Accelerated stationary iterative methods for the numerical solution of electromagnetic wave scattering problems

The main focus of this work is to contribute to the development of iterative solvers applied to the method of moments solution of electromagnetic wave scattering problems. In recent years there has been much focus on current marching iterative methods, such as Gauss-Seidel and others. These methods attempt to march a solution for the unknown basis function amplitudes in a manner that mimics the physical processes which create the current. In particular the forward backward method has been shown to produce solutions that, for some twodimensional scattering problems, converge more rapidly than non-current marching Krylov methods. The buffered block forward backward method extends these techniques in order to solve three-dimensional scattering problems. The convergence properties of the forward backward and buffered block forward backward methods are analysed extensively in this thesis. In conjunction, several means of accelerating these current marching methods are investigated and implemented. The main contributions of this thesis can be summarised as follows: ² An explicit convergence criterion for the buffered block forward backward method is specified. A rigorous numerical comparison of the convergence rate of the buffered block forward backward method, against that of a range of Krylov solvers, is performed for a range of scattering problems. ² The acceleration of the buffered block forward backward method is investigated using relaxation. ² The efficient application of the buffered block forward backward method to problems involving multiple source locations is examined. ² An optimally sized correction step is introduced designed to accelerate the convergence of current marching methods. This step is applied to the forward backward and buffered block forward backward methods, and applied to two and three-dimensional problems respectively. Numerical results demonstrate the significantly improved convergence of the forward backward and buffered block forward backward methods using this step

The Evolution of Sex Determination and the DMRT1 Gene in the Japanese Gecko (Gekko japonicus)

There are different sex-determining mechanisms in our environment, which are separated into two groups known as genotypic sex determination (GSD) and environmental sex determination. The most well-known mechanism in the ESD group is temperature-dependent sex determination (TSD). In this study, the presence of the Doublesex and mab-3-related Transcription Factor (Dmrt1) gene was observed during embryonic development in geckos with a TSD mechanism. To do this, I observed the rate of transcription of the Dmrt1 gene in the Gecko species Gekko japonicus. Pregnant geckos were caught around Nanjing, China. Once the females laid their eggs, the eggs were then randomly placed in one of three different temperature regimes (24°C, 28°C, 32°C). The embryos, the main target, were dissected at two points during development and total RNA was extracted. A relative rate of transcription of the Dmrt1 gene was assessed using quantitative PCR (qPCR). I was not able to quantify the use of the Dmrt1 gene between males and females. However, my study does not allow me to exclude the possibility that G. japonicus may use a GSD system with a TSD override, instead of the earlier proposed TSD system

Parallelised EM Wave Progagation Modelling for Accurate Network Simulation

A description of ongoing work which aims to provide better quality propagation models for use in network simulators is provided in this paper. A 3D ray-tracing model is described which allows for accurate specification of a variety of wave scattering phenomena. Details of its parallelisation are given as well as a discussion of future work including the incorporation of a visibility algorithm. Results illustrate the increased realism obtained by using site-specific propagation models

Accelerated source-sweep analysis using a reduced-order model approach

This paper is concerned with the development of a model-order reduction (MOR) approach for the acceleration of a source-sweep analysis using the volume electric field integral equation (EFIE) formulation. In particular, we address the prohibitive computational burden associated with the repeated solution of the two-dimensional electromagnetic wave scattering problem for source-sweep analysis. The method described within is a variant of the Krylov subspace approach to MOR, that captures at an early stage of the iteration the essential features of the original system. As such these approaches are capable of creating very accurate low-order models. Numerical examples are provided that demonstrate the speed-up achieved by utilising these MOR approaches when compared against a method of moments (MoM) solution accelerated by use of the Fast Fourier Transform (FFT)

Characterisation of a pucBA deletion mutant from Rhodopseudomonas palustris lacking all but the pucBAd genes

Rhodopseudomonas palustris is a species of purple photosynthetic bacteria that has a multigene family of puc genes that encode the alpha and beta apoproteins, which form the LH2 complexes. A genetic dissection strategy has been adopted in order to try and understand which spectroscopic form of LH2 these different genes produce. This paper presents a characterisation of one of the deletion mutants generated in this program, the pucBAd only mutant. This mutant produces an unusual spectroscopic form of LH2 that only has a single large NIR absorption band at 800 nm. Spectroscopic and pigment analyses on this complex suggest that it has basically a similar overall structure as that of the wild-type HL LH2 complex. The mutant has the unique phenotype where the mutant LH2 complex is only produced when cells are grown at LL. At HL the mutant only produces the LH1-RC core complex

