Evolution of the universality class in slightly diluted (1>p>0.8) Ising systems

The crossover of a pure (undiluted) Ising system (spin per site probability p=1) to a diluted Ising system (spin per site probability p<0.8) is studied by means of Monte Carlo calculations with p ranging between 1 and 0.8 at intervals of 0.025. The evolution of the self averaging is analyzed by direct determination of the normalized square widths for magnetization and susceptibility as a function of p. We find a monotonous and smooth evolution from the pure to the randomly diluted universality class. The p-dependent transition is found to be independent of the size (L). This property is very convenient for extrapolation towards the randomly diluted universality class avoiding complications resulting from finite size effects.Comment: 15 pages, 6 figures, RevTe

The Structure of TGBC_C Phases

We study the transition from the cholesteric phase to two TGB$_C$ phases near the upper critical twist $k_{c2}$: the Renn-Lubensky TGB$_C$ phase, with layer normal rotating in a plane perpendicular to the pitch axis, and the Bordeaux TGB$_C$ phase, with the layer normal rotating on a cone parallel to the pitch axis. We calculate properties, including order-parameter profiles, of both phases.Comment: 4 pages, 4 figures, Submitted to Physical Review E, Rapid Communications, September 5, 2003; Revised manuscript (to the paper submitted on March 18, 2003, cond-mat/0303365)that includes an important missing reference and presents an improved analysis of a generalized mode

Unzipping Kinetics of Double-Stranded DNA in a Nanopore

We studied the unzipping kinetics of single molecules of double-stranded DNA by pulling one of their two strands through a narrow protein pore. PCR analysis yielded the first direct proof of DNA unzipping in such a system. The time to unzip each molecule was inferred from the ionic current signature of DNA traversal. The distribution of times to unzip under various experimental conditions fit a simple kinetic model. Using this model, we estimated the enthalpy barriers to unzipping and the effective charge of a nucleotide in the pore, which was considerably smaller than previously assumed.Comment: 10 pages, 5 figures, Accepted: Physics Review Letter

Phase diagram for unzipping DNA with long-range interactions

We present a critique and extension of the mean-field approach to the mechanical pulling transition in bound polymer systems. Our model is motivated by the theoretically and experimentally important examples of adsorbed polymers and double-stranded DNA, and we focus on the case in which quenched disorder in the sequence of monomers is unimportant for the statistical mechanics. We show how including excluded volume interactions in the model affects the phase diagram for the critical pulling force, and we predict a re-entrancy phase at low temperatures which has not been previously discussed. We also consider the case of non-equilibrium pulling, in which the external force probes the local, rather than the global structure of the dsDNA or adsorbed polymer. The dynamics of the pulling transition in such experiments could illuminate the polymer's loop structure, which depends on the nature of excluded volume interactions.Comment: 4 pages, 2 figures; this version clarifies Eq. 8, and corrects errors in Fig.

Simulations and electrical conductivity of percolated networks of finite rods with various degrees of axial alignment

We present a three-dimensional simulation and calculation of electrical conductivity above the filler percolation threshold for networks containing finite, conductive cylinders as a function of axial orientation (S) and aspect ratio (L/D). At a fixed volume fraction and L/D, the simulations exhibit a critical degree of orientation, S-c, above which the electrical conductivity decreases dramatically. With increasing filler concentration and aspect ratio, this critical orientation shifts to higher degrees of alignment. Additionally, at a fixed volume fraction and L/D, the simulated electrical conductivity displays a maximum at slight uniaxial orientation, which is less pronounced at higher volume fractions and aspect ratios. Our approach can be used as a predictive tool to design the optimal filler concentration and degree of orientation required to maximize electrical conductivity in polymer nanocomposites with conductive cylindrical fillers of finite dimension

Effects of mechanical strain on thermal denaturation of DNA

As sections of a strand duplexed DNA denature when exposed to high temperature, the excess linking number is taken up by the undenatured portions of the molecule. The mechanical energy that arises because of the overwinding of the undenatured sections can, in principle, alter the nature of the thermal denaturation process. Assuming that the strains associated with this overwinding are not relieved, we find that a simple model of strain-altered melting leads to a suppression of the melting transition when the unaltered transition is continuous. When the melting transition is first order in the absence of strain associated with overwinding, the modification is to a third order phase transition.Comment: 4 pages, 5 figures, RevTe

Self-averaging of random and thermally disordered diluted Ising systems

Self-averaging of singular thermodynamic quantities at criticality for randomly and thermally diluted three dimensional Ising systems has been studied by the Monte Carlo approach. Substantially improved self-averaging is obtained for critically clustered (critically thermally diluted) vacancy distributions in comparison with the observed self-averaging for purely random diluted distributions. Critically thermal dilution, leading to maximum relative self-averaging, corresponds to the case when the characteristic vacancy ordering temperature is made equal to the magnetic critical temperature for the pure 3D Ising systems. For the case of a high ordering temperature, the self-averaging obtained is comparable to that in a randomly diluted system.Comment: 4 pages, 4figures, RevTe

Unzipping Vortices in Type-II Superconductors

The unzipping of vortex lines using magnetic-force microscopy from extended defects is studied theoretically. We study both the unzipping isolated vortex from common defects, such as columnar pins and twin-planes, and the unzipping of a vortex from a plane in the presence of other vortices. We show, using analytic and numerical methods, that the universal properties of the unzipping transition of a single vortex depend only on the dimensionality of the defect in the presence and absence of disorder. For the unzipping of a vortex from a plane populated with many vortices is shown to be very sensitive to the properties of the vortices in the two-dimensional plane. In particular such unzipping experiments can be used to measure the ``Luttinger liquid parameter'' of the vortices in the plane. In addition we suggest a method for measuring the line tension of the vortex directly using the experiments.Comment: 19 pages 15 figure

Critical Fluctuations and Disorder at the Vortex Liquid to Crystal Transition in Type-II Superconductors

We present a functional renormalization group (FRG) analysis of a Landau-Ginzburg model of type-II superconductors (generalized to $n/2$ complex fields) in a magnetic field, both for a pure system, and in the presence of quenched random impurities. Our analysis is based on a previous FRG treatment of the pure case [E.Br\'ezin et. al., Phys. Rev. B, {\bf 31}, 7124 (1985)] which is an expansion in $\epsilon = 6-d$. If the coupling functions are restricted to the space of functions with non-zero support only at reciprocal lattice vectors corresponding to the Abrikosov lattice, we find a stable FRG fixed point in the presence of disorder for $1<n<4$, identical to that of the disordered $O(n)$ model in $d-2$ dimensions. The pure system has a stable fixed point only for $n>4$ and so the physical case ($n = 2$) is likely to have a first order transition. We speculate that the recent experimental findings that disorder removes the apparent first order transition are consistent with these calculations.Comment: 4 pages, no figures, typeset using revtex (v3.0