Algorithm for Computing Excited States in Quantum Theory

Monte Carlo techniques have been widely employed in statistical physics as well as in quantum theory in the Lagrangian formulation. However, in the conventional approach, it is extremely difficult to compute the excited states. Here we present a different algorithm: the Monte Carlo Hamiltonian method, designed to overcome the difficulties of the conventional approach. As a new example, application to the Klein-Gordon field theory is shown.Comment: 3 pages, uses Latex and aipproc.cl

The agrin gene codes for a family of basal lamina proteins that differ in function and distribution

We isolated two cDNAs that encode isoforms of agrin, the basal lamina protein that mediates the motor neuron-induced aggregation of acetylcholine receptors on muscle fibers at the neuromuscular junction. Both proteins are the result of alternative splicing of the product of the agrin gene, but, unlike agrin, they are inactive in standard acetylcholine receptor aggregation assays. They lack one (agrin-related protein 1) or two (agrin-related protein 2) regions in agrin that are required for its activity. Expression studies provide evidence that both proteins are present in the nervous system and muscle and that, in muscle, myofibers and Schwann cells synthesize the agrin-related proteins while the axon terminals of motor neurons are the sole source of agrin

Combined experimental and simulation studies of crosslinked polymer brushes under shear

We have studied the effect of crosslinking on the tribological behavior of polymer brushes using a combined experimental and theoretical approach. Tribological and indentation measurements on poly(glycidyl methacrylate) brushes and gels in the presence of dimethylformamide solvent were obtained by means of atomic force microscopy. To complement experiments, we have performed corresponding molecular-dynamics (MD) simulations of a generic bead-spring model in the presence of explicit solvent and crosslinkers. Our study shows that crosslinking leads to an increase in friction between polymer brushes and a counter-surface. The coefficient of friction increases with increasing degree of crosslinking and decreases with increasing length of the crosslinker chains. We find that the brush-forming polymer chains in the outer layer play a significant role in reducing friction at the interface

Design and characterisation of the CLICTD pixelated monolithic sensor chip

A novel monolithic pixelated sensor and readout chip, the CLIC Tracker Detector (CLICTD) chip, is presented. The CLICTD chip was designed targeting the requirements of the silicon tracker development for the experiment at the Compact Linear Collider (CLIC), and has been fabricated in a modified 180 nm CMOS imaging process with charge collection on a high-resistivity p-type epitaxial layer. The chip features a matrix of 16×128 elongated channels, each measuring 300×30 μm2. Each channel contains 8 equidistant collection electrodes and analog readout circuits to ensure prompt signal formation. A simultaneous 8-bit Time-of-Arrival (with 10 ns time bins) and 5-bit Time-over-Threshold measurement is performed on the combined digital output of the 8 sub-pixels in every channel. The chip has been fabricated in two process variants and characterised in laboratory measurements using electrical test pulses and radiation sources. Results show a minimum threshold between 135 and 180 e‾ and a noise of about 14 e‾ RMS. The design aspects and characterisation results of the CLICTD chip are presented

The Impact of 18 Ancestral and Horizontally-Acquired Regulatory Proteins upon the Transcriptome and sRNA Landscape of Salmonella enterica serovar Typhimurium

