Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / As pontes rodoviárias de concreto armado estão sujeitas à ações dinâmicas variáveis devido ao tráfego de veículos sobre o tabuleiro. Estas ações dinâmicas nem sempre são corretamente consideradas pelos projetistas. Deste modo, a correta consideração destes aspectos mostra-se de fundamental importância, de forma a se avaliar os esforços dinâmicos oriundos do tráfego de veículos sobre o tabuleiro. De acordo com este contexto, a ponte rodoviária investigada nesta dissertação é constituída por duas vigas longitudinais, três transversinas, sendo uma central e duas sobre os apoios, e por um tabuleiro em concreto armado. O modelo computacional, desenvolvido para a análise dinâmica da ponte, foi concebido com base no emprego de técnicas usuais de discretização através do método dos elementos finitos. Os veículos são representados a partir de sistemas do tipo "massa-mola-amortecedor". O tráfego destes veículos é considerado mediante a simulação de comboios semi-infinitos, deslocando-se com velocidade constante sobre a ponte. As técnicas para a contagem de ciclos de tensões e a aplicação das regras de dano acumulado foram analisadas através das curvas S-N de diversas normas e recomendações internacionais vigentes que versam sobre o tema. As conclusões deste trabalho de pesquisa se referem à análise da resposta dinâmica bem como da vida útil de serviço da obra de arte rodoviária de concreto armado investigada, quando submetida às ações dinâmicas provenientes do tráfego de veículos pesados sobre o tabuleiro. / Reinforced concrete highway bridges are subjected to dynamic actions of variable magnitude due to vehicles crossing on the deck pavement. In general, these dynamic actions are not properly considered by the designers. The proper consideration of these aspects has shown to be of fundamental importance to assess the actions from the vehicles traffic on the bridge deck. According to this context the investigated bridge consists of two longitudinal beams (girders), three transverse beams, one central and two on the supports, and a reinforced concrete deck. The computational model, developed for the bridge dynamic analysis, adopted the usual mesh refinement techniques present in finite element method simulations. The vehicles were simulated by spring-mass-damper models. The vehicles traffic is considered based on semi infinity convoys moving with constant speed on the bridge deck. The stress cycles counting techniques and the cumulative damage rules were applied through S-N curves related to international codes. The conclusions of this research were related to the dynamic response as well the service life of the investigated highway reinforced concrete bridge, when subjected to dynamic actions from the heavy vehicles traffic on the deck pavement surface.

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / As pontes rodoviárias de concreto armado estão sujeitas à ações dinâmicas variáveis devido ao tráfego de veículos sobre o tabuleiro. Estas ações dinâmicas nem sempre são corretamente consideradas pelos projetistas. Deste modo, a correta consideração destes aspectos mostra-se de fundamental importância, de forma a se avaliar os esforços dinâmicos oriundos do tráfego de veículos sobre o tabuleiro. De acordo com este contexto, a ponte rodoviária investigada nesta dissertação é constituída por duas vigas longitudinais, três transversinas, sendo uma central e duas sobre os apoios, e por um tabuleiro em concreto armado. O modelo computacional, desenvolvido para a análise dinâmica da ponte, foi concebido com base no emprego de técnicas usuais de discretização através do método dos elementos finitos. Os veículos são representados a partir de sistemas do tipo "massa-mola-amortecedor". O tráfego destes veículos é considerado mediante a simulação de comboios semi-infinitos, deslocando-se com velocidade constante sobre a ponte. As técnicas para a contagem de ciclos de tensões e a aplicação das regras de dano acumulado foram analisadas através das curvas S-N de diversas normas e recomendações internacionais vigentes que versam sobre o tema. As conclusões deste trabalho de pesquisa se referem à análise da resposta dinâmica bem como da vida útil de serviço da obra de arte rodoviária de concreto armado investigada, quando submetida às ações dinâmicas provenientes do tráfego de veículos pesados sobre o tabuleiro. / Reinforced concrete highway bridges are subjected to dynamic actions of variable magnitude due to vehicles crossing on the deck pavement. In general, these dynamic actions are not properly considered by the designers. The proper consideration of these aspects has shown to be of fundamental importance to assess the actions from the vehicles traffic on the bridge deck. According to this context the investigated bridge consists of two longitudinal beams (girders), three transverse beams, one central and two on the supports, and a reinforced concrete deck. The computational model, developed for the bridge dynamic analysis, adopted the usual mesh refinement techniques present in finite element method simulations. The vehicles were simulated by spring-mass-damper models. The vehicles traffic is considered based on semi infinity convoys moving with constant speed on the bridge deck. The stress cycles counting techniques and the cumulative damage rules were applied through S-N curves related to international codes. The conclusions of this research were related to the dynamic response as well the service life of the investigated highway reinforced concrete bridge, when subjected to dynamic actions from the heavy vehicles traffic on the deck pavement surface.

