Counting the ions surrounding nucleic acids.

Nucleic acids are strongly negatively charged, and thus electrostatic interactions-screened by ions in solution-play an important role in governing their ability to fold and participate in biomolecular interactions. The negative charge creates a region, known as the ion atmosphere, in which cation and anion concentrations are perturbed from their bulk values. Ion counting experiments quantify the ion atmosphere by measuring the preferential ion interaction coefficient: the net total number of excess ions above, or below, the number expected due to the bulk concentration. The results of such studies provide important constraints on theories, which typically predict the full three-dimensional distribution of the screening cloud. This article reviews the state of nucleic acid ion counting measurements and critically analyzes their ability to test both analytical and simulation-based models

Domain of Attraction for Central and Intermediate Order Statistics under Exponential Normalization

In this article, the domain of attractions (DAs) of the central order statistics under linear normalization is compared with the DAs under exponential normalization. Moreover, The work of Barakat and Omar [1] for the intermediate order statistics under power normalization, is expanded to the exponential normalization. Furthermore, The DAs for the limit laws of intermediate order statistics under exponential normalization are derived

Flowfield-dependent variant method for moving-boundary problems

A novel numerical scheme using the combination of flowfield-dependent variation method and arbitrary Lagrangian–Eulerian method is developed. This method is a mixed explicit–implicit numerical scheme, and its implicitness is dependent on the physical properties of the flowfield. The scheme is discretized using the finite-volume method to give flexibility in dealing with complicated geometries. The formulation itself yields a sparse matrix, which can be solved by using any iterative algorithm. Several benchmark problems in two-dimensional inviscid and viscous flow have been selected to validate the method. Good agreement with available experimental and numerical data in the literature has been obtained, thus showing its promising application in complex fluid–structure interaction problems

Entanglement Generation by Qubit Scattering in Three Dimensions

A qubit (a spin-1/2 particle) prepared in the up state is scattered by local spin-flipping potentials produced by the two target qubits (two fixed spins), both prepared in the down state, to generate an entangled state in the latter when the former is found in the down state after scattering. The scattering process is analyzed in three dimensions, both to lowest order and in full order in perturbation, with an appropriate renormalization for the latter. The entanglement is evaluated in terms of the concurrence as a function of the incident and scattering angles, the size of the incident wave packet, and the detector resolution, to clarify the key elements for obtaining an entanglement with high quality. The characteristics of the results are also discussed in the context of (in)distinguishability of alternative paths for a quantum particle.Comment: 21 pages, 19 figures, the final versio

Solving Modal Equations of Motion with Initial Conditions Using MSC/NASTRAN DMAP

By utilizing MSC/NASTRAN DMAP (Direct Matrix Abstraction Program) in an existing NASA Lewis Research Center coupled loads methodology, solving modal equations of motion with initial conditions is possible using either coupled (Newmark-Beta) or uncoupled (exact mode superposition) integration available within module TRD1. Both the coupled and newly developed exact mode superposition methods have been used to perform transient analyses of various space systems. However, experience has shown that in most cases, significant time savings are realized when the equations of motion are integrated using the uncoupled solver instead of the coupled solver. Through the results of a real-world engineering analysis, advantages of using the exact mode superposition methodology are illustrated

Solving modal equations of motion with initial conditions using MSC/NASTRAN DMAP. Part 1: Implementing exact mode superposition

Within the MSC/NASTRAN DMAP (Direct Matrix Abstraction Program) module TRD1, solving physical (coupled) or modal (uncoupled) transient equations of motion is performed using the Newmark-Beta or mode superposition algorithms, respectively. For equations of motion with initial conditions, only the Newmark-Beta integration routine has been available in MSC/NASTRAN solution sequences for solving physical systems and in custom DMAP sequences or alters for solving modal systems. In some cases, one difficulty with using the Newmark-Beta method is that the process of selecting suitable integration time steps for obtaining acceptable results is lengthy. In addition, when very small step sizes are required, a large amount of time can be spent integrating the equations of motion. For certain aerospace applications, a significant time savings can be realized when the equations of motion are solved using an exact integration routine instead of the Newmark-Beta numerical algorithm. In order to solve modal equations of motion with initial conditions and take advantage of efficiencies gained when using uncoupled solution algorithms (like that within TRD1), an exact mode superposition method using MSC/NASTRAN DMAP has been developed and successfully implemented as an enhancement to an existing coupled loads methodology at the NASA Lewis Research Center