Performance Models for Split-execution Computing Systems

Split-execution computing leverages the capabilities of multiple computational models to solve problems, but splitting program execution across different computational models incurs costs associated with the translation between domains. We analyze the performance of a split-execution computing system developed from conventional and quantum processing units (QPUs) by using behavioral models that track resource usage. We focus on asymmetric processing models built using conventional CPUs and a family of special-purpose QPUs that employ quantum computing principles. Our performance models account for the translation of a classical optimization problem into the physical representation required by the quantum processor while also accounting for hardware limitations and conventional processor speed and memory. We conclude that the bottleneck in this split-execution computing system lies at the quantum-classical interface and that the primary time cost is independent of quantum processor behavior.Comment: Presented at 18th Workshop on Advances in Parallel and Distributed Computational Models [APDCM2016] on 23 May 2016; 10 page

Extension of potential predictability of Indian summer monsoon dry and wet spells in recent decades

An understanding of the limit on potential predictability is crucial for developing appropriate tools for extended-range prediction of active/break spells of the Indian summer monsoon (ISM). The global low-frequency changes in climate modulate the annual cycle of the ISM and can influence the intrinsic predictability limit of the ISM intraseasonal oscillations (ISOs). Using 104-year (1901-2004) long daily rainfall data, the change in potential predictability of active and break spells are estimated by an empirical method. It is found that the potential predictability of both active and break spells have undergone a rapid increase during the recent three decades. The potential predictability of active spells has shown an increase from one week to two weeks while that for break spells increased from two weeks to three weeks. This result is interesting and intriguing in the backdrop of recent finding that the potential predictability of monsoon weather has decreased substantially over the same period compared to earlier decades due to increased potential instability of the atmosphere. The possible role of internal dynamics and external forcing in producing this change has been explored. The changes in energy exchange between the synoptic and ISO scale and the different ISO modes as evidenced by energetics computations in frequency domain also support the increased potential predictability of ISO. Our finding provides optimism for improved and useful extended-range prediction of monsoon active and break spells

Predicting and explaining behavioral intention and hand sanitizer use among US Army soldiers

Citation: Naiqing Lin, Kevin R. Roberts, (2017) Predicting and explaining behavioral intention and hand sanitizer use among US Army soldiers, In American Journal of Infection Control, 45(4),396-400. https://doi.org/10.1016/j.ajic.2016.11.008.According to the Centers for Disease Control and Prevention and the World Health Organization, simple hand washing is one of the most effective methods to prevent the spread of infectious diseases.1,2,3 The literature shows a strong and consistent association between personal hand hygiene and reduced gastrointestinal disease, respiratory illness, and absenteeism in the work force.1,4,5 Hands are the primary mode of transmission for many infectious diseases, particularly among military personnel.6 Hand hygiene is a proven measure of controlling infection in military settings

Monitoring coronary blood flow by laser speckle contrast imaging after myocardial ischaemia reperfusion injury in adult and aged mice

Introduction: Investigating coronary microvascular perfusion responses after myocardial infarction (MI) would aid in the development of flow preserving therapies. Laser speckle contrast imaging (LSCI) is a powerful tool used for real-time, non-contact, full-field imaging of blood flow in various tissues/organs. However, its use in the beating heart has been limited due to motion artifacts. Methods: In this paper, we report the novel use of LSCI, combined with custom speckle analysis software (SpAn), to visualise and quantitate changes in ventricular perfusion in adult and aged mice undergoing ischaemia-reperfusion (IR) injury. The therapeutic benefit of inhibiting the actions of the pro-inflammatory cytokine interleukin-36 (IL-36) was also investigated using an IL-36 receptor antagonist (IL-36Ra). Results: Imaging from uncovered and covered regions of the left ventricle demonstrated that whilst part of the LSCI flux signal was derived from beating motion, a significant contributor to the flux signal came from ventricular microcirculatory blood flow. We show that a biphasic flux profile corresponding to diastolic and systolic phases of the cardiac cycle can be detected without mathematically processing the total flux data to denoise motion artifacts. Furthermore, perfusion responses to ischaemia and postischaemia were strong, reproducible and could easily be detected without the need to subtract motion-related flux signals. LSCI also identified significantly poorer ventricular perfusion in injured aged mice following IR injury which markedly improved with IL-36Ra. Discussion: We therefore propose that LSCI of the heart is possible despite motion artifacts and may facilitate future investigations into the role of the coronary microcirculation in cardiovascular diseases and development of novel therapies

Endotoxin-free purification for the isolation of Bovine Viral Diarrhoea Virus E2 protein from insoluble inclusion body aggregates

Background: Protein expression in Escherichia coli may result in the recombinant protein being expressed as insoluble inclusion bodies. In addition, proteins purified from E. coli contain endotoxins which need to be removed for in vivo applications. The structural protein, E2, from Bovine Viral Diarrhoea Virus (BVDV) is a major immunogenic determinant, and is an ideal candidate as a subunit vaccine. The E2 protein contains 17 cysteine residues creating difficulties in E. coli expression. In this report we outline a procedure for successfully producing soluble and endotoxin-free BVDV E2 protein from inclusion bodies (IB).Results: The expression of a truncated form of BVDV-E2 protein (E2-T1) in E. coli resulted in predominantly aggregated insoluble IB. Solubilisation of E2-T1 with high purity and stability from IB aggregates was achieved using a strong reducing buffer containing 100 mM Dithiothreitol. Refolding by dialysis into 50 mM Tris (pH 7.0) containing 0.2% Igepal CA630 resulted in a soluble but aggregated protein solution. The novel application of a two-phase extraction of inclusion body preparations with Triton X-114 reduced endotoxin in solubilised E2-T1 to levels suitable for in vivo use without affecting protein yields. Dynamic light scattering analyses showed 37.5% of the protein was monomeric, the remaining comprised of soluble aggregates. Mice immunised with E2-T1 developed a high titre antibody response by ELISA. Western hybridisation analysis showed E2-T1 was recognised by sera from immunised mice and also by several BVDV-E2 polyclonal and monoclonal antibodies.Conclusion: We have developed a procedure using E. coli to produce soluble E2-T1 protein from IB, and due to their insoluble nature we utilised a novel approach using Triton X-114 to efficiently remove endotoxin. The resultant protein is immunogenic and detectable by BVDV-E2 specific antibodies indicating its usefulness for diagnostic applications and as a subunit vaccine. The optimised E. coli expression system for E2-T1 combined with methodologies for solubilisation, refolding and integrated endotoxin removal presented in this study should prove useful for other vaccine applications

