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2012
Amaro, P., F. Fratini, S. Fritzsche, P. Indelicato, J. P. Santos, and A. Surzhykov. "Parametrization of the angular correlation and degree of linear polarization in two-photon decays of hydrogenlike ions." Physical Review A. 86 (2012): 042509. AbstractWebsite

The spontaneous two-photon emission in hydrogenlike ions is investigated within the framework of second- order perturbation theory and Dirac’s equation. Special attention is paid to the angular correlation of the emitted photons as well as to the degree of linear polarization of one of the two photons, if the second is just observed under arbitrary angles. Expressions for the angular correlation and the degree of linear polarization are expanded in powers of cosine functions of the two-photon opening angle, whose coefficients depend on the atomic number and the energy sharing of the emitted photons. The effects of including higher (electric and magnetic) multipoles upon the emitted photon pairs beyond the electric-dipole approximation are also discussed. Calculations of the coefficients are performed for the transitions 2s1/2 → 1s1/2, 3d3/2 → 1s1/2, and 3d5/2 → 1s1/2, along the entire hydrogen isoelectronic sequence (1 Z 100).

Safari, L., P. Amaro, S. Fritzsche, J. P. Santos, S. Tashenov, and F. Fratini. "Relativistic polarization analysis of Rayleigh scattering by atomic hydrogen." Phys. Rev. A. 86 (2012): 043405. AbstractWebsite

A relativistic analysis of the polarization properties of light elastically scattered by atomic hydrogen is performed, based on the Dirac equation and second-order perturbation theory. The relativistic atomic states used for the calculations are obtained by making use of the finite basis set method and are expressed in terms of B splines and B polynomials. We introduce two experimental scenarios in which the light is circularly and linearly polarized, respectively. For each of these scenarios, the polarization-dependent angular distribution and the degrees of circular and linear polarization of the scattered light are investigated as a function of scattering angle and photon energy. Analytical expressions are derived for the polarization-dependent angular distribution which can be used for scattering by both hydrogenic as well as many-electron systems. Detailed computations are performed for Rayleigh scattering by atomic hydrogen within the incident photon energy range 0.5 to 5 keV. Particular attention is paid to the effects that arise from higher (nondipole) terms in the expansion of the electron-photon interaction.

Safari, L., P. Amaro, S. Fritzsche, J. P. Santos, S. Tashenov, and F. Fratini. "Relativistic polarization analysis of Rayleigh scattering by atomic hydrogen." Physical Review A. 86 (2012): 043405. AbstractWebsite

A relativistic analysis of the polarization properties of light elastically scattered by atomic hydrogen is performed, based on the Dirac equation and second-order perturbation theory. The relativistic atomic states used for the calculations are obtained by making use of the finite basis set method and are expressed in terms of B splines and B polynomials. We introduce two experimental scenarios in which the light is circularly and linearly polarized, respectively. For each of these scenarios, the polarization-dependent angular distribution and the degrees of circular and linear polarization of the scattered light are investigated as a function of scattering angle and photon energy. Analytical expressions are derived for the polarization-dependent angular distribution which can be used for scattering by both hydrogenic as well as many-electron systems. Detailed computations are performed for Rayleigh scattering by atomic hydrogen within the incident photon energy range 0.5 to 5 keV. Particular attention is paid to the effects that arise from higher (nondipole) terms in the expansion of the electron-photon interaction.

Veigas, Bruno, Jorge M. Jacob, Mafalda N. Costa, David S. Santos, Miguel Viveiros, Joao Inacio, Rodrigo Martins, Pedro Barquinha, Elvira Fortunato, and Pedro Viana Baptista. "Gold on paper-paper platform for Au-nanoprobe TB detection." Lab on a Chip. 12 (2012): 4802-4808. AbstractWebsite
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Inácio, Micael M. G., A. Pinho Ramos, Duarte M. V. Faria, and Válter J. G. Lúcio. "Strengthening of flat slabs with transverse reinforcement by introduction of steel bolts using different anchorage approaches." Engineering Structures. 44 (2012): 383-397. AbstractWebsite

