Related papers: Critical dynamics of DNA denaturation
The long-time dynamics of the 1D contact process suddenly brought out of an uncorrelated initial state is studied through a light-cone transfer-matrix renormalisation group approach. At criticality, the system undergoes ageing which is…
The intensity distribution of electromagnetic polar waves in a chain of near-resonant weakly-coupled scatterers is investigated theoretically and supported by a numerical analysis. Critical scaling behavior is discovered for part of the…
We investigate dissipative dynamical systems under the influence of an external driving with two or more frequencies. Our main quantities of interest are long-time averages of expectation values which turn out to exhibit universal features.…
The interaction between proteins and nucleic acids is crucial for processes that sustain cellular function, including DNA maintenance and the regulation of gene expression and translation. Amino acid mutations in protein-nucleic acid…
We introduce a coarse-grained model of DNA with bases modeled as rigid-body ellipsoids to capture their anisotropic stereochemistry. Interaction potentials are all physicochemical and generated from all-atom simulation/parameterization with…
An extended version of the antisymmetrized molecular dynamics to study structure of $p$-$sd$ shell hypernuclei is developed. By using an effective $\Lambda N$ interaction, we investigate energy curves of $^9_\Lambda$Be, $^{13}_\Lambda$C and…
We examine changes in the picosecond structural dynamics with irreversible photobleaching of red fluorescent proteins mCherry, mOrange2 and TagRFP-T. Measurements of the protein dynamical transition using terahertz time-domain spectroscopy…
We study the dependence on the spatial dimensionality of different quantities relevant in the description of the Anderson transition by combining numerical calculations in a $3 \leq d \leq 6$ disordered tight binding model with theoretical…
We examine statistical fluctuation of eigenvalues from the near-edge bulk of QCD Dirac spectra above the critical temperature. For completeness we start by reviewing on the spectral property of Anderson tight-binding Hamiltonians as…
We present three-dimensional radiative transfer calculations for the ejecta from a neutron star merger that include line-by-line opacities for tens of millions of bound-bound transitions, composition from an r-process nuclear network, and…
It is known that contrary to expectations, the order parameter of chiral symmetry breaking, the Dirac spectral density at zero virtuality does not vanish above the critical temperature of QCD. Instead, the spectral density develops a…
We investigate time-dependent spectra of the intermittent resonance fluorescence of a single, laser-driven, three-level atom due to electron shelving. After a quasi-stationary state of the strong transition, a slow decay due to shelving…
We study DNA denaturation by integrating elasticity -- as described by the Gaussian network model -- with bond binding energies, distinguishing between different base-pair and stacking energies. We use exact calculation, within the model,…
The percentage and sequence of AT and GC base pairs and charges on the DNA backbone contribute significantly to the stiffness of DNA. This elastic property of DNA also changes with small interacting ligands. The single-molecule force…
The absorption of ultraviolet light creates excitations in DNA, which subsequently start moving in the helix. Their fate is important for an understanding of photo damage, and is determined by the interplay of electronic couplings between…
We present a self-contained theory for the mechanical response of DNA in single molecule experiments. Our model is based on a 1D continuum description of the DNA molecule and accounts both for its elasticity and for DNA-DNA electrostatic…
We give evidence of a clear structural signature of the glass transition, in terms of a static correlation length with the same dependence on the system size which is typical of critical phenomena. Our approach is to introduce an external,…
We investigate the wave-packet dynamics of the power-law bond disordered one-dimensional Anderson model with hopping amplitudes decreasing as $H_{nm}\propto |n-m|^{-\alpha}$. We consider the critical case ($\alpha=1$). Using an exact…
Emission spectroscopy is an invaluable tool for probing the atmospheres of brown dwarfs and exoplanets, but interpretations based on flux spectra alone often suffer from degeneracies among temperature structure, chemical composition, and…
We perform numerical simulations to examine particle diffusion at steady shear in a model granular material in two dimensions at the jamming density and zero temperature. We confirm findings by others that the diffusion constant depends on…