Prediction of promiscuous peptides that bind HLA class I molecules

Promiscuous T-cell epitopes make ideal targets for vaccine development. We report here a computational system, multipred, for the prediction of peptide binding to the HLA-A2 supertype. It combines a novel representation of peptide/MHC interactions with a hidden Markov model as the prediction algorithm. multipred is both sensitive and specific, and demonstrates high accuracy of peptide-binding predictions for HLA-A*0201, *0204, and *0205 alleles, good accuracy for *0206 allele, and marginal accuracy for *0203 allele. multipred replaces earlier requirements for individual prediction models for each HLA allelic variant and simplifies computational aspects of peptide-binding prediction. Preliminary testing indicates that multipred can predict peptide binding to HLA-A2 supertype molecules with high accuracy, including those allelic variants for which no experimental binding data are currently available.

Numerical modelling of tide-induced beach water table fluctuations

Field studies have shown that the elevation of the beach groundwater table varies with the tide and such variations affect significantly beach erosion or accretion. In this paper, we present a BEM (Boundary Element Method) model for simulating the tidal fluctuation of the beach groundwater table. The model solves the two-dimensional flow equation subject to free and moving boundary conditions, including the seepage dynamics at the beach face. The simulated seepage faces were found to agree with the predictions of a simple model (Turner, 1993). The advantage of the present model is, however, that it can be used with little modification to simulate more complicated cases, e.g., surface recharge from rainfall and drainage in the aquifer may be included (the latter is related to beach dewatering technique). The model also simulated well the field data of Nielsen (1990). In particular, the model replicated three distinct features of local water table fluctuations: steep rising phase versus flat falling phase, amplitude attenuation and phase lagging.

Design, modelling and analysis of a six component force balance for hypervelocity wind tunnel testing

A combination of modelling and analysis techniques was used to design a six component force balance. The balance was designed specifically for the measurement of impulsive aerodynamic forces and moments characteristic of hypervelocity shock tunnel testing using the stress wave force measurement technique. Aerodynamic modelling was used to estimate the magnitude and distribution of forces and finite element modelling to determine the mechanical response of proposed balance designs. Simulation of balance performance was based on aerodynamic loads and mechanical responses using convolution techniques. Deconvolution was then used to assess balance performance and to guide further design modifications leading to the final balance design. (C) 2001 Elsevier Science Ltd. All rights reserved.

A investigação da construção de modelos no estudo de um tópico de física utilizando um ambiente de modelagem computacional qualitativo

A integração de tecnologias de informação e comunicação no contexto educacional tem sido tema de diversos congressos e simpósios ao redor do mundo e no Brasil. Neste sentido, vários estudos têm sido realizados com o objetivo de se obter metodologias que tornem efetivo o emprego das novas tecnologias no ensino. Este artigo mostra um estudo que investigou a interação entre estudantes universitários da área de ciências exatas e um ambiente de modelagem computacional qualitativo em atividades de modelagem expressiva. Os resultados obtidos mostram que os estudantes foram capazes de criar e modificar o modelo do sistema proposto a partir de suas próprias concepções.

Avaliação do impacto do tamanho dos trens e do comprimento das seções de bloqueio na capacidade de um trecho ferroviário de linha dupla

É inegável a importância da infraestrutura de transporte para as empresas, para a economia e para os países no momento atual. Entretanto, a oferta de infraestrutura de transporte deve estar disponível a custos razoáveis e de modo a viabilizar o atendimento desta crescente demanda vista ao redor do mundo, não diferente no Brasil. Sobre tal contexto, desponta-se o segmento ferroviário, o qual proporciona o transporte de elevados volumes a custos relativamente baixos. Para suportar esta condição, é fundamental conhecer os parâmetros presentes em um sistema ferroviário e saber quais são seus impactos na capacidade de transporte, visando direcionar ações com foco na melhoria operacional e na correta alocação de investimentos de capital. Para quantificar estes impactos, buscou-se desenvolver um modelo de simulação capaz de identificar os impactos na capacidade de um trecho ferroviário de linha dupla frente à variação de dois parâmetros: o tamanho dos trens, que poderá sofrer alteração diante da comercialização da capacidade excedente das ferrovias nacional, diretriz esta presente no novo marco regulatório, e o comprimento das seções de bloqueio, diante dos baixos níveis de investimento realizados até o momento pelas concessões ferroviárias em atividade e do grande potencial de novos investimentos que serão destinados ao segmento ferroviário para atender as demandas futuras. Após a definição de vários cenários, realizou-se a análise dos resultados e pode-se identificar que tanto a variação no tamanho dos trens quando no comprimento das seções de bloqueio geram variações na capacidade de transportes em um trecho ferroviário, ficando estes caracterizados como importantes parâmetros que devem fazer parte de qualquer análise de capacidade ou investimentos de um segmento ferroviário

