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1999
Abreu, Fernando Brito, Luís Miguel Ochoa, and Miguel Goulão. "The GOODLY Design Language for MOOD2 Metrics Collection." 3rd ECOOP Workshop on Quantitative Approaches in Object-Oriented Software Engineering (QAOOSE'1999). Eds. Fernando Brito e Abreu, Houari Sarahoui, and Horst Zuse. Lisbon, Portugal 1999. Abstract
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Goulão, Miguel, António Silva Monteiro, Nuno Palmeiro Ribeiro, Alberto Bigotte Almeida, Fernando Brito Abreu, and Pedro Sousa III Relatório de Actividades do Protocolo Marinha Portuguesa / INESC. DAMAG / INESC, 1999. Abstract
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Santos, J. P., J. P. Marques, F. Parente, E. Lindroth, P. Indelicato, and J. P. Desclaux. "Relativistic 2s1/2 (L1) atomic subshell decay rates and fluorescence yields for Yb and Hg." Journal of Physics B: Atomic and Molecular Physics. 32 (1999): 2089. AbstractWebsite
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Santos, J. P., F. Mota-Furtado, M. F. Laranjeira, and F. Parente. "Rydberg states of atoms in parallel electric and magnetic fields." Physical Review A. 59 (1999): 1703-1706. AbstractWebsite

We present theoretical results for the photoabsorption spectrum of an atom in parallel electric and magnetic fields, using the R-matrix method combined with quantum-defect theory. We introduce a radial basis set which is complete and orthonormal over a semi-infinite interval [r0,(infinity)), to allow calculations to be performed for high Rydberg states in nonhydrogenic atoms without encountering problems due to linear dependence of the basis set. The nonhydrogenic character of the spectra is analyzed for Li and Rb, and a comparison is made with previous high-precision experiments which shows that the theoretical results agree very well with experiment.

Richardson, RM, EB Barmatov, IJ Whitehouse, VP Shibaev, T. Yongjie, and MHF Godinho. "SECTION IV: STRUCTURES-PHASE TRANSITIONS-A Small Angle Neutron Scattering Study of the Effect of Molecular Weight on the Conformation of Side Chain Liquid Crystal Polymers in a Smectic Phase." Molecular Crystals and Liquid Crystals. 330 (1999): 1529-1536. Abstract
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Richardson, RM, EB Barmatov, IJ Whitehouse, VP Shibaev, T. Yongjie, and MHF Godinho. "A small angle neutron scattering study of the effect of molecular weight on the conformation of side chain liquid crystal polymers in a smectic phase." Molecular Crystals and Liquid Crystals. 330.1 (1999): 285-292. Abstract
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Monteiro, António Silva, Alberto Bigotte Almeida, Miguel Goulao, Fernando Brito Abreu, and Pedro Sousa. "A Software Defect Report and Tracking System in an intranet." Third European Conference on Software Maintenance and Reengineering. Amsterdam, The Netherlands: IEEE Computer Society, 1999. 198-201. Abstract
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Schienstock, Gerd, Gotard Bechmann, Joerg Flecker, Ursula Huws, Geert Van Hootegem, Maria Luisa Mirabile, António Moniz, and Sean Ò Siochru Technical Systems, Organisation Forms and Social Implications: Statistical Analysis of the Firm Survey (Second Interim Report). University Library of Munich, Germany, 1999. Abstract

This is the second interim report of the research project "Information Society, Work and the Generation of New Forms of Social Exclusion" (SOWING). It is based on a firm survey conducted in the eight regions participating in the research project — Flanders (Belgium), Lazio (Italy), Niederösterreich (Austria), Portugal, the Republic of Ireland, the Stuttgart area (Germany), the Tampere region (Finland) and the West London area (U.K.). The aim of this report is to present a broad overview of the collected data. In general, only simple statistical methods have been applied. The report focuses on a regional comparison; however, the data have also been analysed by firm size, measured by quantity of staff, and industrial sector. It should be seen as a first step in the data analysis; it may also give some hints for a more strategic analysis of the survey data.