This work presents an experimental study concerning the post-punching behaviour of flat slabs strengthened with a new technique based on post-tensioning with anchorages by bonding using an epoxy adhesive. This strengthening technique proved efficient with respect to ultimate and serviceability states. Five slab specimens were tested in the post-punching range and it was found that the post-punching resistance was on average 78{%} of the punching resistance. This paper reports the development of strand forces and slab displacements from the beginning of the tests, including the bond stresses developed at several stages of the loading process. It was observed that top reinforcement bars were capable of transmitting post-punching loads to the prestressing strands. Taking this into account and based on the load bath envisaged from the column to the slab, expressions for the vertical load capacities corresponding to the parts of the load path are presented and compared with the experimental results, showing their ability to predict both ultimate loads and modes of failure. Compared with other strengthening techniques, the one proposed here not only upgrades ultimate and serviceability behaviour but also adds post-punching resistance, which is a great advantage in the event of progressive collapse, since it may avoid the collapse of an entire structure, thus reducing the risk of material and human losses.

Safari, L., P. Amaro, S. Fritzsche, J. P. Santos, and F. Fratini. "Relativistic total cross section and angular distribution for Rayleigh scattering by atomic hydrogen." Phys. Rev. A. 85 (2012): 043406. AbstractWebsite

We study the total cross section and angular distribution in Rayleigh scattering by hydrogen atom in the ground state, within the framework of Dirac relativistic equation and second-order perturbation theory. The relativistic states used for the calculations are obtained by making use of the finite basis-set method and expressed in terms of B splines and B polynomials. We pay particular attention to the effects that arise from higher (nondipole) terms in the expansion of the electron-photon interaction. It is shown that the angular distribution of scattered photons, while symmetric with respect to the scattering angle θ=90∘ within the electric dipole approximation, becomes asymmetric when higher multipoles are taken into account. The analytical expression of the angular distribution is parametrized in terms of Legendre polynomials. Detailed calculations are performed for photons in the energy range 0.5 to 10 keV. When possible, results are compared with previous calculations.

Pereira, Pedro, Helena Fino, and M. Ventim-Neves. "RF Varactor Design Based on Evolutionary Algorithms." Mixed Design of Integrated Circuits and Systems (MIXDES), 2012 Proceedings of the 19th International Conference. Warsaw, Poland 2012. 277-282. Abstract

This paper introduces an optimization methodology for the design of RF varactors. The characterization of the varactor behaviour is supported by a set of equations based on technological parameters, granting the accuracy of the results, as well as the adaptability of the model to any technology. The varactor design is achieved through the implementation of a Genetic Algorithms (GA) optimization methodology, which is able to deal with continuous and/or discrete variables, making possible to suit both technological and layout constraints. A set of working examples for UMC130 technology are addressed. The results presented, spotlight the potential of varactor analytical model, combined with a GA optimization procedure, when integrated in optimization design tools. The accuracy of the results is checked against HSPICE simulator.

Fortunato, E., P. Barquinha, and R. Martins. "Oxide Semiconductor Thin-Film Transistors: A Review of Recent Advances." Advanced Materials. 24 (2012): 2945-2986. AbstractWebsite
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Pereira, AS, C. G. Timoteo, M. Guilherme, F. Folgosa, S. G. Naik, A. G. Duarte, BH HUYNH, and P. Tavares. "Spectroscopic evidence for and characterization of a trinuclear ferroxidase center in bacterial ferritin from Desulfovibrio vulgaris Hildenborough." Journal of the American Chemical Society. 134 (2012): 10822-32. AbstractWebsite

