Related papers: Elastic wave propagation along DNA
Elastic wave propagation provides a noninvasive way to probe granular materials. The discrete element method using particle configuration as input, allows a micromechanical interpretation on the acoustic response of a given granular system.…
Elastic wave dispersion is studied in an octet truss lattice and compared with a designed rib lattice known to exhibit strong Cosserat elastic effects. Dispersion entails variation of wave speed with frequency. The phenomenon is…
A one-dimensional wave propagation through elastically asymmetric media is investigated. A class of metamaterials possessing an arbitrary elastic asymmetry is proposed. This asymmetry results in different wave speeds of tensile and…
Genomic DNA is constantly subjected to various mechanical stresses arising from its biological functions and cell packaging. If the local mechanical properties of DNA change under torsional and tensional stress, the activity of…
The subject of this report is the dynamics of elastic system in conjunction with hydrogen bonds of the DNA. We draw attention to the draw-back of the familiar rod model of the DNA, and make a case of constructing models that could…
We investigate elastic wave propagation in finitely deformed dielectric elastomers in the presence of an electrostatic field. To analyze the propagation of both longitudinal (P-) and transverse (S-) waves, we utilize compressible material…
The mechanics of lower dimensional elastic structures depends strongly on the geometry of their stress-free state. Elastic deformations separate into in-plane stretching and lower energy out-of-plane bending deformations. For elastic…
Scientists have observed and studied diffusive waves in contexts as disparate as population genetics and cell signaling. Often, these waves are propagated by discrete entities or agents, such as individual cells in the case of cell…
A theoretical framework for evaluating the approximate energy and dynamic properties associated with the folding of DNA into nucleosomes and chromatin is presented. For this purpose experimentally determined elastic constants of linear DNA…
We study the elastic behaviour of a supercoiled DNA molecule. The simplest model is that of a rod like chain, involving two elastic constants, the bending and the twist rigidities. We show that this model is singular and needs a small…
We present numerical simulations of acoustic wave propagation in confined granular systems consisting of particles interacting with the three-dimensional Hertz-Mindlin force law. The response to a short mechanical excitation on one side of…
Elastic wave velocity in a soft fiber that varies depending on material constitution and axial stress level is an essential measure of mechanical signals in many technical applications. In this work, based on the small-on-large theory, we…
Simple elastic network models of DNA were developed to reveal the structure-dynamics relationships for several nucleotide sequences. First, we propose a simple all-atom elastic network model of DNA that can explain the profiles of…
A versatile approach to modeling the conformations and energetics of DNA loops is presented. The model is based on the classical theory of elasticity, modified to describe the intrinsic twist and curvature of DNA, the DNA bending…
Although mechanical properties of DNA are well characterized at the kilo base-pair range, a number of recent experiments have suggested that DNA is more flexible at shorter length scales, which correspond to the regime that is crucial for…
Recently, some authors have shown that a DNA molecule produces electromagnetic signals and communicates with other DNA molecules or other molecules. In fact, a DNA acts like a receiver or transmitter of radio waves. In this paper, we…
The mechanical model based on beads and springs, which we recently proposed to study non-specific DNA-protein interactions [J. Chem. Phys. 130, 015103 (2009)], was improved by describing proteins as sets of interconnected beads instead of…
Elastic wave propagation is intrinsically sensitive to the mechanical properties of the medium through which it travels. In soft elastomers, this makes guided elastic waves natural probes of viscoelastic and acoustoelastic behavior over a…
We investigate the elastic wave propagation in various hyperelastic materials which subjected to simple-shear deformation. Two compressible types of three conventional hyperelastic models are considered. We found pure elastic wave modes can…
In living systems, DNA undergoes continuous and rhythmic mechanical remodeling through condensation, looping, and disentangling to regulate gene expression, segregate chromosomes, and guide morphogenesis. Here, we demonstrate a purely…