Early Observations on Performance of Google Compute Engine for Scientific Computing

Although Cloud computing emerged for business applications in industry, public Cloud services have been widely accepted and encouraged for scientific computing in academia. The recently available Google Compute Engine (GCE) is claimed to support high-performance and computationally intensive tasks, while little evaluation studies can be found to reveal GCE's scientific capabilities. Considering that fundamental performance benchmarking is the strategy of early-stage evaluation of new Cloud services, we followed the Cloud Evaluation Experiment Methodology (CEEM) to benchmark GCE and also compare it with Amazon EC2, to help understand the elementary capability of GCE for dealing with scientific problems. The experimental results and analyses show both potential advantages of, and possible threats to applying GCE to scientific computing. For example, compared to Amazon's EC2 service, GCE may better suit applications that require frequent disk operations, while it may not be ready yet for single VM-based parallel computing. Following the same evaluation methodology, different evaluators can replicate and/or supplement this fundamental evaluation of GCE. Based on the fundamental evaluation results, suitable GCE environments can be further established for case studies of solving real science problems.Comment: Proceedings of the 5th International Conference on Cloud Computing Technologies and Science (CloudCom 2013), pp. 1-8, Bristol, UK, December 2-5, 201

Bayesian inferencing for wind resource characterisation

The growing role of wind power in power systems has motivated R&D on methodologies to characterise the wind resource at sites for which no wind speed data is available. Applications such as feasibility assessment of prospective installations and system integration analysis of future scenarios, amongst others, can greatly benefit from such methodologies. This paper focuses on the inference of wind speeds for such potential sites using a Bayesian approach to characterise the spatial distribution of the resource. To test the approach, one year of wind speed data from four weather stations was modelled and used to derive inferences for a fifth site. The methodology used is described together with the model employed and simulation results are presented and compared to the data available for the fifth site. The results obtained indicate that Bayesian inference can be a useful tool in spatial characterisation of wind

A Comprehensive Study of Hydrolyzed Polyacrylamide as a Binder for Silicon Anodes.

Silicon anodes have a high theoretical capacity for lithium storage, but current composite electrode formulations are not sufficiently stable under long-term electrochemical cycling. The choice of polymeric binder has been shown to impact stability and capacity of silicon anodes for electrochemical energy storage. While several promising polymeric binders have been identified, there is a knowledge gap in how various physicochemical properties-including adhesion, mechanical integrity, and ion diffusion-impact electrochemical stability and performance. In this work, we comprehensively investigate the physical properties and performance of a molecular-weight series (3-20 × 106 g/mol) of partially hydrolyzed polyacrylamide (HPAM) in silicon anodes. We quantify the mechanical strength, electrolyte uptake, adhesion to silicon, copper, and carbon, as well as electrochemical performance and stability and find that HPAM satisfies many of the properties generally believed to be favorable, including good adhesion, high strength, and electrochemical stability. HPAM does not show any electrolyte uptake regardless of any molecular weight studied, and thin films of mid- and high-molecular-weight HPAM on silicon surfaces suppress lithiation of silicon. The resulting composite electrodes exhibit an electrochemical storage capacity greater than 3000 mAh/g initially and 1639 mAh/g after 100 cycles. We attribute capacity fade to failure of mechanical properties of the binder or an excess of the solid electrolyte interphase layer being formed at the Si surface. While the highest-molecular-weight sample was expected to perform the best given its stronger adhesion and bulk mechanical properties, we found that HPAM of moderate molecular weight performed the best. We attribute this to a trade-off in mechanical strength and uniformity of the resulting electrode. This work demonstrates promising performance of a low-cost polymer as a binder for Si anodes and provides insight into the physical and chemical properties that influence binder performance

Phonon-limited carrier mobility and resistivity from carbon nanotubes to graphene

Under which conditions do the electrical transport properties of one-dimensional (1D) carbon nanotubes (CNTs) and 2D graphene become equivalent? We have performed atomistic calculations of the phonon-limited electrical mobility in graphene and in a wide range of CNTs of different types to address this issue. The theoretical study is based on a tight-binding method and a force-constant model from which all possible electron-phonon couplings are computed. The electrical resistivity of graphene is found in very good agreement with experiments performed at high carrier density. A common methodology is applied to study the transition from 1D to 2D by considering CNTs with diameter up to 16 nm. It is found that the mobility in CNTs of increasing diameter converges to the same value, the mobility in graphene. This convergence is much faster at high temperature and high carrier density. For small-diameter CNTs, the mobility strongly depends on chirality, diameter, and existence of a bandgap.Comment: 12 page

Manifestation of Strong Quadrupole Light-Molecule Interaction in the SER and SEHR Spectra of Pyrazine and Phenazine

It is demonstrated that explanation of appearance of strong forbidden lines in the SEHR spectra of pyrazine and phenazine, caused by totally symmetric vibrations and also other details of their SER and SEHR spectra can be made on the base of the dipole-quadrupole theory. The main point of this theory is conception of a strong quadrupole light molecule interaction, arising in surface fields strongly varying in space near a rough metal surface. Existence of the pointed lines is a good corroboration of existence of the strong quadrupole light-molecule interaction.Comment: 31 pages 6 figure

