From a nanoscience perspective, cellular processes and their reduced in vitro imitations provide extraordinary examples for highly robust few or single molecule reaction pathways. A prime example are biochemical reactions involving DNA molecules, and the coupling of these reactions to the physical conformations of DNA. In this review, we summarise recent results on the following phenomena: We inve

Even under physiological conditions, the DNA double-helix spontaneously denatures locally, opening up fluctuating, flexible, single-stranded zones called DNA-bubbles. We present a dynamical description of this DNA-bubble breathing in terms of a Fokker-Planck equation for the bubble size, based on the Poland-Scheraga free energy for DNA denaturation. From this description, we can obtain basic quant

We study the search process of a target on a rapidly folding polymer (“DNA”) by an ensemble of particles (“proteins”), whose search combines 1D diffusion along the chain, Lévy type diffusion mediated by chain looping, and volume exchange. A rich behavior of the search process is obtained with respect to the physical parameters, in particular, for the optimal search.

We use a master equation approach based on the Poland–Scheraga free energy for DNA denaturation to investigate the (un)zipping dynamics of a denaturation wedge in a stretch of DNA that is clamped at one end. In particular, we quantify the blinking dynamics of a fluorophore–quencher pair mounted within the denaturation wedge. We also study the behavioural changes in the presence of proteins that se

Tvisten i NJA 2015 s. 899 är, argumenterade vi i JT 2016–17 s. 906–937, en arbetstvist. Arbetsdomstolen borde rätteligen avgjort saken, som handlade om civilrättsliga sanktioner för stridsåtgärder på arbetsmarknaden. I och med 2015 års fall står det klart att fackföreningar under vissa förutsättningar ansvarar för ren förmögenhetsskada till följd av stridsåtgärder på arbetsmarknaden som kränkt Eur

We investigate the translocation of a stiff polymer consisting of M monomersthrough a nanopore in a membrane, in the presence of binding particles(chaperones) that bind onto the polymer, and partially prevent backsliding ofthe polymer through the pore. The process is characterized by the rates: kfor the polymer to make a diffusive jump through the pore, q for unbinding ofa chaperone, and the rate

We propose a stochastic Gillespie scheme to describe the temporal fluctuations of local denaturation zones in double-stranded DNA as a single-molecule time series. It is demonstrated that the model recovers the equilibrium properties. We also study measurable dynamical quantities such as the bubble size autocorrelation function. This efficient computational approach will be useful to analyse in de

Based on modern single molecule techniques, we devise a number of possible experimental setups to probe local properties of DNA such as the presence of DNA-knots, loops or folds, or to obtain information on the DNA-sequence. Similarly, DNA may be used as a local sensor. Employing single molecule fluorescence methods, we propose to make use of the physics of DNA denaturation nanoregions to find out

We investigate the dynamics of a single local denaturation zone in a DNA molecule, a so-called DNA bubble, in the presence of single-stranded DNA binding proteins (SSBs). In particular, we develop a dynamical description of the process in terms of a two-dimensional master equation for the time evolution of the probability distribution of having a bubble of size m with n bound SSBs, for the case wh

We derive an expression for the polarizability of an ellipsoidally shaped cell-like structure at field frequencies where membrane molecular resonances (vibrational and electronic) are important. We first present analytical results for the dielectric function of a flat, dipole coupled, bilayer consisting of molecules with one prominent resonance frequency. Due to the nature of the dipole coupling t

In this paper we study the response of an ellipsoidal particle with a dielectrically anisotropic coating (the coating dielectric function being different parallel and perpendicular to the coating normal) placed in a constant external electric field. For the coating region we find that potential can be written in terms of solutions to a one-dimensional Heun's equation which is derived from the thre

We investigate the vdrift velocity vdrift of ellipsoidal polarizable particles (ellipsoids and coated ellipsoids), driven through a viscous fluid by an electric or electromagnetic field intensity gradient. At low Reynolds number and in the dipole approximation vdrift is proportional to the square of the principal axis along the direction of motion multiplied by a form factor, which is weakly depen

We study the process of charged polymer translocation, driven by an external electric potential, through a narrow pore in a membrane. We assume that the number of polymer segments, m, having passed the entrance pore mouth, is a slow variable governing the translocation process. Outside the pore the probability that there is an end segment at the entrance pore mouth, is taken as the relevant parame

In the current study we evaluated the structure of positron emission tomography combined with computed tomography (PET/CT) diagnostics in the Russian Federation. Patient effective doses, organ doses and corresponding radiation risks for the most common PET/CT examinations were evaluated. Data was collected in 12 regions of the Russian Federation in the period 2012-2017 in 19 facilities (26 PET/CT