Calibration of thickness-dependent k-factors for germanium X-ray lines to improve energy-dispersive X-ray spectroscopy of SiGe layers in analytical transmission electron microscopy

We show that the accuracy of energy-dispersive X-ray spectroscopy can be improved by analysing and comparing multiple lines from the same element. For each line, an effective k-factor can be defined that varies as a function of the intensity ratio of multiple lines (e.g. K/L) from the same element. This basically performs an internal self-consistency check in the quantification using differently absorbed X-ray lines, which is in principle equivalent to an absorption correction as a function of specimen thickness but has the practical advantage that the specimen thickness itself does not actually need to be measured

High fidelity readout scheme for rare-earth solid state quantum computing

We propose and analyze a high fidelity readout scheme for a single instance approach to quantum computing in rare-earth-ion-doped crystals. The scheme is based on using different species of qubit and readout ions, and it is shown that by allowing the closest qubit ion to act as a readout buffer, the readout error can be reduced by more than an order of magnitude. The scheme is shown to be robust against certain experimental variations, such as varying detection efficiencies, and we use the scheme to predict the expected quantum fidelity of a CNOT gate in these solid state systems. In addition, we discuss the potential scalability of the protocol to larger qubit systems. The results are based on parameters which we believed are experimentally feasible with current technology, and which can be simultaneously realized.Comment: 7 pages, 5 figure

The complexity of gene expression dynamics revealed by permutation entropy

Background: High complexity is considered a hallmark of living systems. Here we investigate the complexity of temporal gene expression patterns using the concept of Permutation Entropy (PE) first introduced in dynamical systems theory. The analysis of gene expression data has so far focused primarily on the identification of differentially expressed genes, or on the elucidation of pathway and regulatory relationships. We aim to study gene expression time series data from the viewpoint of complexity.Results: Applying the PE complexity metric to abiotic stress response time series data in Arabidopsis thaliana, genes involved in stress response and signaling were found to be associated with the highest complexity not only under stress, but surprisingly, also under reference, non-stress conditions. Genes with house-keeping functions exhibited lower PE complexity. Compared to reference conditions, the PE of temporal gene expression patterns generally increased upon stress exposure. High-complexity genes were found to have longer upstream intergenic regions and more cis-regulatory motifs in their promoter regions indicative of a more complex regulatory apparatus needed to orchestrate their expression, and to be associated with higher correlation network connectivity degree. Arabidopsis genes also present in other plant species were observed to exhibit decreased PE complexity compared to Arabidopsis specific genes.Conclusions: We show that Permutation Entropy is a simple yet robust and powerful approach to identify temporal gene expression profiles of varying complexity that is equally applicable to other types of molecular profile data

Heralded generation of entangled photon pairs

Entangled photons are a crucial resource for quantum communication and linear optical quantum computation. Unfortunately, the applicability of many photon-based schemes is limited due to the stochastic character of the photon sources. Therefore, a worldwide effort has focused in overcoming the limitation of probabilistic emission by generating two-photon entangled states conditioned on the detection of auxiliary photons. Here we present the first heralded generation of photon states that are maximally entangled in polarization with linear optics and standard photon detection from spontaneous parametric down-conversion. We utilize the down-conversion state corresponding to the generation of three photon pairs, where the coincident detection of four auxiliary photons unambiguously heralds the successful preparation of the entangled state. This controlled generation of entangled photon states is a significant step towards the applicability of a linear optics quantum network, in particular for entanglement swapping, quantum teleportation, quantum cryptography and scalable approaches towards photonics-based quantum computing

Direct observation of molecular cooperativity near the glass transition

We describe direct observations of molecular cooperativity near the glass transition in poly-vinyl-acetate (PVAc), through nanometer-scale probing of dielectric fluctuations. Molecular clusters switched spontaneously between two to four distinct configurations, producing complex random-telegraph-signals (RTS). Analysis of the RTS and their power spectra shows that individual clusters exhibit both transient dynamical heterogeneity and non-exponential kinetics.Comment: 14 pages pdf, need Acrobat Reade

Angiogenic gene expression and vascular density are reflected in ultrasonographic features of synovitis in early Rheumatoid Arthritis: an observational study.

