Functional and structural characterization of the RNase II-family of enzymes

Dissertation presented to obtain a Doctoral Degree in Biology by Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa

Classificação de sons cardíacos usando Motifs: desenvolvimento de uma aplicação móvel

Este documento foi redigido no âmbito da Tese, do Mestrado em Engenharia Informática na área de Tecnologias do Conhecimento e Decisão, do Departamento de Engenharia Informática, do ISEP, cujo tema é classificação de sons cardíacos usando motifs. Neste trabalho, apresenta-se um algoritmo de classificação de sons cardíacos, capaz de identificar patologias cardíacas. A classificação do som cardíaco é um trabalho desafiante dada a dificuldade em separar os sons ambiente (vozes, respiração, contacto do microfone com superfícies como pele ou tecidos) ou de ruído dos batimentos cardíacos. Esta abordagem seguiu a metodologia de descoberta de padrões SAX (motifs) mais frequentes, em séries temporais relacionando-os com a ocorrência sistólica (S1) e a ocorrência diastólica (S2) do coração. A metodologia seguida mostrou-se eficaz a distinguir sons normais de sons correspondentes a patologia. Os resultados foram publicados na conferência internacional IDEAS’14 [Oliveira, 2014], em Julho deste ano. Numa fase seguinte, desenvolveu-se uma aplicação móvel, capaz de captar os batimentos cardíacos, de os tratar e os classificar. A classificação dos sons é feita usando o método referido no parágrafo anterior. A aplicação móvel, depois de tratar os sons, envia-os para um servidor, onde o programa de classificação é executado, e recebe a resposta da classificação. É também descrita a arquitetura aplicacional desenhada e as componentes que a constituem, as ferramentas e tecnologias utilizadas.

The effect of adhesive thickness on the mechanical behavior of a structural polyurethane adhesive

One parameter that influences the adhesively bonded joints performance is the adhesive layer thickness. Hence, its effect has to be investigated experimentally and should be taken into consideration in the design of adhesive joints. Most of the results from literature are for typical structural epoxy adhesives which are generally formulated to perform in thin sections. However, polyurethane adhesives are designed to perform in thicker sections and might have a different behavior as a function of adhesive thickness. In this study, the effect of adhesive thickness on the mechanical behavior of a structural polyurethane adhesive was investigated. The mode I fracture toughness of the adhesive was measured using double-cantilever beam (DCB) tests with various thicknesses of the adhesive layer ranging from 0.2 to 2 mm. In addition, single lap joints (SLJs) were fabricated and tested to assess the influence of adhesive thickness on the lap-shear strength of the adhesive. An increasing fracture toughness with increasing adhesive thickness was found. The lap-shear strength decreases as the adhesive layer gets thicker, but in contrast to joints with brittle adhesives the decrease trend was less pronounced.

Structural adhesives modified with thermally expandable particles

In this study, the behaviour of two structural adhesives modified with thermally expandable particles (TEPs) was investigated as a preliminary study for further investigations on the potential of TEPs in adhesive joints. Tensile bulk tests were performed to get the tensile properties of the adhesives and TEPs-modified adhesives. In order to determine the expansion temperature of the particles while encapsulated in these particular adhesive systems, the variation of the volume of adhesive samples modified with different TEPs concentration as a function of temperature was measured. Further, the possibility of any chemical interactions between TEPs and adhesives matrix in the TEPs-modified specimens was verified by a Fourier transform infrared spectroscopy analysis. Finally, the fracture surfaces of the unmodified and TEPs-modified specimens, as well as the dispersion and the morphology of the particles, were examined by a scanning electron microscopy analysis. It was found that the stiffness of the TEPs-modified adhesives is not affected by incorporation of TEPs in the adhesives matrix, while the tensile yield strength decreased by increasing the wt% TEPs content. In applications of such particular materials (TEPs-modified adhesives), the temperature should be controlled to stay between 90°C and 120°C in order to obtain the highest expansion ratio. At a lower temperature, not all the particles will expand, and above, the TEPs will deteriorate and as a result the TEPs-modified adhesives will deteriorate.