In this thesis, computational modelling and numerical simulations are developed for construction architecture, to make possible project configuration evaluations and testing of possible improvements, both in the pre-occupancy and in the post-occupancy phases, aiming at comfort of building environments. These improvements are introduced here by simple changes to original designs targeting the functional quality increasing of the buildings with low financial and environmental costs. Attention is paid, in this work, to the following comfort variables: air circulation (velocity field), temperature and pollutant concentration, considering radiation, convection and building envelope materials. A coupled mathematical model is presented for velocity, temperature and concentration variables through the conservation equations for mass, momentum, energy and species, and variable boundary conditions can be used. Numerical solutions for the mathematical model are obtained by a stabilyzed mixed finite element method that allows to deal with the diffulties in constructing approximation spaces for problems with internal constraint and non-linearities of the convective type. It is also proposed in this thesis a global circulation index capable of identifying, from the simulation results, the windd intensity by level ranges and by rooms. Changes are proposed to original internal environmentes through openings locations, wall shapes and outdoor volumes placements. Some wind-catcher models, typical from north Africa, are studied, and it is suggested here the potentiality of theis usage in the hot and dry regions of Brazil. The usefulness of this alternative system is also proposed and tested here for some buildings located in the city of Rio de Janeiro. / Nesta tese, modelagem computacional e simulação numérica são desenvolvidas para arquitetura, com o objetivo de permitir avaliação de configurações de projetos e testes de possíveis melhorias, tanto na fase pré-ocupacional, como na pós-ocupacional, visando conforto em ambientes construídos. Essas melhorias são aqui introduzidas a partir de alterações de simples execução sobre os projetos originais, objetivando o incremento da qualidade funcional das construções, a baixos custos financeiros e ambientais. Este trabalho, assim, atenta para as variáveis de conforto de circulação do ar (campo de velocidades), temperatura e concentração de poluentes levando em conta radiação, convecção e materiais da envoltória. É apresentado um modelo matemático acoplado para as variáveis velocidade, temperatura e concentração através das equações de conservação de massa, de momento, de energia e de espécies; e estão previstas condições de contorno variáveis. As soluções numéricas para o modelo matemático são aqui obtidas via um método estabilizado de elementos finitos mistos, que permite lidar com as dificuldades de construção de espaços de aproximação para problemas que envolvem restrições internas e não linearidades do tipo convectivo. Propõe-se também nesta tese um índice de circulação global capaz de, a partir dos resultados das simulações, identificar a intensidade de vento, por faixas e por ambientes. São propostas alterações em projetos originais de ambientes internos através de localização de aberturas, formato de paredes e posicionamento de volumes exteriores. São estudados alguns casos de captadores de vento típicos do norte da África e indica-se, aqui, sua potencialidade para regiões quentes e secas do Brasil. Sua utilização é também proposta e testada para algumas residências da cidade do Rio de Janeiro.

