011-02-02 Richard Hildner , Daan Brinks , Niek F. van Hulst

Active colloidal particles typically exhibit a pronounced affinity for accumulating and being captured at boundaries. Here, we engineer long-range repulsive interactions between colloids that self-propel under an electric field and…

Soft Condensed Matter · Physics 2025-01-03 Carolina van Baalen , Stefania Ketzetzi , Anushka Tintor , Lucio Isa

We prove that by successively combining subassemblies, we can achieve sublinear construction times for "staged" assembly of micro-scale objects from a large number of tiny particles, for vast classes of shapes; this is a significant advance…

Computational Geometry · Computer Science 2018-07-05 Arne Schmidt , Sheryl Manzoor , Li Huang , Aaron T. Becker , Sándor P. Fekete

The spontaneous assembly of particles in suspension provides a strategy for inexpensive fabrication of devices with nanometer-scale control, such as single-electron transistors for memory or logic applications. A scaleable and robust method…

Soft Condensed Matter · Physics 2007-05-23 C. R. Knutson , K. D. McCarthy , R. Shenhar , V. M. Rotello , T. Emrick , T. P. Russell , M. T. Tuominen , A. D. Dinsmore

Predictive materials synthesis is the primary bottleneck in realizing new functional and quantum materials. Strategies for synthesis of promising materials are currently identified by time-consuming trial and error approaches and there are…

Protein aggregation in the form of amyloid fibrils has important biological and technological implications. Although the self-assembly process is highly efficient, aggregates not in the fibrillar form would also occur and it is important to…

Soft Condensed Matter · Physics 2010-01-20 Chiu Fan Lee

Cells accomplish diverse functions using the same molecular building blocks, from setting up cytoplasmic flows to generating mechanical forces. In particular, transitions between these non-equilibrium states are triggered by regulating the…

Soft Condensed Matter · Physics 2022-01-03 Bibi Najma , Minu Varghese , Lev Tsidilkovski , Linnea Lemma , Aparna Baskaran , Guillaume Duclos

Brownian clocks are biomolecular networks that can count time. A paradigmatic example are proteins that go through a cycle thus regulating some oscillatory behaviour in a living system. Typically, such a cycle requires free energy often…

Statistical Mechanics · Physics 2017-01-20 Andre C Barato , Udo Seifert

Chemical crosslinking of collagen is a general strategy to reproduce macroscale tissue properties in physiological environment. However, simultaneous control of protein conformation, material properties and biofunctionality is highly…

Chemical Physics · Physics 2013-08-27 Giuseppe Tronci , Amanda Doyle , Stephen J. Russell , David J. Wood

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