The Sensitivity of Multidimensional Nova Calculations to the Outer Boundary Conditions

Multidimensional reactive flow models of accreted hydrogen rich envelopes on top of degenerate cold white dwarfs are very effective tools for the study of critical, non spherically symmetric, behaviors during the early stages of nova outbursts. Such models can shed light both on the mechanism responsible for the heavy element enrichment observed to characterize nova envelope matter and on the role of perturbations during the early stages of ignition of the runaway. The complexity of convective reactive flow in multi-dimensions makes the computational model itself complex and sensitive to the details of the numerics. In this study, we demonstrate that the imposed outer boundary condition can have a dramatic effect on the solution. Several commonly used choices for the outer boundary conditions are examined. It is shown that the solutions obtained from Lagrangian simulations, where the envelope is allowed to expand and mass is being conserved, are consistent with spherically symmetric solutions. In Eulerian schemes which utilize an outer boundary condition of free outflow, the outburst can be artificially quenched.Comment: 12 Pages 3 figures; Accepted for publication in the Astrophysical Journa

Novae -The study of the reactive flow

There is a wide consensus in the astrophysics community that the mechanism underlying the observed Classical Nova eruptions is a surface thermonuclear runaway. We start this short review with the main observational facts that lead to the theoretical model of a thermonuclear runaway that takes place in an accreted hydrogen rich envelope placed on top of a cool degenerate core of a white dwarf. According to the theory, the accreted envelope becomes unstable to convection days to weeks prior to the runaway. During the extreme stages of the runaway itself, when the burning is most efficient, the envelope is fully convective. Therefore, the elements processed under such extreme conditions are lifted to the outermost regions of the star. A significant fraction of the envelope is ejected during the outburst. The complicated combination of hydrodynamic instabilities and explosive hydrogen burning, close to the surface of the star, gives us a unique opportunity to study this complex reactive flow. The range of core masses, core temperatures and accretion rates introduce a whole range of burning temperatures and densities. Following the description of the "standard" cases, we then focus on rare, but still possible, portions of the relevant parameter space, in which "breakout" of the traditional CNO cycle can occur and lead to heavy element enrichment patterns caused only by breakout burning. We conclude our review with the main challenges that nova theorists face today, with special emphasis on problems related to the nucleosynthesis issues.Comment: Proceedings of: Nuclear Physics in Astrophysics-V,Eilat,April,201

Thinking strategically about assessment

Drawing upon the literature on strategy formulation in organisations, this paper argues for a focus on strategy as process. It relates this to the need to think strategically about assessment, a need engendered by resource pressures, developments in learning and the demands of external stakeholders. It is argued that in practice assessment strategies are often formed at the level of practice, but that this produces contradiction and confusion at higher levels. Such tensions cannot be managed away, but they can be reflected on and mitigated. The paper suggests a framework for the construction of assessment strategies at different levels of an institution. However, the main conclusion is that the process of constructing such strategies should be an opportunity for learning and reflection, rather than one of compliance

Logarithmically Slow Expansion of Hot Bubbles in Gases

We report logarithmically slow expansion of hot bubbles in gases in the process of cooling. A model problem first solved, when the temperature has compact support. Then temperature profile decaying exponentially at large distances is considered. The periphery of the bubble is shown to remain essentially static ("glassy") in the process of cooling until it is taken over by a logarithmically slowly expanding "core". An analytical solution to the problem is obtained by matched asymptotic expansion. This problem gives an example of how logarithmic corrections enter dynamic scaling.Comment: 4 pages, 1 figur

Long-term effectiveness of a digital therapeutic intervention for smoking cessation: a randomized controlled trial