Die Entstehung unterschiedlicher Zellformen ist eine zentrale Frage der Biologie und von besonderer Bedeutung für ein umfassendes Verständnis des Modellorganismus Saccharomyces cerevisiae. Form und Integrität dieser Hefen werden durch die Eigenschaften ihrer Zellwand bestimmt. Die mechanischen Prozesse in der Zellwand während der Morphogenese von Hefen sind jedoch wenig verstanden. Zwei Arten der Morphogenese, Knospung und Paarung, wurden hier untersucht, um gemeinsame Prinzipien und Unterschiede hinsichtlich ihrer Zellwandmechanik zu finden. Dabei wurden AFM-basierte Techniken sowie theoretische Modelle verwendet, um räumliche und zeitliche Unterschiede in den mechanischen Eigenschaften zu beurteilen. Im ersten Teil wird ein biophysikalisches Modell der Knospung vorgestellt, das auf einem Unterschied der mechanischen Zellwandeigenschaften von Mutter und Knospe beruht und die Volumenentwicklung einzelner Zellen beschreiben kann. Da Messungen keinen ausreichenden Unterschied in der Zellwandelastizität zwischen beiden Kompartimenten zeigten, wird deren Viskoplastizität als Unterscheidungsmerkmal vorgeschlagen. Eine Kalibrierung des Modells an Einzelzellmessungen lieferte neben Schätzungen dieser Zellwandviskoplastizität auch die anderer wichtiger Wachstumsparameter. Im zweiten Teil werden nanorheologische Messungen genutzt, um zu zeigen, dass die Zellwand hauptsächlich elastisch ist und ein strukturelles Dämpfungsverhalten aufweist. Dabei wird diskutiert, die Zellwand analog zu einem „soft glassy“ Material zu beschreiben. Im letzten Teil wird die Notwendigkeit eines spezifischen Elastizitätsmusters der Zellwand für das gerichtete Wachstum während der Paarungsmorphogenese beschrieben, welches weicheres Material am Schaft sowie steiferes Material am Apex einschließt. Zusammenfassend zeigt diese Arbeit, dass räumlich und zeitlich veränderliche viskoelastisch-plastische Zellwandeigenschaften die Morphogenese von S. cerevisiae bestimmen. / Morphogenesis is a central field in biology and of particular importance for a comprehensive understanding of the model organism Saccharomyces cerevisiae. Shape and integrity of yeast cells are determined by its cell wall. However, mechanical processes underlying yeast morphogenesis and are poorly understood. Two modes of yeast morphogenesis, budding and mating, have been studied to find common principles and differences in cell wall mechanics. AFM-based techniques as well as computational models were used to assess spatial and temporal differences in the mechanical properties. In the first part, a biophysical model for the expansion during budding is presented that bases on a difference in the mechanical cell wall properties of mother and bud and accurately describes the volume dynamics of single cells. Since measurements revealed no difference in the cell wall elasticity between both compartments, visco-plastic properties are proposed as distinguishing feature. Fitting the model to single-cell volume trajectories, provided estimations for the visco-plasticity of the cell wall and other key growth parameters. In the second part, nano-rheology measurements were used to confirm that the cell wall is mainly elastic and demonstrate that it shows structural damping behavior. Furthermore, the possibility to describe the cell wall analogous to a “soft glassy” material is discussed. In the last part, the necessity of a specific elasticity pattern of the cell wall for directed growth during yeast mating morphogenesis is shown, including softer material at the shaft and stiffer material at the apex. By showing that spatially and temporally varying viscoelastic-plastic cell wall properties govern the morphogenesis of S. cerevisiae, this work contributes to deciphering molecular mechanisms underlying the growth of yeast and other walled cells.

