Use of electron density critical points as chemical function-based reduced representations of pharmacological ligands

In this paper, we propose a reduced representation of molecules of pharmacological interest based on their chemical functions. The proposed representations of the molecules are obtained by a topological analysis of their electron density maps at medium resolution, leading to graphs of critical points. The distribution of the different types of critical points are compared at various levels of resolution for a training set of 22 molecules in order to define the optimal resolution level leading to the best representation of the various chemical functions. The reduced representations can in the future be used for molecular similarity research and pharmacophore proposals.     

Empirical correction of crosstalk in a low-background germanium γ–γ analysis system

The Pacific Northwest National Laboratory (PNNL) is currently developing a custom software suite capable of automating many of the tasks required to accurately analyze coincident signals within gamma spectrometer arrays. During the course of this work, significant crosstalk was identified in the energy determination for spectra collected with a new low-background intrinsic germanium (HPGe) array at PNNL. The HPGe array is designed for high detection efficiency, ultra-low-background performance, and sensitive γ–γ coincidence detection. The first half of the array, a single cryostat containing seven HPGe crystals, was recently installed into a new shallow underground laboratory facility. This update will present a brief review of the germanium array, describe the observed crosstalk, and present a straight-forward empirical correction that significantly reduces the impact of this crosstalk on the spectroscopic performance of the system.     

Explicit Density Approximations for Local Volatility Models Using Heat Kernel Expansions

Heat kernel perturbation theory is a tool for constructing explicit approximation formulas for the solutions of linear parabolic equations. We review the crux of this perturbative formalism and then apply it to differential equations which govern the transition densities of several local volatility processes. In particular, we compute all the heat kernel coefficients for the CEV and quadratic local volatility models; in the later case, we are able to use these to construct an exact explicit formula for the processes’ transition density. We then derive low order approximation formulas for the cubic local volatility model, an affine-affine short rate model, and a generalized mean reverting CEV model. We finally demonstrate that the approximation formulas are accurate in certain model parameter regimes via comparison to Monte Carlo simulations.     

Rapid measurements of 235U fission product isotope ratios using an online,high-pressure ion chromatography inductively coupled plasma mass spectrometry protocol with comparison to isotopic depletion models

Journal of Radioanalytical and Nuclear Chemistry - An automated online separation–direct analysis method, RAPID (rapid analysis of post-irradiation debris), has been developed for the...     

The Authority of the Calculator in the Minds of College Students

A group of 25 undergraduate students was given seven estimation tasks that involved computation of whole or decimal numbers. The subjects (10 elementary education majors, 7 mathematics majors, and 8 undecided or premajors) were selected because of high achievement in their current college mathematics class. They were asked to estimate an answer to a computational task and then use a calculator provided by the researchers to determine the exact answer. The calculator had been programmed to give incorrect answers that were increasingly higher than the actual answer (beginning with a 10% error and ending with a 50% error). While the majority of subjects produced reasonable estimates, only 7 of the 25 students questioned the accuracy of the answers produced on the calculator. The study points out the subjects’ lack of confidence in estimation skills, as well as a reluctance to question calculator produced results.     

Enhancement of microfluidic mixing using time pulsing

Many microfluidic applications require the mixing of reagents, but efficient mixing in these laminar (i.e., low Reynolds number) systems is typically difficult. Instead of using complex geometries and/or relatively long channels, we demonstrate the merits of flow rate time dependency through periodic forcing. We illustrate the technique by studying mixing in a simple "T" channel intersection by means of computational fluid dynamics (CFD) as well as physically mixing two aqueous reagents. The "T" geometry selected consists of two inlet channel segments merging at 90 degrees to each other, the outlet segment being an extension of one of the inlet segments. All channel segments are 200 microm wide by 120 microm deep, a practical scale for mass-produced disposable devices. The flow rate and average velocity after the confluence of the two reagents are 48 nl s(-1) and 2 mm s(-1) respectively, which, for aqueous solutions at room temperature, corresponds to a Reynolds number of 0.3. We use a mass diffusion constant of 10(-10) m(2) s(-1), typical of many BioMEMS applications, and vary the flow rates of the reagents such that the average flow rate remains unchanged but the instantaneous flow rate is sinusoidal (with a DC bias) with respect to time. We analyze the effect of pulsing the flow rate in one inlet only as well as in the two inlets, and demonstrate that the best results occur when both inlets are pulsed out of phase. In this case, the interface is shown to stretch, retain one fold, and sweep through the confluence zone, leading to good mixing within 2 mm downstream of the confluence, i.e. about 1 s of contact. From a practical viewpoint, the case where the inlets are 180 degrees out of phase is of particular interest as the outflow is constant.     

Electroosmotic mixing in microchannels

Mixing is an essential, yet challenging, process step for many Lab on a Chip (LOC) applications. This paper presents a method of mixing for microfluidic devices that relies upon electroosmotic flow. In physical tests and in computer simulations, we periodically vary the electric field with time to mix two aqueous solutions. Good mixing is shown to occur when the electroosmotic flow at the two inlets pulse out of phase, the Strouhal number is on the order of 1, and the pulse volumes are on the order of the intersection volume.     

Application of a stochastic model to the breakage of flocs in stirred tanks

A stochastic model is employed to account for the dynamic behaviour of floc breakage. More specifically, the evolution of the particle-size distribution over time is presented. The model is compared to experimental data obtained by exposing kaolin—iron(III) flocs to hydrodynamic stress generated by a turbine impeller. The agreement between the model and experimental data appears to be satisfactory.