INTRODUCTION: Neovascularization contributes to the development of sustained synovial inflammation in the early stages of Rheumatoid Arthritis. Ultrasound (US) provides an indirect method of assessing synovial blood flow and has been shown to correlate with clinical disease activity in patients with Rheumatoid Arthritis. This study examines the relationship of US determined synovitis with synovial vascularity, angiogenic/lymphangiogenic factors and cellular mediators of inflammation in a cohort of patients with early Rheumatoid Arthritis (RA) patients prior to therapeutic intervention with disease modifying therapy or corticosteroids. METHODS: An ultrasound guided synovial biopsy of the supra-patella pouch was performed in 12 patients with early RA prior to treatment. Clinical, US and biochemical assessments were undertaken prior to the procedure. Ultrasound images and histological samples were obtained from the supra-patella pouch. Histological samples were stained for Factor VIII and a-SMA (a-smooth muscle actin). Using digital imaging analysis a vascular area score was recorded. QT-PCR (quantitative-PCR) of samples provided quantification of angiogenic and lymphangiogenic gene expression and immunohistochemistry stained tissue was scored for macrophage, T cell and B cell infiltration using an existing semi-quantitative score. RESULTS: Power Doppler showed a good correlation with histological vascular area (Spearman r--0.73) and angiogenic factors such as vascular endothelial growth factor-A (VEGF-A), Angiopoietin 2 and Tie-2. In addition, lymphangiogenic factors such as VEGF-C and VEGF-R3 correlated well with US assessment of synovitis. A significant correlation was also found between power Doppler and synovial thickness, pro-inflammatory cytokines and sub-lining macrophage infiltrate. Within the supra-patella pouch there was no significant difference in US findings, gene expression or inflammatory cell infiltrate between any regions of synovium biopsied. CONCLUSION: Ultrasound assessment of synovial tissue faithfully reflects synovial vascularity. Both grey scale and power Doppler synovitis in early RA patients correlate with a pro-angiogenic and lymphangiogenic gene expression profile. In early RA both grey scale and power Doppler synovitis are associated with a pro-inflammatory cellular and cytokine profile providing considerable validity in its use as an objective assessment of synovial inflammation in clinical practice

Hierarchic Superposition Revisited

Many applications of automated deduction require reasoning in first-order logic modulo background theories, in particular some form of integer arithmetic. A major unsolved research challenge is to design theorem provers that are "reasonably complete" even in the presence of free function symbols ranging into a background theory sort. The hierarchic superposition calculus of Bachmair, Ganzinger, and Waldmann already supports such symbols, but, as we demonstrate, not optimally. This paper aims to rectify the situation by introducing a novel form of clause abstraction, a core component in the hierarchic superposition calculus for transforming clauses into a form needed for internal operation. We argue for the benefits of the resulting calculus and provide two new completeness results: one for the fragment where all background-sorted terms are ground and another one for a special case of linear (integer or rational) arithmetic as a background theory

Terahertz two-photon quantum well infrared photodetector.

A two-photon detector based on intersubband transitions in GaAs/AlGaAs quantum wells operating in the Terahertz regime below the Reststrahlenband is reported. Resonantly enhanced optical nonlinearities enables sensitive quadratic detection at pJ pulse energies. We demonstrate its use in a quadratic autocorrelator for far-infrared picosecond pulses at around 7 THz

Bitwise Bell inequality violations for an entangled state involving 2N ions

Following on from previous work [J. A. Larsson, Phys. Rev. A 67, 022108 (2003)], Bell inequalities based on correlations between binary digits are considered for a particular entangled state involving 2N trapped ions. These inequalities involve applying displacement operations to half of the ions and then measuring correlations between pairs of corresponding bits in the binary representations of the number of centre-of-mass phonons of N particular ions. It is shown that the state violates the inequalities and thus displays nonclassical correlations. It is also demonstrated that it violates a Bell inequality when the displacements are replaced by squeezing operations.Comment: 12 pages, 5 figures, accepted for publication in Phys. Rev.

Assessing uncertainties in flood forecasts for decision making: prototype of an operational flood management system integrating ensemble predictions

Ensemble forecasts aim at framing the uncertainties of the potential future development of the hydro-meteorological situation. A probabilistic evaluation can be used to communicate forecast uncertainty to decision makers. Here an operational system for ensemble based flood forecasting is presented, which combines forecasts from the European COSMO-LEPS, SRNWP-PEPS and COSMO-DE prediction systems. A multi-model lagged average super-ensemble is generated by recombining members from different runs of these meteorological forecast systems. A subset of the super-ensemble is selected based on a priori model weights, which are obtained from ensemble calibration. Flood forecasts are simulated by the conceptual rainfall-runoff-model ArcEGMO. Parameter uncertainty of the model is represented by a parameter ensemble, which is a priori generated from a comprehensive uncertainty analysis during model calibration. The use of a computationally efficient hydrological model within a flood management system allows us to compute the hydro-meteorological model chain for all members of the sub-ensemble. The model chain is not re-computed before new ensemble forecasts are available, but the probabilistic assessment of the output is updated when new information from deterministic short range forecasts or from assimilation of measured data becomes available. For hydraulic modelling, with the desired result of a probabilistic inundation map with high spatial resolution, a replacement model can help to overcome computational limitations. A prototype of the developed framework has been applied for a case study in the Mulde river basin. However these techniques, in particular the probabilistic assessment and the derivation of decision rules are still in their infancy. Further research is necessary and promising