Les environnements arides végétalisés seront parmi les environnements les plus impactés par la désertification dans le cadre du changement climatique. Ces environnements légèrement végétalisés sont caractérisés par une balance précaire entre un état de résilience et de vulnérabilité qui est intrinsèquement menacé par la désertification pouvant potentiellement mener à une augmentation du transport des sédiments éolien et une dégradation des environnements. Le nombre d’interactions présentes entre la végétation, la pluie, le transport des sédiments et la présence d’herbivore en milieu aride, ainsi que leur nature non-linéaire rend difficile de représenter ces interactions à l’aide de modèle physique et mathématique. La modélisation complexe est mieux adaptée à la représentation des interactions complexes entre la végétation, la pluie, le transport des sédiments et la présence d’herbivores dans les systèmes arides. Un nombre considérable d’études ont utilisées les modèles complexes pour étudier l’effet de la végétation sur le transport des sédiments ou l’effet de la présence d’herbivore sur la végétation, mais peu d’études ont utilisées une approche intégrant ces trois composantes en un même modèle. Un nouveau modèle d’herbivorie basé sur l’agent (GrAM) est présenté sous forme d’extension du modèle ViSTA_M17 et permet une meilleure représentation de l’impact des régimes de pâturage en environnement aride végétalisé. Cet ajout ayant un modèle complexe de transport des sédiments et de végétation déjà établit vise présenter un modèle hybride pouvant représenter l’impact de l’herbivorie sur la composition végétale et le transport des sédiments en environnement aride à l’échelle du paysage. Le développement du nouveau module à l’intérieur de la structure du modèle ViSTA original a souligné certaines limites de ce dernier, notamment une sensitivité importante de la végétation et de la force de cisaillement du vent. Le modèle ViSTA_GrAM répond à certaines limites du modèle original par l’intégration d’un nouveau module d’herbivorie et présente une avancée vers une modélisation environnementale englobante permettant une meilleure compréhension des dynamiques spatiales et temporelles des environnements arides. L’approche englobante utilisée par le modèle ViSTA_GrAM est bénéfique à la prise de décision, puisqu’elle offre un outil permettant d’explorer les réponses des environnements arides à un changement de leur végétation, leur régime de pluie, leur régime de transport des sédiments ou leur régime d’herbivorie. Les modèles complexes et l’exploration de scénarios futurs des environnements arides peuvent permettre d’améliorer la gestion de ces mêmes environnements. / Vegetated arid environments will be among one of the most affected by desertification as a result of climate change. These sparsely vegetated regions exhibit a delicate balance of resilience and vulnerability that are profoundly challenged by desertification, potentially producing an important positive feedback leading to increased aeolian activity and therefore land degradation. The high level of interaction between rainfall, vegetation, sediment transport and grazing in these arid environments and the non-linear nature of these interactions make them difficult to predict by traditional mathematical modeling mean. Complex modeling, on the other hand, offer better representation of the intricate relation between vegetation, rainfall, sediment transport and grazing in an arid environment system. A sizable amount of studies has been conducted with complex models to explore the effect of vegetation on sediment transport or grazing effect on vegetation, but few have used a truly integrative approach where all tree components were represented in a complex model. This research present a novel agent-based model (GrAM) integrated as an extension to already complete sediment transport-vegetation complex model (ViSTA) allowing a more refined representation of grazer’s impact in vegetated arid environments. This addition to the ViSTA model is aimed to combine a land management and systematic approach in a coupled model, to represent, at a landscape level, the impact of grazing on the composition of vegetation and sediment movement in arid environments. The development of this new module within the original ViSTA model, has highlighted some limitations of this model, most notably concerning its sensitivity to vegetation and wind shear. The ViSTA_GrAM model addresses these limitations through integrating a new module of grazing as the next step toward an integrated modelling effort that permits models to effectively increase our spatial and temporal understanding of arid environments vegetation, sediment transport and grazing dynamics. Integrative approach, like the one provided by the ViSTA_GrAM model, is beneficial to decision making by providing tools to investigate the response of an arid environment to different state of their vegetation, rainfall regime, wind stress and grazing regime. By developing complex modeling in arid environment and exploring various future scenarios for arid environment, we hope to lead to better management plan of those same environment.

