Simulating Turbulence Using the Astrophysical Discontinuous Galerkin Code TENET

In astrophysics, the two main methods traditionally in use for solving the Euler equations of ideal fluid dynamics are smoothed particle hydrodynamics and finite volume discretization on a stationary mesh. However, the goal to efficiently make use of future exascale machines with their ever higher degree of parallel concurrency motivates the search for more efficient and more accurate techniques for computing hydrodynamics. Discontinuous Galerkin (DG) methods represent a promising class of methods in this regard, as they can be straightforwardly extended to arbitrarily high order while requiring only small stencils. Especially for applications involving comparatively smooth problems, higher-order approaches promise significant gains in computational speed for reaching a desired target accuracy. Here, we introduce our new astrophysical DG code TENET designed for applications in cosmology, and discuss our first results for 3D simulations of subsonic turbulence. We show that our new DG implementation provides accurate results for subsonic turbulence, at considerably reduced computational cost compared with traditional finite volume methods. In particular, we find that DG needs about 1.8 times fewer degrees of freedom to achieve the same accuracy and at the same time is more than 1.5 times faster, confirming its substantial promise for astrophysical applications.Comment: 21 pages, 7 figures, to appear in Proceedings of the SPPEXA symposium, Lecture Notes in Computational Science and Engineering (LNCSE), Springe

Studying the effect of chloroquine on sporozoite-induced protection and immune responses in Plasmodium berghei malaria

BACKGROUND Sporozoite immunization of animals and humans under a chemo-prophylactic cover of chloroquine (CPS-CQ) efficiently induces sterile protection against malaria. In humans, CPS-CQ is strikingly more efficient than immunization with radiation attenuated sporozoites (RAS), raising the hypothesis that this might be partially due to CQ. Chloroquine, an established anti-malarial drug, is also well known for its immune modulating properties including improvement of cross-presentation. The aim of this study was to investigate whether co-administration of CQ during sporozoite immunization improves cellular responses and protective efficacy in Plasmodium berghei models. METHODS A number of experiments in selected complimentary P. berghei murine models in Balb/cByJ and C57BL/6j mice was performed. First, the effect of CQ administration on the induction of protection and immune responses by RAS immunization was studied. Next, the effect of CQ on the induction of circumsporozoite (CS) protein-specific CD8(+) T cells by immunization with P. berghei parasites expressing a mutant CS protein was investigated. Finally, a direct comparison of CPS-CQ to CPS with mefloquine (MQ), an anti-malarial with little known immune modulating effects, was performed. RESULTS When CQ was co-administered during immunization with graded numbers of RAS, this did not lead to an increase in frequencies of total memory CD8(+) T cells or CS protein-specific CD8(+) T cells. Also parasite-specific cytokine production and protection remained unaltered. Replacement of CQ by MQ for CPS immunization resulted in significantly reduced percentages of IFNγ producing memory T cells in the liver (p = 0.01), but similar protection. CONCLUSIONS This study does not provide evidence for a direct beneficial effect of CQ on the induction of sporozoite-induced immune responses and protection in P. berghei malaria models. Alternatively, the higher efficiency of CPS compared to RAS might be explained by an indirect effect of CQ through limiting blood-stage exposure after immunization or to increased antigen exposure and, therefore, improved breadth of the immune response.EMB was supported by Top Institute Pharma (grant T4-102) and KN was supported by the NWO Mozaiek (grant no. 017.005.011)

Artefacts in geometric phase analysis of compound materials

The geometric phase analysis (GPA) algorithm is known as a robust and straightforward technique that can be used to measure lattice strains in high resolution transmission electron microscope (TEM) images. It is also attractive for analysis of aberration-corrected scanning TEM (ac-STEM) images that resolve every atom column, since it uses Fourier transforms and does not require real-space peak detection and assignment to appropriate sublattices. Here it is demonstrated that in ac-STEM images of compound materials (i.e. with more than one atom per unit cell) an additional phase is present in the Fourier transform. If the structure changes from one area to another in the image (e.g. across an interface), the change in this additional phase will appear as a strain in conventional GPA, even if there is no lattice strain. Strategies to avoid this pitfall are outlined.Comment: 9 pages, 7 figures, Preprint before review, submitted to Ultramicroscopy 7 April 201

Uniform and fast switching of window-size smectic A liquid crystal panels utilising the field gradient generated at the fringes of patterned electrodes

