Related papers: Energy transfer in nonlinear network models of pro…
A general theoretical framework is developed using free energy functional methods to understand the effects of heterogeneity in the folding of a well-designed protein. Native energetic heterogeneity arising from non-uniformity in native…
Molecular networks guide the biochemistry of a living cell on multiple levels: its metabolic and signalling pathways are shaped by the network of interacting proteins, whose production, in turn, is controlled by the genetic regulatory…
We reveal the intricate impact of nonlinearity and disorder on the thermal conductivity of acoustic chains. Disorder induces mobility edges and allows to control the amount of extended modes which are the ballistic channels for energy…
We consider the nonlinear derivative Schrodinger equation with a quintic nonlinearity, on the one dimensional torus. We exhibit that the nonlinear dynamic properties consist of four frequency modes initially excited, whose frequencies…
The network paradigm is increasingly used to describe the topology and dynamics of complex systems. Here we review the results of the topological analysis of protein structures as molecular networks describing their small-world character,…
Heat dissipation is ubiquitous in living systems, which constantly convert distinct forms of energy into each other. The transport of thermal energy in liquids and even within proteins is well understood but kinetic energy transfer across a…
We show that finite-size, disordered molecular networks can mediate highly efficient, coherent excitation transfer which is robust against ambient dephasing and associated with strong multi-site entanglement. Such optimal, random molecular…
Controlling the flow of energy in a random medium is a research frontier with a wide range of applications. As recently demonstrated, the effect of disorder on the transmission of optical beams, may be partially compensated by wavefront…
While the high-temperature spin diffusion in spin chains with random local fields has been the subject of numerous studies concerning the phenomenon of many-body localization (MBL), the energy diffusion in the same models has been much less…
The dynamical characterization of proteins is crucial to understand protein function. From a microscopic point of view, protein dynamics is governed by the local atomic interactions that, in turn, trigger the functional conformational…
The Kronig-Penney model is used to Study the effect of nonlinear interaction on the transmissive properties of both ordered and disordered chains. In the ordered case, the nonlinearity can either localize or delocalize the electronic states…
We present a numerical study of nonlinear electrokinetic transport in porous media, focusing on the role of heterogeneity in a porous microstructure on ion concentration polarization and over-limiting current. For simplicity, the porous…
We theoretically study the transport properties of self-propelled particles on complex structures, such as motor proteins on filament networks. A general master equation formalism is developed to investigate the persistent motion of…
We consider the nonlinear nonlocal beam evolution equation introduced by Woinowsky- Krieger. We study the existence and behavior of periodic solutions: these are called nonlinear modes. Some solutions only have two active modes and we…
Combinations of gyroscopic forces and nonequilibrium activity has been explored recently in rectifying energy in networks with complex geometries and topologies [Phys. Rev. X 10, 021036]. Based on this previous work, here we study the…
We numerically study a one dimensional, nonlinear lattice model which in the linear limit is relevant to the study of bending (flexural) waves. In contrast with the classic one dimensional mass-spring system, the linear dispersion relation…
A nonlinear chain with six-order polynomial on-site potential is used to analyze the evolution of the total to kinetic energy ratio during development of modulational instability of extended nonlinear vibrational modes. For the on-site…
We investigate transient nonlinear localization, namely the self-excitation of energy bursts in an atomic lattice at finite temperature. As a basic model we consider the diatomic Lennard-Jones chain. Numerical simulations suggest that the…
Knotted proteins embed a physical (i.e., open) knot within their native structures. For decades, significant effort has been devoted to elucidating the functional role of knots in proteins, yet no consensus has been reached. Here, using…
The response of proteins to chemical reactions or impulsive excitation that occurs within the molecule has fascinated chemists for decades. In recent years ultrafast X-ray studies have provided ever more detailed information about the…