Patterned Neuroprotection in the Inpp4awbl Mutant Mouse Cerebellum Correlates with the Expression of Eaat4

The weeble mutant mouse has a frame shift mutation in inositol polyphosphate 4-phosphatase type I (Inpp4a). The phenotype is characterized by an early onset cerebellar ataxia and neurodegeneration, especially apparent in the Purkinje cells. Purkinje cell loss is a common pathological finding in many human and mouse ataxic disorders. Here we show that in the Inpp4awbl mutant, Purkinje cells are lost in a specific temporal and spatial pattern. Loss occurs early in postnatal development; however, prior to the appearance of climbing fibers in the developing molecular layer, the mutant has a normal complement of Purkinje cells and they are properly positioned. Degeneration and reactive gliosis are present at postnatal day 5 and progress rapidly in a defined pattern of patches; however, Inpp4a is expressed uniformly across Purkinje cells. In late stage mutants, patches of surviving Purkinje cells appear remarkably normal with the exception that the climbing fibers have been excessively eliminated. Surviving Purkinje cells express Eaat4, a glutamate transporter that is differentially expressed in subsets of Purkinje cells during development and into adult stages. Prior to Purkinje cell loss, reactive gliosis and dendritic atrophy can be seen in Eaat4 negative stripes. Our data suggest that Purkinje cell loss in the Inpp4awbl mutant is due to glutamate excitotoxicity initiated by the climbing fiber, and that Eaat4 may exert a protective effect

Repertoire of Bovine miRNA and miRNA-Like Small Regulatory RNAs Expressed upon Viral Infection

MicroRNA (miRNA) and other types of small regulatory RNAs play a crucial role in the regulation of gene expression in eukaryotes. Several distinct classes of small regulatory RNAs have been discovered in recent years. To extend the repertoire of small RNAs characterized in mammals and to examine relationship between host miRNA expression and viral infection we used Illumina's ultrahigh throughput sequencing approach. We sequenced three small RNA libraries prepared from cell line derived from the adult bovine kidney under normal conditions and upon infection of the cell line with Bovine herpesvirus 1. We used a bioinformatics approach to distinguish authentic mature miRNA sequences from other classes of small RNAs and short RNA fragments represented in the sequencing data. Using this approach we detected 219 out of 356 known bovine miRNAs and 115 respective miRNA* sequences. In addition we identified five new bovine orthologs of known mammalian miRNAs and discovered 268 new cow miRNAs many of which are not identifiable in other mammalian genomes and thus might be specific to the ruminant lineage. In addition we found seven new bovine mirtron candidates. We also discovered 10 small nucleolar RNA (snoRNA) loci that give rise to small RNA with possible miRNA-like function. Results presented in this study extend our knowledge of the biology and evolution of small regulatory RNAs in mammals and illuminate mechanisms of small RNA biogenesis and function. New miRNA sequences and the original sequencing data have been submitted to miRNA repository (miRBase) and NCBI GEO archive respectively. We envisage that these resources will facilitate functional annotation of the bovine genome and promote further functional and comparative genomics studies of small regulatory RNA in mammals

Correlations between morphology, crystal structure and magnetization of epitaxial cobalt-platinum films grown with pulsed laser ablation

The effects of growth rate (G_r), deposition temperature (T_d), film thickness (t_F), and substrate induced strain (epsilon) on morphological, crystallographic and magnetic characteristics of equiatomic CoPt epitaxial films synthesized with PLD are investigated. The (001) substrates of MgO, STO and LAO provide different degree of epitaxial strain for growth of the disordered face centered cubic (fcc) and ordered face centered tetragonal (L1_0) phases of CoPt. The films deposited at T_d~600 ^0C on all three substrates are fcc with in-plane magnetization and a narrow hysteresis loop of width~200 Oe. The L1_0 phase, stabilized only at T_d~700 ^0C becomes predominantly c-axis oriented as T_d is increased to 800 ^0C. While the crystallographic structure of the films depends solely on the T_d, their microstructure and magnetization characteristics are decided by the growth rate. At the higher G_r (~1A/sec) the L1_0 films have a maze-like structure which converts to a continuous film as the t_F is increased from 20 to 50 nm. The H_c of these films increases as the L1_0 phase fraction grows with T_d and its orientation becomes out of the film plane. The evolution of microstructure with T_d is remarkably different at lower growth rate (~0.4A /sec). Here the structure changes from a self-similar fractal pattern to an assembly of nano-dots as the T_d is raised from 700 to 800 ^0C, and is understood in terms of the imbalance between strain and interfacial energies. MFM of such films reveals no distinct domain walls within the nano-islands while a clear contrast is seen between the islands of reversed magnetization. The simple picture of coherent rotation of moment appears incompatible with the time dependence of the remanent magnetization in these films.Comment: 10 figure