Biosynthesis-Assisted Structural Elucidation of the Bartolosides, Chlorinated Aromatic Glycolipids from Cyanobacteria

The isolation of the bartolosides, unprecedented cyanobacterial glycolipids featuring aliphatic chains with chlorine substituents and C-glycosyl moieties, is reported. Their chlorinated dialkylresorcinol (DAR) core presented a major structural-elucidation challenge. To overcome this, we discovered the bartoloside (brt) biosynthetic gene cluster and linked it to the natural products through in vitro characterization of the DAR-forming ketosynthase and aromatase. Bioinformatic analysis also revealed a novel potential halogenase. Knowledge of the bartoloside biosynthesis constrained the DAR core structure by defining key pathway intermediates, ultimately allowing us to determine the full structures of the bartolosides. This work illustrates the power of genomics to enable the use of biosynthetic information for structure elucidation.

Structural change: a brief review

This is a short summary of some aspects of structural change models, and is not intended to be comprehensive survey or review. Many important works have been left out. Also, the presentation was not intended to be rigorous nor general. It’s main purpose is only to focus on some recent developments in this area and motivate the reader to learn more.

In situ measured cross section geometry of old timber structures and its influence on structural safety

Old timber structures may show significant variation in the cross section geometry along the same element, as a result of both construction methods and deterioration. As consequence, the definition of the geometric parameters in situ may be both time consuming and costly. This work presents the results of inspections carried out in different timber structures. Based on the obtained results, different simplified geometric models are proposed in order to efficiently model the geometry variations found. Probabilistic modelling techniques are also used to define safety parameters of existing timber structures, when subjected to dead and live loads, namely self-weight and wind actions. The parameters of the models have been defined as probabilistic variables, and safety of a selected case study was assessed using the Monte Carlo simulation technique. Assuming a target reliability index, a model was defined for both the residual cross section and the time dependent deterioration evolution. As a consequence, it was possible to compute probabilities of failure and reliability indices, as well as, time evolution deterioration curves for this structure. The results obtained provide a proposal for definition of the cross section geometric parameters of existing timber structures with different levels of decay, using a simplified probabilistic geometry model and considering a remaining capacity factor for the decayed areas. This model can be used for assessing the safety of the structure at present and for predicting future performance.

Active bionanoconjugates of laccase and gold nanoparticles: kinetic and structural studies

Thesis for the master degree in Structural and Functional Biochemistry

Classificação de sons urbanos usando motifs e MFCC

A classificação automática de sons urbanos é importante para o monitoramento ambiental. Este trabalho apresenta uma nova metodologia para classificar sons urbanos, que se baseia na descoberta de padrões frequentes (motifs) nos sinais sonoros e utiliza-los como atributos para a classificação. Para extrair os motifs é utilizado um método de descoberta multi-resolução baseada em SAX. Para a classificação são usadas árvores de decisão e SVMs. Esta nova metodologia é comparada com outra bastante utilizada baseada em MFCC. Para a realização de experiências foi utilizado o dataset UrbanSound disponível publicamente. Realizadas as experiências, foi possível concluir que os atributos motif são melhores que os MFCC a discriminar sons com timbres semelhantes e que os melhores resultados são conseguidos com ambos os tipos de atributos combinados. Neste trabalho foi também desenvolvida uma aplicação móvel para Android que permite utilizar os métodos de classificação desenvolvidos num contexto de vida real e expandir o dataset.

An NMR structural study of nickel-substituted rubredoxin

J Biol Inorg Chem (2010) 15:409–420 DOI 10.1007/s00775-009-0613-6

Kinetic, Structural, and EPR Studies Reveal That Aldehyde Oxidoreductase from Desulfovibrio gigas Does Not Need a Sulfido Ligand for Catalysis and Give Evidence for a Direct Mo-C Interaction in a Biological System

J. Am. Chem. Soc., 2009, 131 (23), pp 7990–7998 DOI: 10.1021/ja809448r

Correlating EPR and X-ray structural analysis of arsenite-inhibited forms of aldehyde oxidoreductase

J Biol Inorg Chem (2007) 12:353–366 DOI 10.1007/s00775-006-0191-9

Structural and electron paramagnetic resonance (EPR) studies of mononuclear molybdenum enzymes from sulfate-reducing bacteria

Acc. Chem. Res., 2006, 39 (10), pp 788–796 DOI: 10.1021/ar050104k

Desulfovibrio gigas ferredoxin II: redox structural modulation of the [3Fe–4S] cluster

J Biol Inorg Chem (2006) 11: 307–315 DOI 10.1007/s00775-005-0077-2

Membrane structural changes support the involvement of mitochondria in the bile salt-induced apoptosis of rat hepatocytes

Clin Sci (Lond). 2002 Nov;103(5):475-85