Related papers: Modelling DNA Response to THz Radiation
The photoelectron properties of DNA and RNA bases are studied using many-body perturbation theory within the GW approximation, together with a recently developed Lanczos-chain approach. Calculated vertical ionization potentials, electron…
Thermal denaturation of DNA is often studied with coarse-grained models in which native sequential base pairing is mimicked by the existence of attractive interactions only between monomers at the same position along strands (Poland and…
While field-driven electron emission is theoretically understood down to the subcycle regime, its direct experimental temporal characterization using long-wavelength terahertz (THz) fields remains elusive. Here, by driving a graphite tip…
We introduce a novel model for DNA condensation (whip-toroid transition) using the path integral method in the framework of the non-linear sigma model on a line segment. We show that some of its classical configurations exhibit toroidal…
We report on the broadband THz response of InGaAs/GaAs HEMTs operating at 1.63 THz and room temperature deep in the saturation regime. We demonstrate that responses show linear increase with drain-to-source voltage (or drain bias current)…
The formation of local denaturation zones (bubbles) in double-stranded DNA is an important example for conformational changes of biological macromolecules. We study the dynamics of bubble formation in terms of a Fokker-Planck equation for…
We studied time resolution and response power dependence of three terahertz detectors based on significantly different types of field effect transistors. We analyzed the photoresponse of custom-made Si junctionless FETs, Si MOSFETs and…
Time-resolved terahertz time-domain spectroscopy (THz-TDS) is an ideal tool for probing photoinduced nonequilibrium metallic and superconducting states. Here, we focus on the interpretation of the two-dimensional response function…
A simple traveling wave antenna model is used to theoretically study emission from an array of filaments. Both transverse and longitudinal arrays of filaments are considered. The angular distribution and power in the THz signal are…
The paper deals with the two-state (opening-closing of base pairs) model used to describe the fluctuation dynamics of a single bubble formation. We present an exact solution for the discrete and finite size version of the model that…
In this work, a time-dependent modeling is developed to study the emission properties of blazars in the low state. Motivated by various observations, we speculate and assume that numerous discrete radiation zones throughout the jet of a…
We present a new dynamical model of DNA. This model has two degrees of freedom per base-pair: one radial variable related to the opening of the hydrogen bonds and an angular one related to the twisting of each base-pair responsible for the…
Magnetic metamaterials composed of split-ring resonators or $U-$type elements may exhibit discreteness effects in THz and optical frequencies due to weak coupling. We consider a model one-dimensional metamaterial formed by a discrete array…
The t-t'-t''-J model of electrons interacting with three phonon modes (breathing, apical breathing, and buckling) is considered. The wave-vector dependence of the matrix elements of the electron-phonon interaction leads to opposite…
We report model calculations on DNA single strands which describe the equilibrium dynamics and kinetics of hairpin formation and melting. Modeling is at the level of single bases. Strand rigidity is described in terms of simple polymer…
Complementary strands in DNA double helix show temporary fluctuational openings which are essential to biological functions such as transcription and replication of the genetic information. Such large amplitude fluctuations, known as the…
The q-deformation of a single quantized radiation mode interacting with a collection of two level atoms is introduced, analysing its effects on the cooperative behavior of the system.
A couple of models are explained. Helicoidal PB model is studied in more details. It is shown that semi-discrete approximation yields to breather-type soliton moving along the chain. The model can explain local opening as a resonance mode.…
We explore in detail the structural, mechanical and thermodynamic properties of a coarse-grained model of DNA similar to that introduced in Thomas E. Ouldridge, Ard A. Louis, Jonathan P.K. Doye, Phys. Rev. Lett. 104 178101 (2010). Effective…
We predict a novel temperature-driven phase transition of DNA below the melting transition. The additional, intermediate phase exists for repetitive sequences, when the two strands have different lengths. In this phase, the excess bases of…