A method to enable smectic A (SmA) liquid crystal (LC) devices to switch uniformly and hence fast from the clear state to a scattered state is presented. It will allow the reduction of the switching time for a SmA LC panel of 1x1 m2 changing from a clear state to a fully scattered state by more than three orders to a few tens of milliseconds. Experimental results presented here reveal that SmA LC scattering initiates from the nucleated LC defects at the field gradient of the applied electric field usually along the edges of the panel electrode and grows laterally to spread over a panel, which takes a long time if the panel size is large. By patterning the electrodes in use, it is possible to create a large number of field gradient sites near the electrode discontinuities, resulting in a uniform and fast switching over the whole panel and the higher the pattern density the shorter the panel switching time. For the SmA LC panels used here, the ITO transparent electrodes are patterned by laser ablation and photolithography, respectively. It is shown that the defect nucleation time is much shorter than the growth time of the scattered region, hence it is possible to use the density of the field gradient sites to control the uniformity and switching time of a panel. Furthermore, the patterned SmA panels have a lower switching voltage than that of the non-patterned ones in general.The authors would like to thank the UK Engineering and Physical Sciences Research Council (EPSRC) for the support through the Platform Grant for Liquid Crystal Photonics (EP/F00897X/1) and Dr Anthony Davey for providing the organic SmA LC and Dow Corning Corp. for providing the siloxane-based SmA LC used in this study. The authors would also like to thank Dr Stuart Speakman for the helpful discussions.This is the final version of the article. It first appeared from Taylor & Francis via http://dx.doi.org/10.1080/02678292.2016.114201

Routine administration of oral polio vaccine in a subtropical area. Factors possibly influencing sero-conversion rates

Poliomyelitis is an important problem of public health in warm-climate countries. Studies of serological responses to vaccination in these countries have given conflicting results but in many investigations the rates have been considerably less than in countries with temperate climates. In this study three possible factors influencing sero-conversion were investigated - the season of the year when vaccine was given, the social status of the mother (as indicated by the number of years of schooling) and the presence of non-poliomyelitis viruses (NPV) in the gut when vaccine was given. Over 200 children about 2 months of age were included in the study. Each was given three doses of trivalent vaccine at 6-week intervals. The sero-conversion rates of the groups fed in winter were excellent but were slightly less good in summer. The differences were greatest in children in the lower socio-economic groups and in children excreting other enteroviruses. The conclusions are that, provided a potent vaccine is used, the factors which diminish the effectiveness of immunization in warm-climate countries can be overcome: (1) by giving three doses of trivalent vaccine; (2) by beginning vaccination at the earliest possible age (when enteroviruses are fewest); (3) by concentrating special attention on the lower socio-economic groups and if necessary by giving a reinforcing dose several months after the third dose has been given - preferably in the colder month

Achieving equity through 'gender autonomy': the challenges for VET policy and practice

This paper is based on research carried out in an EU Fifth Framework project on 'Gender and Qualification'. The research partners from five European countries investigated the impact of gender segregation in European labour markets on vocational education and training, with particular regard to competences and qualifications. The research explored the part played by gender in the vocational education and training experiences of (i) young adults entering specific occupations in child care, electrical engineering and food preparation/service (ii) adults changing occupations

Discontinuous Galerkin method for multifluid Euler equations

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/106454/1/AIAA2013-2595.pd

An effective and efficient approach for manually improving geocoded data

<p>Abstract</p> <p>Background</p> <p>The process of geocoding produces output coordinates of varying degrees of quality. Previous studies have revealed that simply excluding records with low-quality geocodes from analysis can introduce significant bias, but depending on the number and severity of the inaccuracies, their inclusion may also lead to bias. Little quantitative research has been presented on the cost and/or effectiveness of correcting geocodes through manual interactive processes, so the most cost effective methods for improving geocoded data are unclear. The present work investigates the time and effort required to correct geocodes contained in five health-related datasets that represent examples of data commonly used in Health GIS.</p> <p>Results</p> <p>Geocode correction was attempted on five health-related datasets containing a total of 22,317 records. The complete processing of these data took 11.4 weeks (427 hours), averaging 69 seconds of processing time per record. Overall, the geocodes associated with 12,280 (55%) of records were successfully improved, taking 95 seconds of processing time per corrected record on average across all five datasets. Geocode correction improved the overall match rate (the number of successful matches out of the total attempted) from 79.3 to 95%. The spatial shift between the location of original successfully matched geocodes and their corrected improved counterparts averaged 9.9 km per corrected record. After geocode correction the number of city and USPS ZIP code accuracy geocodes were reduced from 10,959 and 1,031 to 6,284 and 200, respectively, while the number of building centroid accuracy geocodes increased from 0 to 2,261.</p> <p>Conclusion</p> <p>The results indicate that manual geocode correction using a web-based interactive approach is a feasible and cost effective method for improving the quality of geocoded data. The level of effort required varies depending on the type of data geocoded. These results can be used to choose between data improvement options (e.g., manual intervention, pseudocoding/geo-imputation, field GPS readings).</p

The Unfulfilled Potential of Data-Driven Decision Making in Agile Software Development

With the general trend towards data-driven decision making (DDDM), organizations are looking for ways to use DDDM to improve their decisions. However, few studies have looked into the practitioners view of DDDM, in particular for agile organizations. In this paper we investigated the experiences of using DDDM, and how data can improve decision making. An emailed questionnaire was sent out to 124 industry practitioners in agile software developing companies, of which 84 answered. The results show that few practitioners indicated a widespread use of DDDM in their current decision making practices. The practitioners were more positive to its future use for higher-level and more general decision making, fairly positive to its use for requirements elicitation and prioritization decisions, while being less positive to its future use at the team level. The practitioners do see a lot of potential for DDDM in an agile context; however, currently unfulfilled