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2007
Thapper, A, Boer DR, Brondino CD, Moura JJG, Romao MJ.  2007.  Correlating EPR and X-ray structural analysis of arsenite-inhibited forms of aldehyde oxidoreductase. Journal of Biological Inorganic Chemistry. 12:353-366., Number 3 AbstractWebsite
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Santos-Silva, T, Dias JM, Dolla A, Durand M-C, Goncalves LL, Lampreia J, Moura I, Romao MJ.  2007.  Crystal structure of the 16 heme cytochrome from Desulfovibrio gigas: A glycosylated protein in a sulphate-reducing bacterium. Journal of Molecular Biology. 370:659-673., Number 4 AbstractWebsite
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2006
Moniz, A.  2006.  Competitividade no sector automóvel e formas inovadoras de gestão do emprego em Portugal[Competitivity in the Portuguese automotive sector and innovative forms of employment management], Sep. , Number 6970: University Library of Munich, Germany Abstract

If indicators of international competitivity of the Portuguese industry reveal very strong weaknesses in the field of education and vocational training, the achievement of a solution is not based only (and should not!) in a decisive increase of investment and support in the education and training system. It seem not logical to think in that way, once normally when one tries to solve a problem that is done in the context of that same problem. Eventually there are other strategies. Which are, then, the fields where is necessary to orient the investiment to improve an industrial competitivity? To try to answer this question, we analise one of the sectors that have contributed the most for an improvement of the Portuguese economical performance, and for a true innovative process as in terms of industrial product, or in terms of manufacturing and distribution processes. Is the automotive sector where that happens, taken in its two most important sub-sectors: the one of automobile manufacturing and assembly, and the one of components manufacturing.

Xanthopoulos, P, Golemati S, Sakkalis V, Ktonas PY, Ortigueira M, Zervakis M, Paparrigopoulos T, Tsekou H, Soldatos CR.  2006.  Comparative analysis of time-frequency methods estimating the time-varying microstructure of sleep EEG spindles, October. Information Technology Applications in Biomedicine. Abstract
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Xanthopoulos, P, Golemati S, Sakkalis V, Ktonas PY, Ortigueira M, Zervakis M, Paparrigopoulos T, Tsekou H, Soldatos CR.  2006.  Comparative analysis of time-frequency methods estimating the time-varying microstructure of sleep EEG spindles, October. Information Technology Applications in Biomedicine. Abstract

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Meil, P, Trommel W, Bannink D, Hoogenboom M, Moniz A, Woll T, Makó C, Csizmadia P, Illessy M, Balkmar D, Linardos P.  2006.  Comparative report - WORKS WP5 Policy pillar, May. , Number 67056: ZBW - German National Library of Economics Abstract

This report begins with some general information and analysis of policy and regulation that were the subjects of discussion and exchange in the policy pillar in the first phase of WORKS. The second section is a synthesis of country information on general principles and trends of policy and policy enforcement. This is followed by a summary of sector information for the sectors chosen by the qualitative pillar to be the objects of empirical analysis. The last summarises research questions and dimensions to be guidelines for carrying out case studies and capturing the relevance and effects of policy and institutions at the workplace. –

Brás, AR, Viciosa MT, Rodrigues CM, Dias CJ, Dionísio M.  2006.  Changes in molecular dynamics upon formation of a polymer dispersed liquid crystal. Physical Review E. 73:061709-1-11.Website
Ortigueira, M.  2006.  A coherent approach to non-integer order derivatives. Signal Processing. 86:2505–2515(Number 10: Elsevier) AbstractWebsite

The relation showing that the Grunwald-Letnikov and generalised Cauchy derivatives are equal is presented. This establishes a bridge between two different formulations and simultaneously between the classic integer order derivatives and the fractional ones. Starting from the generalised Cauchy derivative formula, new relations are obtained, namely a regularised version that makes the concept of pseudo-function appear naturally without the need for a rejection of any infinite part. From the regularised derivative, new formulations are deduced and specialised first for the real functions and afterwards for functions with Laplace transforms obtaining the definitions proposed by Lionville. With these tools suitable definitions of fractional linear systems are obtained.