Paulino, Hervé, Fernando Silva, and Luís Lopes. "Um Modelo de Programação Paralela Simples para Arquitecturas Distribuídas de Baixo-Custo." Proceedings of the 11th Symposium on Computer Architecture and High Performance Computing (SBAC-PAD'99). Eds. Philippe O. A. Navaux, Tiarajú A. Diverio, and Cláudio R. Geyer. 1999. 121-126. Abstract
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Paulino, Hervé, Fernando Silva, and Luís Lopes Um Modelo de Programação Paralela Simples para Arquitecturas Distribuíidas de Baixo-Custo. http://www.dcc.fc.up.pt/Pubs/treports.html: DCC - FC & LIACC, Universidade do Porto, 1999. Abstract
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1998
Santos, AGD, W. Klute, J. Torode, V. P. W. Bohm, E. Cabrita, J. Runsink, and RW Hoffmann. "Flexible molecules with defined shape. X. Synthesis and conformational study of 1,5-diaza-cis-decalin." New Journal of Chemistry. 22 (1998): 993-997. Abstract
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Abreu, P. M., V. S. Rosa, E. M. Araujo, A. B. Canda, O. Kayser, K. - U. Bindseil, K. Siems, A. Seemann, and A. Seemann. "Phytochemical analysis and antimicrobial evaluation of Detarium microcarpum bark extracts." Pharmaceutical and Pharmacological Letters. 8.3 (1998): 107-109. AbstractWebsite
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Paulino, Hervé, Fernando Silva, and Luís Lopes. "di_pSystem: Um Ambiente de Programação Paralela para Arquitecturas de Memória Distribuída." Actas da Primeira Conferência sobre Redes de Computadores (CRC'98). Coimbra, Portugal 1998. 143-148. Abstract

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Fortunato, Elvira, Alexander Malik, Ana Sêco, Isabel Ferreira, and Rodrigo Martins. "Amorphous silicon sensors: from photo to chemical detection." Journal of non-crystalline solids. 227 (1998): 1349-1353. Abstract
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Santos, J. P., F. Parente, and P. Indelicato. "Application of B-splines finite basis sets to relativistic two-photon decay rates of 2s level in hydrogenic ions." The European Physical Journal D. 3 (1998): 43-52. AbstractWebsite

A theoretical study of the one- and two-photon spontaneous emission rates from the 2 s1/2 state of one-electron ions is presented. High-precision values of the relativistic emission rates for ions with nuclear charge Z up to 100 are obtained through the use of finite basis sets for the Dirac equation constructed from B-splines. Furthermore, we analyze the influence of the inclusion of quantum electrodynamics corrections in the initial and final state energies.

Pereira, AS, W. Small, C. Krebs, P. Tavares, DE Edmondson, E. C. Theil, and BH HUYNH. "Direct spectroscopic and kinetic evidence for the involvement of a peroxodiferric intermediate during the ferroxidase reaction in fast ferritin mineralization." Biochemistry. 37 (1998): 9871-9876. AbstractWebsite

