pH-Mediated Regulation of Polymer Transport Through SiN Pores

We characterize the pH controlled polymer capture and transport thorough silicon nitride (SiN) pores subject to protonation. A charge regulation model able to reproduce the experimental zeta potential of SiN pores is coupled with electrohydrodynamic polymer transport equations. The formalism can quantitatively explain the experimentally observed non-monotonic pH dependence of avidin conductivity in terms of the interplay between the electroosmotic and electrophoretic drag forces on the protein. We also scrutinize the DNA conductivity of SiN pores. We show that in the low pH regime where the amphoteric pore is cationic, DNA-pore attraction acts as an electrostatic trap. This provides a favorable condition for fast polymer capture and extended translocation required for accurate polymer sequencing

Electrostatic correlations in inhomogeneous charged fluids beyond loop expansion

Electrostatic correlation effects in inhomogeneous symmetric electrolytes are investigated within a previously developed electrostatic self-consistent (SC) theory (R.R. Netz and H. Orland, Eur. Phys.J. E 11, 301 (2003)). To this aim, we introduce two computational approaches that allow to solve the SC equations beyond the loop expansion. Both approaches can handle the case of dielectrically discontinuous boundaries where the one-loop theory is known to fail. By comparing the theoretical results obtained from these schemes with the results of the MC simulations that we ran for ions at neutral single dielectric interfaces as well as with previous MC data for charged interfaces, we first show that the weak coupling (WC) Debye-Huckel (DH) theory remains quantitatively accurate up to the bulk ion density rhob=0.01 M, whereas the SC theory exhibits a good quantitative accuracy up to rhob=0.2 M. Then, we derive from the perturbative SC scheme the one-loop theory of asymmetrically partitioned salt systems around a dielectrically homogeneous charged surface. It is shown that correlation effects originate in these systems from a competition between the salt screening loss at the interface driving the ions to the bulk region, and the interfacial counterion screening excess attracting them towards the surface. In the case of weak surface charges, the interfacial salt screening loss is the dominant effect. As a result, correlations decrease the MF density of both coions and counterions. With increasing surface charge, the surface-attractive counterion screening excess starts to dominate, and correlation effects amplify in this regime the MF density of both type of ions. We also show that at a characteristic value of the electrostatic coupling parameter, electrostatic correlations result in a charge inversion effect

Comment on "Nonlocal statistical field theory of dipolar particles in electrolyte solutions" by Y.A. Budkov

The article by Budkov introduces a nonlocal field-theoretic model of solvent-explicit electrostatics. Despite giving a detailed introduction to the early literature on the topic, the article misses out on a series of articles that we published several years ago. Consequently, the manuscript essentially rederives without mention several results that were derived by us for the first time

Influence of Disorder Strength on Phase Field Models of Interfacial Growth

We study the influence of disorder strength on the interface roughening process in a phase-field model with locally conserved dynamics. We consider two cases where the mobility coefficient multiplying the locally conserved current is either constant throughout the system (the two-sided model) or becomes zero in the phase into which the interface advances (one-sided model). In the limit of weak disorder, both models are completely equivalent and can reproduce the physical process of a fluid diffusively invading a porous media, where super-rough scaling of the interface fluctuations occurs. On the other hand, increasing disorder causes the scaling properties to change to intrinsic anomalous scaling. In the limit of strong disorder this behavior prevails for the one-sided model, whereas for the two-sided case, nucleation of domains in front of the invading front are observed.Comment: Accepted for publication in PR

Bit Level Correlations in Some Pseudorandom Number Generators

We present results of extensive bit level tests on some pseudorandom number generators which are commonly used in physics applications. The generators have first been tested with an extended version of the $d$-tuple test. Second, we have developed a novel {\it cluster test} where a physical analogy of the binary numbers with the two dimensional Ising model has been utilized. We demonstrate that the new test is rather powerful in finding periodic correlations on bit level. Results of both test methods are presented for each bit of the output of the generators. Some generators exhibit clear bit level correlations but we find no evidence of discernible correlations for generators, which have recently produced systematic errors in Monte Carlo simulations.Comment: University of Helsinki preprint HU-TFT-93-4

Long wavelength properties of phase field crystal models with second order dynamics

The phase field crystal (PFC) approach extends the notion of phase field models by describing the topology of the microscopic structure of a crystalline material. One of the consequences is that local variation of the interatomic distance creates an elastic excitation. The dynamics of these excitations poses a challenge: pure diffusive dynamics cannot describe relaxation of elastic stresses that happen through phonon emission. To this end, several different models with fast dynamics have been proposed. In this article we use the amplitude expansion of the PFC model to compare the recently proposed hydrodynamic PFC amplitude model with two simpler models with fast dynamics. We compare these different models analytically and numerically. The results suggest that in order to have proper relaxation of elastic excitations, the full hydrodynamical description of the PFC amplitudes is required.Comment: 10 pages, 7 figure