Article Authors Metrics Comments Media Coverage Abstract Author Summary Introduction Results and Discussion Materials and Methods Supporting Information Acknowledgments Author Contributions References Reader Comments (0) Media Coverage (0) Figures Abstract We know a great deal about the genes used by the model pathogen Salmonella enterica serovar Typhimurium to cause disease, but less about global gene regulation. New tools for studying transcripts at the single nucleotide level now offer an unparalleled opportunity to understand the bacterial transcriptome, and expression of the small RNAs (sRNA) and coding genes responsible for the establishment of infection. Here, we define the transcriptomes of 18 mutants lacking virulence-related global regulatory systems that modulate the expression of the SPI1 and SPI2 Type 3 secretion systems of S. Typhimurium strain 4/74. Using infection-relevant growth conditions, we identified a total of 1257 coding genes that are controlled by one or more regulatory system, including a sub-class of genes that reflect a new level of cross-talk between SPI1 and SPI2. We directly compared the roles played by the major transcriptional regulators in the expression of sRNAs, and discovered that the RpoS (σ38) sigma factor modulates the expression of 23% of sRNAs, many more than other regulatory systems. The impact of the RNA chaperone Hfq upon the steady state levels of 280 sRNA transcripts is described, and we found 13 sRNAs that are co-regulated with SPI1 and SPI2 virulence genes. We report the first example of an sRNA, STnc1480, that is subject to silencing by H-NS and subsequent counter-silencing by PhoP and SlyA. The data for these 18 regulatory systems is now available to the bacterial research community in a user-friendly online resource, SalComRegulon

The Fractal Geometry of Critical Systems

We investigate the geometry of a critical system undergoing a second order thermal phase transition. Using a local description for the dynamics characterizing the system at the critical point T=Tc, we reveal the formation of clusters with fractal geometry, where the term cluster is used to describe regions with a nonvanishing value of the order parameter. We show that, treating the cluster as an open subsystem of the entire system, new instanton-like configurations dominate the statistical mechanics of the cluster. We study the dependence of the resulting fractal dimension on the embedding dimension and the scaling properties (isothermal critical exponent) of the system. Taking into account the finite size effects we are able to calculate the size of the critical cluster in terms of the total size of the system, the critical temperature and the effective coupling of the long wavelength interaction at the critical point. We also show that the size of the cluster has to be identified with the correlation length at criticality. Finally, within the framework of the mean field approximation, we extend our local considerations to obtain a global description of the system.Comment: 1 LaTeX file, 4 figures in ps-files. Accepted for publication in Physical Review

RNA-seq Brings New Insights to the Intra-Macrophage Transcriptome of Salmonella Typhimurium.

Salmonella enterica serovar Typhimurium is arguably the world's best-understood bacterial pathogen. However, crucial details about the genetic programs used by the bacterium to survive and replicate in macrophages have remained obscure because of the challenge of studying gene expression of intracellular pathogens during infection. Here, we report the use of deep sequencing (RNA-seq) to reveal the transcriptional architecture and gene activity of Salmonella during infection of murine macrophages, providing new insights into the strategies used by the pathogen to survive in a bactericidal immune cell. We characterized 3583 transcriptional start sites that are active within macrophages, and highlight 11 of these as candidates for the delivery of heterologous antigens from Salmonella vaccine strains. A majority (88%) of the 280 S. Typhimurium sRNAs were expressed inside macrophages, and SPI13 and SPI2 were the most highly expressed pathogenicity islands. We identified 31 S. Typhimurium genes that were strongly up-regulated inside macrophages but expressed at very low levels during in vitro growth. The SalComMac online resource allows the visualisation of every transcript expressed during bacterial replication within mammalian cells. This primary transcriptome of intra-macrophage S.-Typhimurium describes the transcriptional start sites and the transcripts responsible for virulence traits, and catalogues the sRNAs that may play a role in the regulation of gene expression during infection

Variational Calculation of the Effective Action

An indication of spontaneous symmetry breaking is found in the two-dimensional $\lambda\phi^4$ model, where attention is paid to the functional form of an effective action. An effective energy, which is an effective action for a static field, is obtained as a functional of the classical field from the ground state of the hamiltonian $H[J]$ interacting with a constant external field. The energy and wavefunction of the ground state are calculated in terms of DLCQ (Discretized Light-Cone Quantization) under antiperiodic boundary conditions. A field configuration that is physically meaningful is found as a solution of the quantum mechanical Euler-Lagrange equation in the $J\to 0$ limit. It is shown that there exists a nonzero field configuration in the broken phase of $Z_2$ symmetry because of a boundary effect.Comment: 26 pages, REVTeX, 7 postscript figures, typos corrected and two references adde