Louro, RO, Salgueiro CA.  2006.  Cytochromes of Shewanella respiratory pathways. Metal Ions in Biology and Medicine - volume 9. (Alpoim, M.C., Morais, P.V., Santos, MA, Cristovão, AJ, Centeno, JA, Collery, P, Eds.).:236-241., Paris: John Libbey Eurotext Abstract

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Ortigueira, M.  2006.  A coherent approach to non-integer order derivatives. Signal Processing. 86:2505–2515., Number 10: Elsevier AbstractWebsite

The relation showing that the Grunwald-Letnikov and generalised Cauchy derivatives are equal is presented. This establishes a bridge between two different formulations and simultaneously between the classic integer order derivatives and the fractional ones. Starting from the generalised Cauchy derivative formula, new relations are obtained, namely a regularised version that makes the concept of pseudo-function appear naturally without the need for a rejection of any infinite part. From the regularised derivative, new formulations are deduced and specialised first for the real functions and afterwards for functions with Laplace transforms obtaining the definitions proposed by Lionville. With these tools suitable definitions of fractional linear systems are obtained.

Bazzicalupi, C, Bencini A, Bianchi A, Borsari L, Danesi A, Giorgi C, Mariani P, Pina F, Santarelli S, Valtancoli B.  2006.  Coordination features of a terpyridine-containing polyamine receptor. Effect of protonation on the photophysical properties of the complexes. Dalton Transactions. :5743-5752., Number 48 AbstractWebsite
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2005
Baptista, {PMRV}, c}alo Dória G{\c, Henriques D, Pereira E, Franco R.  2005.  Colorimetric detection of eukaryotic gene expression with DNA-derivatized gold nanoparticles, jan. Journal of Biotechnology. 119:111–7., Number 2: Elsevier Abstract

Thiol-linked DNA-gold nanoparticles were used in a novel colorimetric method to detect the presence of specific mRNA from a total RNA extract of yeast cells. The method allowed detection of expression of the FSY1 gene that encodes a specific fructose/H+ symporter in Saccharomyces bayanus PYCC 4565. FSY1 is strongly expressed when the yeast is grown in fructose as the sole carbon source, while cells cultivated in glucose as the sole carbon source repress gene expression. The presence of FSY1 mRNA is detected based on color change of a sample containing total RNA extracted from the organism and gold nanoparticles derivatized with a 15-mer of complementary single stranded DNA upon addition of NaCl. If FSY1 mRNA is present, the solution remains pink, changing to blue-purple in the absence of FSY1 mRNA. Direct detection of specific expression was possible from only 0.3 microg of unamplified total RNA without any further enhancement. This novel method is inexpensive, very easy to perform as no amplification or signal enhancement steps are necessary and takes less than 15 min to develop after total RNA extraction. No temperature control is necessary and color change can be easily detected visually.

Palma, LB, Coito FV, da Silva RN.  2005.  Combined approach to fault diagnosis based on principal components and influence matrix. Intelligent Signal Processing, 2005 IEEE International Workshop on. :171–176.: IEEE. Abstract

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Kuhn, FE, Zhao J, Abrantes M, Sun W, Afonso CAM, Branco LC, Goncalves IS, Pillinger M, Romao CC.  2005.  Catalytic olefin epoxidation with cyclopentadienyl-molybdenum complexes in room temperature ionic liquids. Tetrahedron Letters. 46:47-52., Number 1 AbstractWebsite
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da Silva, PF, Lima JC, Freitas AA, Shimizu K, Macanita AL, Quina FH.  2005.  Charge-transfer complexation as a general phenomenon in the copigmentation of anthocyanins. Journal of Physical Chemistry a. 109:7329-7338., Number 32 Abstract
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Branco, LC, Serbanovic A, da Ponte MN, Afonso CAM.  2005.  Clean osmium-catalyzed asymmetric dihydroxylation of olefins in ionic liquids and supercritical CO2 product recovery. Chemical Communications. :107-109., Number 1 AbstractWebsite
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Palma, LB, Coito FV, da Silva RN.  2005.  Combined approach to fault diagnosis based on principal components and influence matrix. Intelligent Signal Processing, 2005 IEEE International Workshop on. :171–176.: IEEE Abstract

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2004
Ortigueira, M, Tenreiro-Machado JA, da Costa JSá.  2004.  Considerations about the choice of a differintegrator, September. International Conference on Computacional Cybernetics. Abstract
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Ortigueira, M, Tenreiro-Machado JA, da Costa JSá.  2004.  Considerations about the choice of a differintegrator, September. International Conference on Computacional Cybernetics. Abstract