Structure of a Cell Entry Defective Human Adenovirus Provides Insights into Precursor Proteins and Capsid Maturation : Cryo-EM structure of ts1 virion of an adenovirus

Funding Information: We would like to thank Dr. Francisco Asturias for his advice on electron microscopy experiments and Dr. J.C. Ducom for installing Scipion and cisTEM packages on the HPC cluster and computational support in general. This work was supported by the NIH grant R21 AI146644 to V.S.R. Publisher Copyright: © 2021 Elsevier LtdMaturation of adenoviruses is distinguished by proteolytic processing of several interior minor capsid proteins and core proteins by the adenoviral protease and subsequent reorganization of adenovirus core. We report the results derived from the icosahedrally averaged cryo-EM structure of a cell entry defective form of adenovirus, designated ts1, at a resolution of 3.7 Å as well as of the localized reconstructions of unique hexons and penton base. The virion structure revealed the structures and organization of precursors of minor capsid proteins, pIIIa, pVI and pVIII, which are closely associated with the hexons on the capsid interior. In addition to a well-ordered helical domain (a.a. 310–397) of pIIIa, highlights of the structure include the precursors of VIII display significantly different structures near the cleavage sites. Moreover, we traced residues 4–96 of the membrane lytic protein (pVI) that includes an amphipathic helix occluded deep in the hexon cavity suggesting the possibility of co-assembly of hexons with the precursors of VI. In addition, we observe a second copy of pVI ordered up to residue L40 in the peripentonal hexons and a few fragments of density corresponding to 2nd and 3rd copies of pVI in other hexons. However, we see no evidence of precursors of VII binding in the hexon cavity. These findings suggest the possibility that differently bound pVI molecules undergo processing at the N-terminal cleavage sites at varying efficiencies, subsequently creating competition between the cleaved and uncleaved forms of VI, followed by reorganization, processing, and release of VI molecules from the hexon cavities.Peer reviewe

Early Glycemic Control in Critically Ill Emergency Department Patients: Pilot Trial

Objective: Glycemic control in the critically ill intensive care unit (ICU) patient has been shown to improve morbidity and mortality. We sought to investigate the effect of early glycemic control in critically ill emergency department (ED) patients in a small pilot trial.Methods: Adult non-trauma, non-pregnant ED patients presenting to a university tertiary referral center and identified as critically ill were eligible for enrollment on a convenience basis. Critical illness was determined upon assignment for ICU admission. Patients were randomized to either ED standard care or glycemic control. Glycemic control involved use of an insulin drip to maintain blood glucose levels between 80-140 mg/dL. Glycemic control continued until ED discharge. Standard patients were managed at ED attending physician discretion. We assessed severity of illness by calculation of APACHE II score. The primary endpoint was in-hospital mortality. Secondary endpoints included vasopressor requirement, hospital length of stay, and mechanical ventilation requirement.Results: Fifty patients were randomized, 24 to the glycemic group and 26 to the standard care cohort. Four of the 24 patients (17%) in the treatment arm did not receive insulin despite protocol requirements. While receiving insulin, three of 24 patients (13%) had an episode of hypoglycemia. By chance, the patients in the treatment group had a trend toward higher acuity by APACHE II scores. Patient mortality and morbidity were similar despite the acuity difference.Conclusion: There was no difference in morbidity and mortality between the two groups. The benefit of glycemic control may be subject to source of illness and to degree of glycemic control, or have no effect. Such questions bear future investigation. [West J Emerg Med. 2010; 11(1):20-23]

The Canadian Women's Heart Health Alliance Atlas on the epidemiology, diagnosis, and management of cardiovascular disease in women - Chapter 5 : sex- and gender-unique manifestations of cardiovascular disease.