Ferritins are ubiquitous and can be found in practically all organisms that utilize Fe. They are composed of 24 subunits forming a hollow sphere with an inner cavity of ~80 A in diameter. The main function of ferritin is to oxidize the cytotoxic Fe(2+) ions and store the oxidized Fe in the inner cavity. It has been established that the initial step of rapid oxidation of Fe(2+) (ferroxidation) by H-type ferritins, found in vertebrates, occurs at a diiron binding center, termed the ferroxidase center. In bacterial ferritins, however, X-ray crystallographic evidence and amino acid sequence analysis revealed a trinuclear Fe binding center comprising a binuclear Fe binding center (sites A and B), homologous to the ferroxidase center of H-type ferritin, and an adjacent mononuclear Fe binding site (site C). In an effort to obtain further evidence supporting the presence of a trinuclear Fe binding center in bacterial ferritins and to gain information on the states of the iron bound to the trinuclear center, bacterial ferritin from Desulfovibrio vulgaris (DvFtn) and its E130A variant was loaded with substoichiometric amounts of Fe(2+), and the products were characterized by Mossbauer and EPR spectroscopy. Four distinct Fe species were identified: a paramagnetic diferrous species, a diamagnetic diferrous species, a mixed valence Fe(2+)Fe(3+) species, and a mononuclear Fe(2+) species. The latter three species were detected in the wild-type DvFtn, while the paramagnetic diferrous species was detected in the E130A variant. These observations can be rationally explained by the presence of a trinuclear Fe binding center, and the four Fe species can be properly assigned to the three Fe binding sites. Further, our spectroscopic data suggest that (1) the fully occupied trinuclear center supports an all ferrous state, (2) sites B and C are bridged by a mu-OH group forming a diiron subcenter within the trinuclear center, and (3) this subcenter can afford both a mixed valence Fe(2+)Fe(3+) state and a diferrous state. Mechanistic insights provided by these new findings are discussed and a minimal mechanistic scheme involving O-O bond cleavage is proposed.

Faria, Duarte M. V., Válter J. G. Lúcio, and A. Pinho Ramos. "Post-punching behaviour of flat slabs strengthened with a new technique using post-tensioning." Engineering Structures. 40 (2012): 383-397. AbstractWebsite

This work presents an experimental study concerning the post-punching behaviour of flat slabs strengthened with a new technique based on post-tensioning with anchorages by bonding using an epoxy adhesive. This strengthening technique proved efficient with respect to ultimate and serviceability states. Five slab specimens were tested in the post-punching range and it was found that the post-punching resistance was on average 78{%} of the punching resistance. This paper reports the development of strand forces and slab displacements from the beginning of the tests, including the bond stresses developed at several stages of the loading process. It was observed that top reinforcement bars were capable of transmitting post-punching loads to the prestressing strands. Taking this into account and based on the load bath envisaged from the column to the slab, expressions for the vertical load capacities corresponding to the parts of the load path are presented and compared with the experimental results, showing their ability to predict both ultimate loads and modes of failure. Compared with other strengthening techniques, the one proposed here not only upgrades ultimate and serviceability behaviour but also adds post-punching resistance, which is a great advantage in the event of progressive collapse, since it may avoid the collapse of an entire structure, thus reducing the risk of material and human losses.

P., Vaz-Serra, Ribeiro F., and Grilo A. "Knowledge management system in a construction company: A case study." eWork and eBusiness in Architecture, Engineering and Construction. 2012. 339-346. Abstract
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J, Beirlant, Caeiro F, and Gomes MI. "An Overview And Open Research Topics In Statistics Of Univariate Extremes." 10 (2012): 1-31. Abstract
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M.I., Gomes, Caeiro F., and Henriques-Rodrigues L. PORT-PPWM extreme value index estimation. Proceedings of COMPSTAT 2012., 2012. Abstract2012_compstat2012.pdf

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Pereira, Pedro, Amin Sallem, Mourad Fakhfakh, Maria H. Fino, and Fernando Coito. "A Technology-Aware Optimization of RF Integrated Inductors." Analog Circuits: Applications, Design and Performance. Ed. Esteban Tlelo-Cuautle. Nova Science Publishers, Inc., 2012. 213-234. Abstract

This Chapter presents the optimal design of radio-frequency integrated spiral inductors. The basic idea is to generate an analytical model to characterize integrated inductors based on the double {\ensuremathπ}-model, and offer to the designer an approach to determine the inductor layout parameters. Particle Swarm Optimization technique is used to generate optimal values of parameters of the developed models. Viability of the proposed models is highlighted via comparison with ASITIC simulation results.