Rapid freeze-quench (RFQ) Mossbauer and stopped-flow absorption spectroscopy were used to monitor the ferritin ferroxidase reaction using recombinant (apo) frog M ferritin; the initial transient ferric species could be trapped by the RFQ method using low iron loading (36 Fe2+/ferritin molecule). Biphasic kinetics of ferroxidation were observed and measured directly by the Mossbauer method; a majority (85%) of the ferrous ions was oxidized at a fast rate of similar to 80 s(-1) and the remainder at a much slower rate of similar to 1.7 s(-1). In parallel with the fast phase oxidation of the Fe2+ ions, a single transient iron species is formed which exhibits magnetic properties (diamagnetic ground state) and Mossbauer parameters (Delta E-Q = 1.08 +/- 0.03 mm/s and delta = 0.62 +/- 0.02 mm/s) indicative of an antiferromagnetically coupled peroxodiferric complex. The formation and decay rates of this transient diiron species measured by the RFQ Mossbauer method match those of a transient blue species (lambda(max) = 650 nm) determined by the stopped-flow absorbance measurement. Thus, the transient colored species is assigned to the same peroxodiferric intermediate. Similar transient colored species have been detected by other investigators in several other fast ferritins (H and M subunit types), such as the human H ferritin and the Escherichia coli ferritin, suggesting a similar mechanism for the ferritin ferroxidase step in all fast ferritins. Peroxodiferric complexes are also formed as early intermediates in the reaction of O-2 With the catalytic diiron centers in the hydroxylase component of soluble methane monooxygenase (MMOH) and in the D84E mutant of the R2 subunit of E. coli ribonucleotide reductase. The proposal that a single protein site, with a structure homologous to the diiron centers in MMOH and R2, is involved in the ferritin ferroxidation step is confirmed by the observed kinetics, spectroscopic properties, and purity of the initial peroxodiferric species formed in the frog M ferritin.

Goulão, Miguel, António Silva Monteiro, José Furtado Martins, Nuno Palmeiro Ribeiro, Alberto Bigotte Almeida, Fernando Brito Abreu, and Pedro Sousa II Relatório de Actividades do Protocolo Marinha Portuguesa / INESC. DAMAG / INESC, 1998. Abstract
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Santos, J. P., J. P. Marques, F. Parente, E. Lindroth, S. Boucard, and P. Indelicato. "Multiconfiguration Dirac-Fock calculation of 2s1/2-2p3/2 transition energies in highly ionized bismuth, thorium, and uranium." The European Physical Journal D. 1 (1998): 149-163. Abstract

Structure and QED effects for 2s1/2 and 2p3/2 levels are calculated for lithiumlike U89+ trough neonlike U82+, lithiumlike Th87+ trough neonlike Th80+ and lithiumlike Bi80+ trough neonlike Bi73+. The results of the first two sets are compared with recent measurements of the 2s1/2-2p3/2 transition energy in 3 to 10-electron ions. Good agreement with experiment is found for most of the observed lines. Forty-one possible transitions are calculated for each ion in the eight ionization states, in the experimental energy range. Twenty-eight of these transitions have not been observed, nor calculated previously. We also calculate transition rates, branching ratios, excitation and ionization cross sections and confirm that the thirteen experimental observed transitions correspond to the ones with highest relative intensities. However, we find nineteen more transitions that could be measured in a more sensitive experiment.X