This Atlas chapter summarizes sex- and some gender-associated, and unique aspects and manifestations of cardiovascular disease (CVD) in women. CVD is the primary cause of premature death in women in Canada and numerous sex-specific differences related to symptoms and pathophysiology exist. A review of the literature was done to identify sex-specific differences in symptoms, pathophysiology, and unique manifestations of CVD in women. Although women with ischemic heart disease might present with chest pain, the description of symptoms, delay between symptom onset and seeking medical attention, and prodromal symptoms are often different in women, compared with men. Nonatherosclerotic causes of angina and myocardial infarction, such as spontaneous coronary artery dissection are predominantly identified in women. Obstructive and nonobstructive coronary artery disease, aortic aneurysmal disease, and peripheral artery disease have worse outcomes in women compared with men. Sex differences exist in valvular heart disease and cardiomyopathies. Heart failure with preserved ejection fraction is more often diagnosed in women, who experience better survival after a heart failure diagnosis. Stroke might occur across the lifespan in women, who are at higher risk of stroke-related disability and age-specific mortality. Sex- and gender-unique differences exist in symptoms and pathophysiology of CVD in women. These differences must be considered when evaluating CVD manifestations, because they affect management and prognosis of cardiovascular conditions in women.Dans le présent chapitre d’Atlas sont récapitulés les aspects et les manifestations uniques, associés au sexe et certains associés au genre, des maladies cardiovasculaires (MCV) chez les femmes. Les MCV sont la cause principale de décès prématurés chez les femmes au Canada. De nombreuses différences quant aux symptômes et à la physiopathologie existent entre les sexes. Nous avons réalisé une revue de la littérature pour déterminer les différences entre les sexes dans les symptômes et la physiopathologie, et les manifestations uniques des MCV chez les femmes. Bien que les femmes atteintes d’une cardiopathie ischémique puissent éprouver des douleurs thoraciques, la description des symptômes, le délai entre l’apparition des symptômes et l’obtention de soins médicaux, et les symptômes prodromiques sont souvent différents de ceux des hommes. Les causes de l’angine et de l’infarctus du myocarde non liées à l’athérosclérose telles que la dissection spontanée de l’artère coronaire sont principalement observées chez les femmes. La coronaropathie obstructive et non obstructive, l’anévrisme aortique et la maladie artérielle périphérique montrent de plus mauvaises issues chez les femmes que chez les hommes. Des différences entre les sexes sont observées dans la cardiopathie valvulaire et les cardiomyopathies. Le diagnostic d’insuffisance cardiaque avec fraction d’éjection préservée est plus souvent posé chez les femmes qui présentent un meilleur taux de survie après un diagnostic d’insuffisance cardiaque. L’accident vasculaire cérébral (AVC) pourrait survenir tout au long de la vie des femmes, qui sont exposées à un risque plus élevé d’incapacités liées à l’AVC et de mortalité par âge. Il existe des différences uniques entre les sexes et les genres pour ce qui est des symptômes et de la physiopathologie des MCV chez les femmes. Lors de l’évaluation des manifestations des MCV, il faut tenir compte de ces différences puisqu’elles influencent la prise en charge et le pronostic des maladies cardiovasculaires chez les femmes

Untargeted Metabolomics Profiling of an 80.5 km Simulated Treadmill Ultramarathon

Metabolomic profiling of nine trained ultramarathon runners completing an 80.5 km self-paced treadmill-based time trial was carried out. Plasma samples were obtained from venous whole blood, collected at rest and on completion of the distance (post-80.5 km). The samples were analyzed by using high-resolution mass spectrometry in combination with both hydrophilic interaction (HILIC) and reversed phase (RP) chromatography. The extracted putatively identified features were modeled using Simca P 14.1 software (Umetrics, Umea, Sweden). A large number of amino acids decreased post-80.5 km and fatty acid metabolism was affected with an increase in the formation of medium-chain unsaturated and partially oxidized fatty acids and conjugates of fatty acids with carnitines. A possible explanation for the complex pattern of medium-chain and oxidized fatty acids formed is that the prolonged exercise provoked the proliferation of peroxisomes. The peroxisomes may provide a readily utilizable form of energy through formation of acetyl carnitine and other acyl carnitines for export to mitochondria in the muscles; and secondly may serve to regulate the levels of oxidized metabolites of long-chain fatty acids. This is the first study to provide evidence of the metabolic profile in response to prolonged ultramarathon running using an untargeted approach. The findings provide an insight to the effects of ultramarathon running on the metabolic specificities and alterations that may demonstrate cardio-protective effects