Pereira, Lu\'ıs, Pedro Barquinha, Gonçalo Gonçalves, Elvira Fortunato, and Rodrigo Martins. "{Multicomponent dielectrics for oxide TFT}." Eds. Ferechteh H. Teherani, David C. Look, and David J. Rogers. Vol. 8263. 2012. 826316–16. Abstract
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Martins, R., V. Figueiredo, R. Barros, P. Barquinha, G. Gonçalves, L. Pereira, I. Ferreira, and E. Fortunato. "{P-type oxide-based thin film transistors produced at low temperatures}." Eds. Ferechteh H. Teherani, David C. Look, and David J. Rogers. Vol. 8263. 2012. 826315–15. Abstract
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Miller, A. Z., M. Hernandez-Marine, V. Jurado, A. Dionisio, P. Barquinha, E. Fortunato, M. J. Afonso, H. I. Chamine, and C. Saiz-Jimenez. "Enigmatic reticulated filaments in subsurface granite." Environmental Microbiology Reports. 4 (2012): 596-603. AbstractWebsite
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Timoteo, C. G., M. Guilherme, D. Penas, F. Folgosa, P. Tavares, and AS Pereira. "Desulfovibrio vulgaris bacterioferritin uses H(2)O(2) as a co-substrate for iron oxidation and reveals DPS-like DNA protection and binding activities." The Biochemical journal. 446 (2012): 125-33. AbstractWebsite

A gene encoding Bfr (bacterioferritin) was identified and isolated from the genome of Desulfovibrio vulgaris cells, and overexpressed in Escherichia coli. In vitro, H(2)O(2) oxidizes Fe(2+) ions at much higher reaction rates than O(2). The H(2)O(2) oxidation of two Fe(2+) ions was proven by Mossbauer spectroscopy of rapid freeze-quenched samples. On the basis of the Mossbauer parameters of the intermediate species we propose that D. vulgaris Bfr follows a mineralization mechanism similar to the one reported for vertebrate H-type ferritins subunits, in which a diferrous centre at the ferroxidase site is oxidized to diferric intermediate species, that are subsequently translocated into the inner nanocavity. D. vulgaris recombinant Bfr oxidizes and stores up to 600 iron atoms per protein. This Bfr is able to bind DNA and protect it against hydroxyl radical and DNase deleterious effects. The use of H(2)O(2) as an oxidant, combined with the DNA binding and protection activities, seems to indicate a DPS (DNA-binding protein from starved cells)-like role for D. vulgaris Bfr.

Lavareda, G., C. Nunes de Carvalho, A. M. Ferraria, A. M. Botelho Do Rego, and A. Amaral. "p-Type Cuo(X) Thin Films by rf-Plasma Enhanced Reactive Thermal Evaporation: Influence of rf-Power Density." JOURNAL OF NANOSCIENCE AND NANOTECHNOLOGY. 12 (2012): 6754-6757. Abstract

Copper oxide is a well known p-type semiconductor material, usually obtained by thermal oxidation of copper thin-films within few minutes, at atmospheric pressure. In this paper, thin films of copper oxide that were deposited by radio-frequency plasma enhanced reactive thermal evaporation of copper at room temperature, without any post-deposition annealing treatment, are studied. The deposition of good quality p-type semiconductor oxide to be used in the fabrication of p-TFTs is the purpose of this work. The thickness of the films varies from 97 up to 160 nm. The influence of rf power density on chemical, electrical and optical properties of the films was studied. Samples present conductivity within the range of 6 x 10(-5) to 4 x 10(2) Omega(-1) cm(-1) (thermal activation energy in the interval 0.46 to 0.01 eV). The p-type conductivity of the films was confirmed by Seebeck effect in the more conductive samples. Surface composition obtained by XPS analysis was correlated with optical and electrical properties, showing that rf-power plays a main role in changes of material characteristics.