Pattern classification of valence in depression

Copyright @ The authors, 2013. This is an open access article available under Creative Commons Licence, CC-BY-NC-ND 3.0.Neuroimaging biomarkers of depression have potential to aid diagnosis, identify individuals at risk and predict treatment response or course of illness. Nevertheless none have been identified so far, potentially because no single brain parameter captures the complexity of the pathophysiology of depression. Multi-voxel pattern analysis (MVPA) may overcome this issue as it can identify patterns of voxels that are spatially distributed across the brain. Here we present the results of an MVPA to investigate the neuronal patterns underlying passive viewing of positive, negative and neutral pictures in depressed patients. A linear support vector machine (SVM) was trained to discriminate different valence conditions based on the functional magnetic resonance imaging (fMRI) data of nine unipolar depressed patients. A similar dataset obtained in nine healthy individuals was included to conduct a group classification analysis via linear discriminant analysis (LDA). Accuracy scores of 86% or higher were obtained for each valence contrast via patterns that included limbic areas such as the amygdala and frontal areas such as the ventrolateral prefrontal cortex. The LDA identified two areas (the dorsomedial prefrontal cortex and caudate nucleus) that allowed group classification with 72.2% accuracy. Our preliminary findings suggest that MVPA can identify stable valence patterns, with more sensitivity than univariate analysis, in depressed participants and that it may be possible to discriminate between healthy and depressed individuals based on differences in the brain's response to emotional cues.This work was supported by a PhD studentship to I.H. from the National Institute for Social Care and Health Research (NISCHR) HS/10/25 and MRC grant G 1100629

Characterization of the nitroreductase/metronidazole suicide gene system as a safeguard for cell based therapies

Cell-based therapies are promising treatment strategies for a variety of disorders ranging from cancer to spinal cord injuries. However, there is a risk of the transplanted cells becoming malignant. As a safeguard against this, suicide gene systems can be implemented so that transplanted cells can be eliminated if necessary by administering a pro-drug. Herpes simplex virus thymidine kinase (HSV-tk) paired with the pro-drug ganciclovir (GCV) is one of the most studied suicide gene systems. However, it can only kill cells that are actively dividing. Here we characterize another suicide gene system, nitroreductase (NTR) with its pro-drug metronidazole (MNZ), to investigate where in the cell cycle the killing occurs, hypothesizing that it could become an ideal candidate for eliminating transplanted cells irrespective of their proliferative status. Murine embryonic stem cells were transfected with vectors expressingeither HSV-tk or NTR and treated with the corresponding pro-drug. Confocal imaging and FUCCI (fluorescent ubiquitination-based cell cycle indicator) were used to identify where in the cell cycle the drug was active. MNZ was found to kill both dividing and non-dividing cells whereas GCV killed only the dividing cells. These resultssuggest that the NTR system may be a valuable addition or complement to HSV-tkLes thérapies cellulaires sont des stratégies promettantes en tant que traitements pour une variété de maladies. Celles-ci incluent le cancer et les traumatismes médullaires. Cependant, il y a un risque que les cellules implantées puissent devenir malignes. Afin de prévenir cela, des systèmes de gènes suicides peuvent être utilisés afin d’éliminer les cellules implantées si nécessaires par l’administration d’une prodrogue. La thymidine kinase, une enzymetrouvée chez les patients atteint du virus de l’herpès simplex (HSV tk), utilisée en conjonction avec la prodrogue ganciclovir (GCV), est un des systèmes de gènes suicides les plus étudiés. Cependant, il peut seulement tuer les cellules qui se divisent activement. Ici, nous caractérisons un autre système de gènes suicidaires, nitroréductase (NTR) avec sa prodrogue metronidazole (MNZ), afin d’étudier à quel point dans le cycle cellulaire la tuerie se déroule. L’hypothèse est que ce système pourrait être un candidat idéal afin d’éliminer les cellules transplantées, peu importe leur statut prolifératif. Des cellules de souche embryonnaires murines ont été transfectées avecdes vecteurs qui exprimaient soit HSV- tk ou NTR et traitées avec la prodrogue correspondante. La microscopie confocale et le système FUCCI (pour fluorescent ubiquitination-based cell cycle indicator) ont été utilisés afin d’identifier le point du cycle pendant lequel la drogue était active. Il a été trouvé que MNZ tuait les cellules qui sedivisaient et qui ne se divisaient pas, alors que GCV tuait uniquement les cellules qui se divisent. Ces résultats suggèrent que le système NTR pourrait être une addition ou un complément utile à HSV-tk

Demonstration project on epilepsy in Brazil - Outcome assessment

Purpose: To assess the outcome of patients with epilepsy treated at primary care health units under the framework of the demonstration project on epilepsy in Brazil, part of the WHO/ILAE/IBE Global Campaign Against Epilepsy. Method. We assessed the outcome of patients treated at four primary health units. The staff of the health units underwent information training in epilepsy. The outcome assessment was based on: 1) reduction of seizure frequency, 2) subjective perception from the patient's and the physician's point of view, 3) reduction of absenteeism, 4) social integration (school and work), and 5) sense of independence. Results: A total of 181 patients (93 women - 51%) with a mean age of 38 (range from 2 to 86) years were studied. The mean follow-up was 26 months (range from 1 to 38 months, 11 patients had follow-up of less than 12 months). Seizure frequency was assessed based on a score system, ranging from 0 (no seizure in the previous 24 months) to 7 (> 10 seizure/day). The baseline median seizure-frequency score was 3 (one to three seizures per month). At the end of the study the median seizure-frequency score was 1 (one to three seizures per year). The patients' and relatives' opinions were that in the majority (59%) the health status had improved a lot, some (19%) had improved a little, 20% experienced no change and in 2% the health status was worse. With regard to absenteeism, social integration and sense of independence, there were some modest improvements only. Discussion: The development of a model of epilepsy treatment at primary health level based on the existing health system, with strategic measures centred on the health care providers and the community, has proved to be effective providing important reductions in seizure frequency, as well as in general well being. This model can be applied nationwide, as the key elements already exist provided that strategic measures are put forward in accordance with local health providers and managers