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Transport of molecular motors along protein filaments in a half-closed geometry is a common feature of biologically relevant processes in cellular protrusions. Using a lattice gas model we study how the interplay between active and…
The cytoskeleton relies on diverse populations of motors, filaments, and binding proteins acting in concert to enable non-equilibrium processes ranging from mitosis to chemotaxis. Its versatile reconfigurability, programmed by interactions…
We have realized a Brownian motor by using cold atoms in a dissipative optical lattice as a model system. In our experiment the optical potential is spatially symmetric and the time-symmetry of the system is broken by applying appropriate…
Adenosine 5'-triphosphate (ATP) is the nearly ubiquitous "energy currency" of living organisms, and thus is a crucial participant in the majority of enzymatic reactions. The standard models in enzyme kinetics generally ignore the temporal…
The key result of the present work is the theoretical prediction and observation of the formation of a new type of transport barrier in fusion plasmas, called F-ATB (fast ion-induced anomalous transport barrier). As demonstrated through…
The reconstruction of charged particle trajectories is a crucial challenge of particle physics experiments as it directly impacts particle reconstruction and physics performances. To reconstruct these trajectories, different reconstruction…
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…
Constraint-based modeling has been widely used on metabolic networks analysis, such as biosynthetic prediction and flux optimization. The linear constraints, like mass conservation constraint, reversibility constraint, biological capacity…
Path planning in dynamic environments remains a core challenge in robotics, especially as autonomous systems are deployed in unpredictable spaces such as warehouses and public roads. While algorithms like Fast Marching Tree (FMT$^{*}$)…
The investigation of optimal processes has a long history in the field of thermodynamics. It is well known that finite-time processes that minimize dissipation often exhibit discontinuities. We use a combination of numerical and analytical…
A ratchet model for coupled Brownian motors, inspired by the motion of individual two-headed molecular motors on cytoskeletal filaments, is proposed. Such motors are modeled as two elastically coupled Brownian particles, each of which moves…
This paper presents a fractional approximation of the AC optimal power flow (AC OPF) problem based on an all-pass approximation of the exponential power flow kernel. The classical AC OPF relies on trigonometric coupling between bus voltage…
We study a one-dimensional mixture of active (run-and-tumble) particles and passive (Brownian) particles, with single-file constraint, in a sawtooth potential. The active particles experience a ratchet effect: this generates a current,…
Brownian rotors play an important role in biological systems and in future nano-technological applications. However the mechanisms determining their dynamics, efficiency and performance remain to be characterized. Here the F0 portion of the…
Many single molecule experiments for molecular motors comprise not only the motor but also large probe particles coupled to it. The theoretical analysis of these assays, however, often takes into account only the degrees of freedom…
The alternating current optimal power flow (AC-OPF) problem is critical to power system operations and planning, but it is generally hard to solve due to its nonconvex and large-scale nature. This paper proposes a scalable decomposition…
Simulations can help unravel the complicated ways in which molecular structure determines function. Here, we use molecular simulations to show how slight alterations of a molecular motor's structure can cause the motor's typical dynamical…
Cytoskeletal motors known as motor proteins are molecules that drive cellular transport along several parallel cytoskeletal filaments and support many biological processes. Experimental evidences suggest that they interact with the nearest…
Single molecular rotor is an important component for constructing bot-tom-up molecular mechanical machines and a window for shedding light on complex physical and chemical questions about motions of organic molecules on surfaces. Stability…
This paper focuses on studying a model for molecular motors responsible for the bending of the axoneme in the flagella of microorganisms. The model is a coupled system of partial differential equations inspired by J\"ulicher et al. or…