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Pauleta, SR, Cooper A, Nutley M, Errington N, Harding S, Guerlesquin F, Goodhew CF, Moura I, Moura JJ, Pettigrew GW.  2004.  A copper protein and a cytochrome bind at the same site on bacterial cytochrome c peroxidase, Nov 23. Biochemistry. 43:14566-76., Number 46 AbstractWebsite

Pseudoazurin binds at a single site on cytochrome c peroxidase from Paracoccus pantotrophus with a K(d) of 16.4 microM at 25 degrees C, pH 6.0, in an endothermic reaction that is driven by a large entropy change. Sedimentation velocity experiments confirmed the presence of a single site, although results at higher pseudoazurin concentrations are complicated by the dimerization of the protein. Microcalorimetry, ultracentrifugation, and (1)H NMR spectroscopy studies in which cytochrome c550, pseudoazurin, and cytochrome c peroxidase were all present could be modeled using a competitive binding algorithm. Molecular docking simulation of the binding of pseudoazurin to the peroxidase in combination with the chemical shift perturbation pattern for pseudoazurin in the presence of the peroxidase revealed a group of solutions that were situated close to the electron-transferring heme with Cu-Fe distances of about 14 A. This is consistent with the results of (1)H NMR spectroscopy, which showed that pseudoazurin binds closely enough to the electron-transferring heme of the peroxidase to perturb its set of heme methyl resonances. We conclude that cytochrome c550 and pseudoazurin bind at the same site on the cytochrome c peroxidase and that the pair of electrons required to restore the enzyme to its active state after turnover are delivered one-by-one to the electron-transferring heme.

Santos-Silva, T, Diasa JM, Bourenkov G, Bartunik H, Moura I, Romao MJ.  2004.  Crystallization and preliminary X-ray diffraction analysis of the 16-haem cytochrome of Desulfovibrio gigas, May. Acta Crystallographica Section D-Biological Crystallography. 60:968-970. AbstractWebsite

High-molecular-weight cytochromes (Hmcs) belong to a large family of multihaem cytochromes in sulfate-reducing bacteria. HmcA is the first cytochrome reported to have 16 c-type haems arranged in its polypeptide chain. The function of this cytochrome is still unknown, although it is clear that it belongs to a membrane-bound complex involved in electron transfer from the periplasm to the membrane. HmcA from Desulfovibrio gigas has been purified and successfully crystallized using the hanging-drop vapour-diffusion method. The crystals grew using PEG and zinc acetate as precipitants to maximum dimensions of 0.2 x 0.2 x 0.2 mm in an orthorhombic space group, with unit-cell parameters a = 88.9, b = 90.9, c = 83.7 Angstrom. The crystals diffracted to beyond 2.07 Angstrom and a MAD data set was collected.

Pinho, D, Besson S, Brondino CD, de Castro B, Moura I.  2004.  Copper-containing nitrite reductase from Pseudomonas chlororaphis DSM 50135 - Evidence for modulation of the rate of intramolecular electron transfer through nitrite binding to the type 2 copper center, Jun. European Journal of Biochemistry. 271:2361-2369., Number 12 AbstractWebsite

The nitrite reductase (Nir) isolated from Pseudomonas chlororaphis DSM 50135 is a blue enzyme, with type 1 and type 2 copper centers, as in all copper-containing Nirs described so far. For the first time, a direct determination of the reduction potentials of both copper centers in a Cu-Nir was performed: type 2 copper (T2Cu), 172 mV and type 1 copper (T1Cu), 298 mV at pH 7.6. Although the obtained values seem to be inconsistent with the established electron-transfer mechanism, EPR data indicate that the binding of nitrite to the T2Cu center increases its potential, favoring the electron-transfer process. Analysis of the EPR spectrum of the turnover form of the enzyme also suggests that the electron-transfer process between T1Cu and T2Cu is the fastest of the three redox processes involved in the catalysis: (a) reduction of T1Cu; (b) oxidation of T1Cu by T2Cu; and (c) reoxidation of T2Cu by NO2-. Electrochemical experiments show that azurin from the same organism can donate electrons to this enzyme.

Palma, LB, Coito F, Neves-Silva R.  2004.  A combined approach to fault diagnosis in dynamic systems. Abstract

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Palma, LB, Coito F, Neves-Silva R.  2004.  A combined approach to fault diagnosis in dynamic systems. Abstract

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