Two-Particle Schroedinger Equation Animations of Wavepacket-Wavepacket Scattering (revised)

A simple and explicit technique for the numerical solution of the two-particle, time-dependent Schr\"{o}dinger equation is assembled and tested. The technique can handle interparticle potentials that are arbitrary functions of the coordinates of each particle, arbitrary initial and boundary conditions, and multi-dimensional equations. Plots and animations are given here and on the World Wide Web of the scattering of two wavepackets in one dimension.Comment: 13 pages, 8 figures, animations at http://nacphy.physics.orst.edu/ComPhys/PACKETS

Spin-torque switching: Fokker-Planck rate calculation

We describe a new approach to understanding and calculating magnetization switching rates and noise in the recently observed phenomenon of "spin-torque switching". In this phenomenon, which has possible applications to information storage, a large current passing from a pinned ferromagnetic (FM) layer to a free FM layer switches the free layer. Our main result is that the spin-torque effect increases the Arrhenius factor $\exp(-E/kT)$ in the switching rate, not by lowering the barrier $E$, but by raising the effective spin temperature $T$. To calculate this effect quantitatively, we extend Kramers' 1940 treatment of reaction rates, deriving and solving a Fokker-Planck equation for the energy distribution including a current-induced spin torque of the Slonczewski type. This method can be used to calculate slow switching rates without long-time simulations; in this Letter we calculate rates for telegraph noise that are in good qualitative agreement with recent experiments. The method also allows the calculation of current-induced magnetic noise in CPP (current perpendicular to plane) spin valve read heads.Comment: 11 pages, 8 figures, 1 appendix Original version in Nature format, replaced by Phys. Rev. Letters format. No substantive change

Estimation of linkage disequilibrium in a sample of the United Kingdom dairy cattle population using unphased genotypes

The association between genetic marker alleles was estimated for two regions of the bovine genome from a random sample of 50 young dairy bulls born in the United Kingdom between 1988 and 1995. Microsatellite marker genotypes were obtained for six markers on chromosome 2 and seven markers on chromosome 6, spanning 38 and 20 cM, respectively. Two different methods, which do not require family information, were used to estimate population haplotype frequencies. Haplotype frequencies were estimated for pairs of loci using the expectation-maximization algorithm and for all linked loci using a Bayesian approach via a Markov chain-Monte Carlo algorithm. Significant (P = 0.0007) linkage disequilibrium was detected between pairs of loci in syntenic groups (that is, loci in the same linkage group), extending to about 10 cM. No significant linkage disequilibrium was detected between markers in nonsyntenic regions. Given the observed level of linkage disequilibrium, mapping methods based on population-wide association might provide a better resolution than traditional quantitative trait loci mapping methods in the U.K. dairy cattle population and may reduce the required sample sizes of the experiments

New Developments in MadGraph/MadEvent

We here present some recent developments of MadGraph/MadEvent since the latest published version, 4.0. These developments include: Jet matching with Pythia parton showers for both Standard Model and Beyond the Standard Model processes, decay chain functionality, decay width calculation and decay simulation, process generation for the Grid, a package for calculation of quarkonium amplitudes, calculation of Matrix Element weights for experimental events, automatic dipole subtraction for next-to-leading order calculations, and an interface to FeynRules, a package for automatic calculation of Feynman rules and model files from the Lagrangian of any New Physics model.Comment: 6 pages, 3 figures. Plenary talk given at SUSY08, Seoul, South Korea, June 2008. To appear in the proceeding

Is Random Close Packing of Spheres Well Defined?

Despite its long history, there are many fundamental issues concerning random packings of spheres that remain elusive, including a precise definition of random close packing (RCP). We argue that the current picture of RCP cannot be made mathematically precise and support this conclusion via a molecular dynamics study of hard spheres using the Lubachevsky-Stillinger compression algorithm. We suggest that this impasse can be broken by introducing the new concept of a maximally random jammed state, which can be made precise.Comment: 6 pages total, 2 figure

Does smartphone-assisted student feedback affect teachers’ teaching quality?

In this study, it was investigated if student feedback promoted teachers’ insight into where they could improve their lessons and their reflection on their lessons. It was also studied in what ways teachers worked on improvement, based on the student feedback, and whether it affected the quality of their teaching. Student perceptions of teaching quality were measured by means of a smartphone application for providing teachers with feedback on their lesson. Teachers in this study (N = 60) were randomly assigned to the control or experimental group. The smartphone application was used several times by teachers to obtain student feedback. The teachers reported that they gained insight into where they could improve their lessons. They reported improvement-oriented actions in response to the student feedback. According to students, teachers first slightly improved their teaching quality. However, teachers did not seem to reflect significantly more on their lessons and their improvement did not sustain. Explanations for the findings are discussed and suggestions for future research are presented

Selective Maleylation-Directed Isobaric Peptide Termini Labeling for Accurate Proteome Quantification

Isobaric peptide termini labeling (IPTL) is an attractive protein quantification method because it provides more accurate and reliable quantification information than traditional isobaric labeling methods (e.g., TMT and iTRAQ) by making use of the entire fragment-ion series instead of only a single reporter ion. The multiplexing capacity of published IPTL implementations is, however, limited to three. Here, we present a selective maleylation-directed isobaric peptide termini labeling (SMD-IPTL) approach for quantitative proteomics of LysC protein digestion. SMD-IPTL extends the multiplexing capacity to 4-plex with the potential for higher levels of multiplexing using commercially available 13C/15N labeled amino acids. SMD-IPTL is achieved in a one-pot reaction in three consecutive steps: (1) selective maleylation at the N-terminus; (2) labeling at the ϵ-NH2 group of the C-terminal Lys with isotopically labeled acetyl-alanine; (3) thiol Michael addition of an isotopically labeled acetyl-cysteine at the maleylated N-terminus. The isobarically labeled peptides are fragmented into sets of b- and y-ion clusters upon LC-MS/MS, which convey not only sequence information but also quantitative information for every labeling channel and avoid the issue of ratio distortion observed with reporter-ion-based approaches. We demonstrate the SMD-IPTL approach with a 4-plex labeled sample of bovine serum albumin (BSA) and yeast lysates mixed at different ratios. With the use of SMD-IPTL for labeling and a narrow precursor isolation window of 0.8 Th with an offset of -0.2 Th, accurate ratios were measured across a 10-fold mixing range of BSA in a background of yeast proteome. With the yeast proteins mixed at ratios of 1:5:1:5, BSA was detected at ratios of 0.94:2.46:4.70:9.92 when spiked at 1:2:5:10 ratios with an average standard deviation of peptide ratios of 0.34