Introduction: The present study evaluated the long-term effectiveness of Quit Genius (QG), an extended digital smoking cessation intervention. Methods: Participants were adult smokers (N=556) recruited between January and November of 2019 via social media and referrals from primary care practices who were given nicotine replacement therapy and randomly assigned to Quit Genius (QG) (n=277), a cognitive behavioral therapy (CBT) based digital intervention or Very Brief Advice (VBA) (n=279), a face-to-face control intervention. Primary analyses (N=530), by intention-to-treat, compared QG and VBA on biochemically verified continuous 7-day abstinence at 4, 26, and 52 weeks post-quit date. Secondary outcomes included sustained abstinence, quit attempts, self-efficacy and mental well-being. Results: Seven-day point prevalence abstinence from weeks 4 through 52 ranged from 27% to nearly 45% among those who received QG, and from 13% to 29% for those in VBA. Continuous 7-day abstinence at 26 and 52 weeks occurred in 27.2% and 22.6% of QG participants, respectively, relative to 16.6% and 13.2% of VBA participants; QG participants were more likely to remain abstinent than those in VBA (Relative Risk [RR]= 1.71, 95% CI 1.17-2.50; p=0.005). Conclusions: This study provides evidence for the long-term effectiveness of an extended digital therapeutic intervention. Implications The long-term effectiveness of digital smoking cessation interventions has not been well-studied. This study established the long-term effectiveness of an extended CBT-based intervention; results may inform implementation of scalable, cost-effective approaches to smoking cessation in the health system

MAESTRO: An Adaptive Low Mach Number Hydrodynamics Algorithm for Stellar Flows

Many astrophysical phenomena are highly subsonic, requiring specialized numerical methods suitable for long-time integration. In a series of earlier papers we described the development of MAESTRO, a low Mach number stellar hydrodynamics code that can be used to simulate long-time, low-speed flows that would be prohibitively expensive to model using traditional compressible codes. MAESTRO is based on an equation set derived using low Mach number asymptotics; this equation set does not explicitly track acoustic waves and thus allows a significant increase in the time step. MAESTRO is suitable for two- and three-dimensional local atmospheric flows as well as three-dimensional full-star flows. Here, we continue the development of MAESTRO by incorporating adaptive mesh refinement (AMR). The primary difference between MAESTRO and other structured grid AMR approaches for incompressible and low Mach number flows is the presence of the time-dependent base state, whose evolution is coupled to the evolution of the full solution. We also describe how to incorporate the expansion of the base state for full-star flows, which involves a novel mapping technique between the one-dimensional base state and the Cartesian grid, as well as a number of overall improvements to the algorithm. We examine the efficiency and accuracy of our adaptive code, and demonstrate that it is suitable for further study of our initial scientific application, the convective phase of Type Ia supernovae.Comment: Accepted to Astrophysical Journal Suppliment (http://iop.org). 56 pages, 15 figures

No evidence of xenotropic murine leukemia virus-related virus transmission by blood transfusion from infected rhesus macaques

The discovery of xenotropic murine leukemia virus-related virus (XMRV) in human tissue samples has been shown to be due to virus contamination with a recombinant murine retrovirus. However, due to the unknown pathogenicity of this novel retrovirus and its broad host range, including human cell lines, it is important to understand the modes of virus transmission and develop mitigation and management strategies to reduce the risk of human exposure and infection. XMRV transmission was evaluated by whole-blood transfusion in rhesus macaques. Monkeys were infected with XMRV to serve as donor monkeys for blood transfers at weeks 1, 2, and 3 into naïve animals. The donor and recipient monkeys were evaluated for XMRV infection by nested PCR assays with nucleotide sequence confirmation, Western blot assays for development of virus-specific antibodies, and coculture of monkey peripheral blood mononuclear cells (PBMCs) with a sensitive target cell line for virus isolation. XMRV infection was demonstrated in the virus-injected donor monkeys, but there was no evidence of virus transmission by whole-blood transfusion to naïve monkeys based upon PCR analysis of PBMCs using XMRV-specific gag and env primers, Western blot analysis of monkey plasma up to 31 to 32 weeks after transfusion, and coculture studies using monkey PBMCs from various times after transfusion. The study demonstrates the lack of XMRV transmission by whole-blood transfusion during the acute phase of infection. Furthermore, analysis of PBMC viral DNA showed extensive APOBEC-mediated G-to-A hypermutation in a donor animal at week 9, corroborating previous results using macaques and supporting the possible restriction of XMRV replication in humans by a similar mechanism

Vancomycin-resistant enterococci (VRE) in hospital settings across European borders:a scoping review comparing the epidemiology in the Netherlands and Germany