Natural gas system operation: lagrangean optimization techniques

To comply with natural gas demand growth patterns and Europe´s import dependency, the gas industry needs to organize an efficient upstream infrastructure. The best location of Gas Supply Units – GSUs and the alternative transportation mode – by phisical or virtual pipelines, are the key of a successful industry. In this work we study the optimal location of GSUs, as well as determining the most efficient allocation from gas loads to sources, selecting the best transportation mode, observing specific technical restrictions and minimizing system total costs. For the location of GSUs on system we use the P-median problem, for assigning gas demands nodes to source facilities we use the classical transportation problem. The developed model is an optimisation-based approach, based on a Lagrangean heuristic, using Lagrangean relaxation for P-median problems – Simple Lagrangean Heuristic. The solution of this heuristic can be improved by adding a local search procedure - the Lagrangean Reallocation Heuristic. These two heuristics, Simple Lagrangean and Lagrangean Reallocation, were tested on a realistic network - the primary Iberian natural gas network, organized with 65 nodes, connected by physical and virtual pipelines. Computational results are presented for both approaches, showing the location gas sources and allocation loads arrangement, system total costs and gas transportation mode.

Análise prospetiva de modelos de transporte e usos do solo

Dissertação para obtenção do grau de Mestre em Engenharia Civil na Área de Especialização de Vias de Comunicação e Transportes

Análise da sinistralidade rodoviária no concelho de Loures em meio interurbano

Dissertação para obtenção do grau de Mestre em Engenharia na Área de Especialização em Vias de Comunicação e Transporte

Sistemas de informação ao público nos transportes públicos de passageiros: análise crítica

Dissertação para obtenção do grau de Mestre em Engenharia na Área de especialização em Vias de Comunicação e Transportes

Assessment and optimization of wind energy integration into the power systems: application to the portuguese system

The increasing integration of wind energy in power systems can be responsible for the occurrence of over-generation, especially during the off-peak periods. This paper presents a dedicated methodology to identify and quantify the occurrence of this over-generation and to evaluate some of the solutions that can be adopted to mitigate this problem. The methodology is applied to the Portuguese power system, in which the wind energy is expected to represent more than 25% of the installed capacity in a near future. The results show that the pumped-hydro units will not provide enough energy storage capacity and, therefore, wind curtailments are expected to occur in the Portuguese system. Additional energy storage devices can be implemented to offset the wind energy curtailments. However, the investment analysis performed show that they are not economically viable, due to the present high capital costs involved.

Identificação e representação automática de percursos de autocarros

Trabalho final de Mestrado para obtenção do grau de Mestre em Engenharia de Redes de Comunicação e Multimédia

An agent-based evolutionary approach for manufacturing system layout design

Dissertação apresentada na Faculdade de Ciências e Tecnologia da Universidade Nova de Lisboa para obtenção do grau de Mestre em Engenharia Electrotécnica e de Computadores

Models and methods for supporting lot sizing decisions in product recovery systems

Magdeburg, Univ., Fak. für Wirtschaftswiss., Diss., 2011

Climate and land-use changes effects on the distribution of a regional endemism: Melanophryniscus sanmartini (Amphibia, Bufonidae)

ABSTRACT Amphibians are the most threatened vertebrate group according to the IUCN. Land-use and land cover change (LULCC) and climate change (CC) are two of the main factors related to declining amphibian populations. Given the vulnerability of threatened and rare species, the study of their response to these impacts is a conservation priority. The aim of this work was to analyze the combined impact of LULCC and CC on the regionally endemic species Melanophryniscus sanmartini Klappenbach, 1968. This species is currently categorized as near threatened by the IUCN, and previous studies suggest negative effects of projected changes in climate. Using maximum entropy methods we modeled the effects of CC on the current and mid-century distribution of M. sanmartini under two IPCC scenarios - A2 (severe) and B2 (moderate). The effects of LULCC were studied by superimposing the potential distribution with current land use, while future distribution models were evaluated under the scenario of maximum expansion of soybean and afforestation in Uruguay. The results suggest that M. sanmartini is distributed in eastern Uruguay and the south of Brazil, mainly related to hilly and grasslands systems. Currently more than 10% of this species' distribution is superimposed by agricultural crops and exotic forest plantations. Contrasting with a recent modelling study our models suggest an expansion of the distribution of M. sanmartini by mid-century under both climate scenarios. However, despite the rise in climatically suitable areas for the species in the future, LULCC projections indicate that the proportion of modified habitats will occupy up to 25% of the distribution of M. sanmartini. Future change in climate conditions could represent an opportunity for M. sanmartini, but management measures are needed to mitigate the effects of habitat modification in order to ensure its survival and allow the eventual expansion of its distribution.

Demand and revenue implications of an integrated public transport policy: the case of Madrid

One of the most popular options for promoting public transport use is the provision of an integrated and high quality public transport system. This was the strategy adopted by the regional government in Madrid in 1986 and since then public transport patronage has increased by more than 50%. This paper has two objectives. The first is to identify the factors underlying the significant increase in the demand for public transport in Madrid. To do this we estimate an aggregate demand function for bus and underground trips, which allows us to obtain the demand elasticities with respect to the main attributes of public transport services and also to calculate the long-term impact of changes in those explanatory variables on patronage. The second objective is to evaluate the impact on revenue derived from the introduction of the travel card scheme, and to discuss the consequences on revenue of changes in the relative fare levels of different types of ticket without substantially affecting patronage. This latter issue is addressed by estimating a matrix of own and cross-price elasticities for different ticket types.