Paradoxically enhanced cognitive processes in neurological disorders provide vital clues to understanding neural function. However, what determines whether the neurological damage is impairing or enhancing is unclear. Here we use the performance of patients with two disorders of the striatum to dissociate mechanisms underlying cognitive enhancement and impairment resulting from damage to the same system. In a two-choice decision task, Huntington\'s disease patients were faster and less error prone than controls, yet a patient with the rare condition of benign hereditary chorea (BHC) was both slower and more error prone. EEG recordings confirmed significant differences in neural processing between the groups. Analysis of a computational model revealed that the common loss of connectivity between striatal neurons in BHC and Huntington\'s disease impairs response selection, but the increased sensitivity of NMDA receptors in Huntington\'s disease potentially enhances response selection. Crucially the model shows that there is a critical threshold for increased sensitivity: below that threshold, impaired response selection results. Our data and model thus predict that specific striatal malfunctions can contribute to either impaired or enhanced selection, and provide clues to solving the paradox of how Huntington\'s disease can lead to both impaired and enhanced cognitive processes.

In theory, this work is devoted to the principles and methods of measurement of volume changes of mortars and concretes. Emphasis is placed on cement self-levelling screeds with initial shrinkage compensation. In the practical part of the work is devoted to the development of prototype measuring system designed for non-contact detection of volume changes hydrating silicate. Using the new measurement method is also practically examined the influence of boundary conditions on hydration volume changes of selected silicate binders, cement mortar and cement levelling compound based on four different connective concepts. In the calculation, this work focuses on the numerical modelling of volume changes of the examined compounds.

This work deals with computational modelling of static and dynamic analyses of journal bearings, with analyses of stability of oil-film motion and analyses of response of the rotor assemblies. At our workplace a new theoretical approach to the modelling of the static and dynamic behaviour of the rigid rotating body in liquid is used. The approach is based on the application of the Navier-Stokes motion eq., equation of continuity and boundary conditions eqs. It is possible to separate the motion of the rigid body and liquid from each other using suitable transformation relations and then it is also possible to separate the stationary and nonstationary motions from each other. A method of control volumes is used for these analyses. The real Bézier body is used for the description of the geometrical configuration and also for the approximation of velocity and pressure functions. Combined the ALE (Arbitrary Lagrange-Euler) method is used, because it´s necessary to generate a new net (to perform new meshing) for a change of the shaft position. The additional effects of the liquid (additional mass, stiffness and damping), which we solved in dynamic analysis, are the function of the single parameter only – the shaft-centre position. There is a large advantage in comparison with the standard approach, which is based on application of the Reynolds liquid eq. Author solving the models of the long and short journal bearing with different geometry, especially the elliptical and cylindrical bearings, with incompressible and compressible journal bearing liquid. If the journal bearing problem is solved, it is possible to include the additional effect of the liquid to the right side of the motion equation of a model rotor assembly. Author analyze a model rotor assemblies with two degrees of freedom, which is supported inside of the two journal bearings on the ends of the rotor (Jeffcott rotor assembly). Author modelling and solveing a response of the model rotor assembly on the forced steady-state vibrations, which was actuating by the unbalanced matter.