Goulão, Miguel, António Silva Monteiro, José Furtado Martins, Fernando Brito Abreu, Alberto Bigotte Almeida, and Pedro Sousa. "A Software Evolution Experiment." European Software Control and Metrics Conference (ESCOM'98). Eds. Rob Kusters, Adrian Cowderoy, Fred Heemstra, and Jos Trienekens. Rome, Italy: Shakter Publishing B. V., 1998. Abstract
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Pereira, A., W. Small, C. Krebs, P. Tavares, D. Edmondson, E. Theil, and B. Huynh. "{Direct spectroscopic and kinetic evidence for the involvement of a peroxodiferric intermediate during the ferroxidase reaction in fast ferritin mineralization}." Biochemistry. 37 (1998): 9871-9876. Abstract
Rapid freeze-quench (RFQ) Mossbauer and stopped-flow absorption spectroscopy were used to monitor the ferritin ferroxidase reaction using recombinant (apo) frog M ferritin; the initial transient ferric species could be trapped by the RFQ method using low iron loading (36 Fe2+/ferritin molecule). Biphasic kinetics of ferroxidation were observed and measured directly by the Mossbauer method; a majority (85%) of the ferrous ions was oxidized at a fast rate of similar to 80 s(-1) and the remainder at a much slower rate of similar to 1.7 s(-1). In parallel with the fast phase oxidation of the Fe2+ ions, a single transient iron species is formed which exhibits magnetic properties (diamagnetic ground state) and Mossbauer parameters (Delta E-Q = 1.08 +/- 0.03 mm/s and delta = 0.62 +/- 0.02 mm/s) indicative of an antiferromagnetically coupled peroxodiferric complex. The formation and decay rates of this transient diiron species measured by the RFQ Mossbauer method match those of a transient blue species (lambda(max) = 650 nm) determined by the stopped-flow absorbance measurement. Thus, the transient colored species is assigned to the same peroxodiferric intermediate. Similar transient colored species have been detected by other investigators in several other fast ferritins (H and M subunit types), such as the human H ferritin and the Escherichia coli ferritin, suggesting a similar mechanism for the ferritin ferroxidase step in all fast ferritins. Peroxodiferric complexes are also formed as early intermediates in the reaction of O-2 With the catalytic diiron centers in the hydroxylase component of soluble methane monooxygenase (MMOH) and in the D84E mutant of the R2 subunit of E. coli ribonucleotide reductase. The proposal that a single protein site, with a structure homologous to the diiron centers in MMOH and R2, is involved in the ferritin ferroxidation step is confirmed by the observed kinetics, spectroscopic properties, and purity of the initial peroxodiferric species formed in the frog M ferritin.
1997
Casalis, L., L. Gregoratti, M. Kiskinova, G. Margaritondo, FMB Fernandes, RJ Silva, GR Morrison, and AW Potts. "First results from the ESCA microscopy beamline on ELETTRA." Surface and Interface Analysis. 25.5 (1997): 374-379. Abstract
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Soares, A., A. Gonçalves, R. Neves-Silva, and J. M. Lemos. "A methodology for impact evaluation of alternative control strategies in a large-scale power plant." IFAC - Control Engineering Practice. 5.3 (1997): 325-335.
Coito, F., J. M. Lemos, RN Silva, and E. Mosca. "Adaptive control of a solar energy plant: Exploiting accessible disturbances." International journal of adaptive control and signal processing. 11 (1997): 327-342. Abstract
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Silva, RN, L. M. Rato, J. M. Lemos, and F. Coito. "Cascade control of a distributed collector solar field." Journal of Process Control. 7 (1997): 111-117. Abstract
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Romao, MJ, I. Kolln, JM Dias, AL Carvalho, A. Romero, P. F. Varela, L. Sanz, E. Topfer-Petersen, and JJ Calvete. "Crystal structure of acidic seminal fluid protein (aSFP) at 1.9 angstrom resolution: a bovine polypeptide of the spermadhesin family." Journal of Molecular Biology. 274 (1997): 650-660. Abstract

We report the three-dimensional crystal structure of acidic seminal fluid protein (aSFP), a 12.9 kDa poly-peptide of the spermadhesin family isolated from bovine seminal plasma, solved by the multiple isomorphous replacement method and refined with data to 1.9 Angstrom resolution with a final R-factor of 17.3%. aSFP is built by a single CUB domain architecture, a 100 to 110 amino-acid-residue extracellular module found in 16 functionally diverse proteins. The structure of aSFP reveals that the CUB domain displays a beta-sandwich topology organised into two 5-stranded beta-sheets, each of which contain two parallel and four antiparallel strands. The structure of aSFP is almost identical to that of porcine spermadhesins PSP-I and PSP-II, which in turn show limited structural similarity with jellyroll topologies of certain virus capsid proteins. Essentially, topologically conserved residues in these proteins are those internal amino acids forming the hydrophobic core of the CUB and the jellyroll domains, suggesting their importance in maintaining the integrity of these protein folds, On the other hand, the structure of aSFP shows structural features that are unique to this protein and which may provide a structural ground for understanding the distinct biological properties of different members of the spermadhesin protein family. (C) 1997 Academic Press Limited.