Symplectic Cuts and Projection Quantization

The recently proposed projection quantization, which is a method to quantize particular subspaces of systems with known quantum theory, is shown to yield a genuine quantization in several cases. This may be inferred from exact results established within symplectic cutting.Comment: 12 pages, v2: additional examples and a new reference to related wor

REAPR: a universal tool for genome assembly evaluation.

Methods to reliably assess the accuracy of genome sequence data are lacking. Currently completeness is only described qualitatively and mis-assemblies are overlooked. Here we present REAPR, a tool that precisely identifies errors in genome assemblies without the need for a reference sequence. We have validated REAPR on complete genomes or de novo assemblies from bacteria, malaria and Caenorhabditis elegans, and demonstrate that 86% and 82% of the human and mouse reference genomes are error-free, respectively. When applied to an ongoing genome project, REAPR provides corrected assembly statistics allowing the quantitative comparison of multiple assemblies. REAPR is available at http://www.sanger.ac.uk/resources/software/reapr/

Efficient Quantum Circuits for Non-Qubit Quantum Error-Correcting Codes

We present two methods for the construction of quantum circuits for quantum error-correcting codes (QECC). The underlying quantum systems are tensor products of subsystems (qudits) of equal dimension which is a prime power. For a QECC encoding k qudits into n qudits, the resulting quantum circuit has O(n(n-k)) gates. The running time of the classical algorithm to compute the quantum circuit is O(n(n-k)^2).Comment: 18 pages, submitted to special issue of IJFC

Nondestructive testing techniques used in analysis of honeycomb structure bond strength

DOT /Driver-Displacement Oriented Transducer/, applicable to both lap shear type application and honeycomb sandwich structures, measures the displacement of the honeycomb composite face sheet. It incorporates an electromagnetic driver and a displacement measuring system into a single unit to provide noncontact bond strength measurements

Imaging starspot evolution on Kepler target KIC 5110407 using light curve inversion

The Kepler target KIC 5110407, a K-type star, shows strong quasi-periodic light curve fluctuations likely arising from the formation and decay of spots on the stellar surface rotating with a period of 3.4693 days. Using an established light-curve inversion algorithm, we study the evolution of the surface features based on Kepler space telescope light curves over a period of two years (with a gap of .25 years). At virtually all epochs, we detect at least one large spot group on the surface causing a 1-10% flux modulation in the Kepler passband. By identifying and tracking spot groups over a range of inferred latitudes, we measured the surface differential rotation to be much smaller than that found for the Sun. We also searched for a correlation between the seventeen stellar flares that occurred during our observations and the orientation of the dominant surface spot at the time of each flare. No statistically-significant correlation was found except perhaps for the very brightest flares, suggesting most flares are associated with regions devoid of spots or spots too small to be clearly discerned using our reconstruction technique. While we may see hints of long-term changes in the spot characteristics and flare statistics within our current dataset, a longer baseline of observation will be needed to detect the existence of a magnetic cycle in KIC 5110407.Comment: 32 pages, 15 figures, accepted to Ap

Management of HCV Infection and Liver Transplantation

A major challenge facing liver transplant recipients and their physicians is recurrence of hepatitis C virus infection following otherwise technically successful liver transplantation. Recurrent infection leads to diminished graft and patient survival. Although a number or predictors of severe recurrence have been identified, no definitive strategy has been developed to prevent recurrence. Generally the tempo of hepatitis C recurrence is gauged by serial liver biopsies with the decision to intervene with antiviral therapy based on local philosophy and expertise. Treating hepatitis C in this population has a number of major challenges including diminished patient tolerance for side-effects as well as managing the patient's immunesuppression. However sustained viral responses are possible with the potential to reduce the impact of recurrent hepatitis on the graft. However recurrent hepatitis C virus infection will remain the most frequent form of recurrent disease in liver transplant programs for the foreseeable future

Kinematically redundant robot manipulators

Research on control, design and programming of kinematically redundant robot manipulators (KRRM) is discussed. These are devices in which there are more joint space degrees of freedom than are required to achieve every position and orientation of the end-effector necessary for a given task in a given workspace. The technological developments described here deal with: kinematic programming techniques for automatically generating joint-space trajectories to execute prescribed tasks; control of redundant manipulators to optimize dynamic criteria (e.g., applications of forces and moments at the end-effector that optimally distribute the loading of actuators); and design of KRRMs to optimize functionality in congested work environments or to achieve other goals unattainable with non-redundant manipulators. Kinematic programming techniques are discussed, which show that some pseudo-inverse techniques that have been proposed for redundant manipulator control fail to achieve the goals of avoiding kinematic singularities and also generating closed joint-space paths corresponding to close paths of the end effector in the workspace. The extended Jacobian is proposed as an alternative to pseudo-inverse techniques

Oncogenic K-Ras suppresses IP₃-dependent Ca²⁺ release through remodeling of IP₃Rs isoform composition and ER luminal Ca²⁺ levels in colorectal cancer cell lines

The GTPase Ras is a molecular switch engaged downstream of G-protein coupled receptors and receptor tyrosine inases that controls multiple cell fate-determining signalling athways. Ras signalling is frequently deregulated in cancer underlying associated changes in cell phenotype. Although Ca2+ signalling pathways control some overlapping functions with Ras, and altered Ca2+ signalling pathways are emerging as important players in oncogenic transformation, how Ca2+ signalling is remodelled during transformation and whether it has a causal role remains unclear. We have investigated Ca2+ signalling in two human colorectal cancer cell lines and their isogenic derivatives in which the mutated K-Ras allele (G13D) has been deleted by homologous recombination. We show that agonist-induced Ca2+ release from intracellular stores is enhanced by loss of K-RasG13D through an increase in the ER store content and a modification of IP3R subtype abundance. Consistently, uptake of Ca2+ into mitochondria and sensitivity to apoptosis was enhanced as a result of KRasG13D loss. These results suggest that suppression of Ca2+ signalling is a common response to naturally occurring levels of K-RasG13D that contributes to a survival advantage during oncogenic transformation

Effects of Gamma Ray Bursts in Earth Biosphere

We continue former work on the modeling of potential effects of Gamma Ray Bursts on Phanerozoic Earth. We focus on global biospheric effects of ozone depletion and show a first modeling of the spectral reduction of light by NO2 formed in the stratosphere. We also illustrate the current complexities involved in the prediction of how terrestrial ecosystems would respond to this kind of burst. We conclude that more biological field and laboratory data are needed to reach even moderate accuracy in this modelingComment: Accepted for publication in Astrophysics & Space Scienc