Dizertační práce se zabývá věrohodností mechanického testování měkkých biologických tkání a predikčními schopnostmi různých modelů materiálů. Obě oblasti byly zkoumány užitím metody konečných prvků. První část práce je věnována úvodu do problému a popisu měkkých biologických tkání, které s problémem souvisí, a rešerši nynějšího způsobu jejich mechanického testování. Druhá část práce se zabývá hledáním optimálního nastavení experimentálního zařízení za použití počítačového modelování pomocí virtuální simulace mechanických testů. Výsledky analýzy potvrdily, že dvě úzké svorky po délce hrany, stejně jako běžně používané háčky, jsou použitelné pro dvouosé tahové zkoušky různých měkkých tkání za použití čtvercového vzorku. Použití svorek je proto časově úsporná, jednoduchá a spolehlivá alternativa, která není podřadná použití háčků. V práci byla rovněž provedena analýza, jejímž výsledkem jsou doporučení ohledně typu, počtu a velikosti uchycení pro různě velké vzorky. Třetí část práce zkoumá predikční schopnosti modelů materiálů měkkých tkání a závislosti těchto schopností. Lze shrnout, že výsledné mechanické chování proloženého modelu materiálu závisí na počátečních parametrech a že neexistují „ideální“ počáteční parametry při prokládání experimentálních dat. Navzdory absenci „ideálních“ počátečních parametrů je navržen v rámci možností nejefektivnější způsob aproximace experimentálních dat z mnoha jejich souborů. Dále je možné shrnout, že omezení hodnot parametrů modelu při prokládání experimentálních dat ústí v nepředvídatelný vliv na kvalitu aproximace. V závěrečné části práce byl analyzován předpoklad afinní a neafinní deformace modelů materiálů za účelem vysvětlení velkých rozporů mezi výsledky strukturně založených modelů a výsledky dvouosých testů při různých testovacích protokolech. Ačkoli byly zjištěny určité rozdíly mezi výsledky analyzovaných modelů, přece nebyly dostatečně významné, aby vysvětlily výše uvedené velké rozpory. V poslední části práce jsou zmíněny další možné oblasti výzkumu.

<p>Regardless of their origin or pathology, many, if not all, diseases have long been regarded as complex. Yet, despite the progression in the understanding of complexity and the development of systems biology, the majority of biomedical research has been derived from qualitative principles. In comparison to the ethical, temporal and logistical limitations of human experimentation, <em>in vivo</em> animal models have served to provide a more advantageous means to elucidate the underlying disease mechanisms. However, given the additional limitations presented by such models, <em>in silico </em>models have emerged as an effective complement, and, in some cases, a replacement for <em>in vivo</em> experimentation. The <em>in silico </em>models presented in this thesis were developed using mathematical and computational methods to investigate the evolution of two complex, diverse diseases from a systems biology perspective: allergic asthma and cancer.</p> <p>We generated two novel <em>in silico</em> models of allergic asthma aimed at clarifying some dynamic aspects of allergic responses. Experimentally, we utilized an <em>in vivo</em> murine model of chronic exposure to the most pervasive aeroallergen worldwide, house dust mite (HDM), for up to 20 weeks, equivalent to at least 20 human years. Using a range of HDM concentrations, experimental data were collected to study local and systemic effects. The first model applied empirical mathematical techniques to establish equations for airway inflammation and HDM-specific immunoglobulins using an iterative approach of experimentation and validation. Using the equations generated, we showed that the model was able to accurately predict and simulate data. The model also demonstrated the non-linear relationship between HDM exposure and both airway inflammation and allergic sensitization and identified system thresholds.</p> <p>The second model used mechanistic mathematical techniques to investigate the trafficking of eosinophils as they migrated from bone marrow to the blood and, ultimately, to the lungs. Making use of a limited data set, the model determined the effect of individual processes on the system. We identified eosinophil production, survival and death as having the greatest impacts, while migration played a relatively minor role. Furthermore, the model was used to simulate knockout models and the use of antibodies <em>in silico</em>.</p> <p>In the context of cancer growth and metastasis, we developed a theoretical model demonstrating the spatio-temporal development of a tumour in two-dimensions. The model was encoded to create a computer graphic simulation program, which simulated the effects of various parameters on the size and shape of a tumour. Through simulations, we demonstrated the importance of the diffusion process in cancer growth and metastasis.</p> <p>Ultimately, we believe the greatest benefit of each <em>in silico</em> model is the ability to provide an understanding of each respective disease recognized as dynamic and formally complex, but predominantly studied in reductionist, static or un-integrated approaches.</p> / Doctor of Philosophy (Medical Science)