The rising prevalence of vancomycin-resistant enterococci (VRE) is a matter of concern in hospital settings across Europe without a distinct geographical pattern. In this scoping review, we compared the epidemiology of vancomycin-resistant Enterococcus spp. in hospitals in the Netherlands and Germany, between 1991 and 2022. We searched PubMed and summarized the national antibiotic resistance surveillance data of the two countries. We included 46 studies and summarized national surveillance data from the NethMap in the Netherlands, the National Antimicrobial Resistance Surveillance database in Germany, and the EARS-Net data. In total, 12 studies were conducted in hospitals in the Netherlands, 32 were conducted in German hospitals, and an additional two studies were conducted in a cross-border setting. The most significant difference between the two countries was that studies in Germany showed an increasing trend in the prevalence of VRE in hospitals, and no such trend was observed in studies in the Netherlands. Furthermore, in both Dutch and German hospitals, it has been revealed that the molecular epidemiology of VREfm has shifted from a predominance of vanA towards vanB over the years. According to national surveillance reports, vancomycin resistance in Enterococcus faecium clinical isolates fluctuates below 1% in Dutch hospitals, whereas it follows an increasing trend in German hospitals (above 20%), as supported by individual studies. This review demonstrates that VRE is more frequently encountered in German than in Dutch hospitals and discusses the underlying factors for the difference in VRE occurrence in these two neighboring countries by comparing differences in healthcare systems, infection prevention control (IPC) guidelines, and antibiotic use in the Netherlands and Germany

CGHScan: finding variable regions using high-density microarray comparative genomic hybridization data

BACKGROUND: Comparative genomic hybridization can rapidly identify chromosomal regions that vary between organisms and tissues. This technique has been applied to detecting differences between normal and cancerous tissues in eukaryotes as well as genomic variability in microbial strains and species. The density of oligonucleotide probes available on current microarray platforms is particularly well-suited for comparisons of organisms with smaller genomes like bacteria and yeast where an entire genome can be assayed on a single microarray with high resolution. Available methods for analyzing these experiments typically confine analyses to data from pre-defined annotated genome features, such as entire genes. Many of these methods are ill suited for datasets with the number of measurements typical of high-density microarrays. RESULTS: We present an algorithm for analyzing microarray hybridization data to aid identification of regions that vary between an unsequenced genome and a sequenced reference genome. The program, CGHScan, uses an iterative random walk approach integrating multi-layered significance testing to detect these regions from comparative genomic hybridization data. The algorithm tolerates a high level of noise in measurements of individual probe intensities and is relatively insensitive to the choice of method for normalizing probe intensity values and identifying probes that differ between samples. When applied to comparative genomic hybridization data from a published experiment, CGHScan identified eight of nine known deletions in a Brucella ovis strain as compared to Brucella melitensis. The same result was obtained using two different normalization methods and two different scores to classify data for individual probes as representing conserved or variable genomic regions. The undetected region is a small (58 base pair) deletion that is below the resolution of CGHScan given the array design employed in the study. CONCLUSION: CGHScan is an effective tool for analyzing comparative genomic hybridization data from high-density microarrays. The algorithm is capable of accurately identifying known variable regions and is tolerant of high noise and varying methods of data preprocessing. Statistical analysis is used to define each variable region providing a robust and reliable method for rapid identification of genomic differences independent of annotated gene boundaries

Patterns of subnet usage reveal distinct scales of regulation in the transcriptional regulatory network of Escherichia coli

The set of regulatory interactions between genes, mediated by transcription factors, forms a species' transcriptional regulatory network (TRN). By comparing this network with measured gene expression data one can identify functional properties of the TRN and gain general insight into transcriptional control. We define the subnet of a node as the subgraph consisting of all nodes topologically downstream of the node, including itself. Using a large set of microarray expression data of the bacterium Escherichia coli, we find that the gene expression in different subnets exhibits a structured pattern in response to environmental changes and genotypic mutation. Subnets with less changes in their expression pattern have a higher fraction of feed-forward loop motifs and a lower fraction of small RNA targets within them. Our study implies that the TRN consists of several scales of regulatory organization: 1) subnets with more varying gene expression controlled by both transcription factors and post-transcriptional RNA regulation, and 2) subnets with less varying gene expression having more feed-forward loops and less post-transcriptional RNA regulation.Comment: 14 pages, 8 figures, to be published in PLoS Computational Biolog