Lavareda, G., C. Nunes de Carvalho, A. M. Ferraria, A. M. Botelho Do Rego, and A. Amaral. "p-Type Cuo(X) Thin Films by rf-Plasma Enhanced Reactive Thermal Evaporation: Influence of rf-Power Density." JOURNAL OF NANOSCIENCE AND NANOTECHNOLOGY. 12 (2012): 6754-6757. Abstract

Copper oxide is a well known p-type semiconductor material, usually obtained by thermal oxidation of copper thin-films within few minutes, at atmospheric pressure. In this paper, thin films of copper oxide that were deposited by radio-frequency plasma enhanced reactive thermal evaporation of copper at room temperature, without any post-deposition annealing treatment, are studied. The deposition of good quality p-type semiconductor oxide to be used in the fabrication of p-TFTs is the purpose of this work. The thickness of the films varies from 97 up to 160 nm. The influence of rf power density on chemical, electrical and optical properties of the films was studied. Samples present conductivity within the range of 6 x 10(-5) to 4 x 10(2) Omega(-1) cm(-1) (thermal activation energy in the interval 0.46 to 0.01 eV). The p-type conductivity of the films was confirmed by Seebeck effect in the more conductive samples. Surface composition obtained by XPS analysis was correlated with optical and electrical properties, showing that rf-power plays a main role in changes of material characteristics.

Safari, L., P. Amaro, S. Fritzsche, J. P. Santos, and F. Fratini. "Relativistic total cross section and angular distribution for Rayleigh scattering by atomic hydrogen." Physical Review A. 85 (2012): 043406. AbstractWebsite

We study the total cross section and angular distribution in Rayleigh scattering by hydrogen atom in the ground state, within the framework of Dirac relativistic equation and second-order perturbation theory. The relativistic states used for the calculations are obtained by making use of the finite basis-set method and expressed in terms of B splines and B polynomials. We pay particular attention to the effects that arise from higher (nondipole) terms in the expansion of the electron-photon interaction. It is shown that the angular distribution of scattered photons, while symmetric with respect to the scattering angle θ=90∘ within the electric dipole approximation, becomes asymmetric when higher multipoles are taken into account. The analytical expression of the angular distribution is parametrized in terms of Legendre polynomials. Detailed calculations are performed for photons in the energy range 0.5 to 10 keV. When possible, results are compared with previous calculations.

Sousa, Diogo G., João M. and Lourenço, Eitan Farchi, and Itai Segall. "Aplicação do Fecho de Programas na Deteção de Anomalias de Concorrência." INForum 2012: Proceedings of INForum Simpósio de Informática. Monte de Caparica, PT: Faculdade de Ciências e Tecnologia da Universidade Nova de Lisboa, 2012. Abstractinforum-closure.pdf

Uma das estratégias para tirar partido dos múltiplos processadores disponíveis nos computadores atuais passa por adaptar código legado, inicialmente concebido para ser executado num contexto meramente sequencial, para ser agora executado num contexto multithreading. Nesse processo de adaptação é necessário proteger apropriadamente os dados que são agora partilhados e acedidos por diferentes threads concorrentes. A proteção dos dados com locks usando uma granulosidade grossa inibe a concorrência e opõe-se ao objetivo inicial de explorar o paralelismo suportado por múltiplos processadores. Por outro lado, a utilização de uma granulosidade fina pode levar à ocorrência de anomalias próprias da concorrência, como deadlocks e violações de atomicidade (high-level data races). Este artigo discute o conceito de fecho de um programa e uma metodologia que, quando aplicados em conjunto, permitem adaptar código legado para o tornar thread-safe, garantindo a ausência de violações de atomicidade na versão corrente do software e antecipando algumas violações de atomicidade que poderão ocorrer em versões futuras do mesmo software.

Goulão, Miguel, Nelson Fonte, Michel Wermelinger, and Fernando Brito Abreu. "Software Evolution Prediction Using Seasonal Time Analysis: a Comparative Study." 16th European Conference on Software Maintenance and Reengineering (CSMR 2012). Szeged, Hungary: IEEE Computer Society, 2012. Abstractgoulao2012csmr.pdf

Prediction models of software change requests are useful for supporting rational and timely resource
allocation to the evolution process. In this paper we use a time series forecasting model to predict software
maintenance and evolution requests in an open source software project (Eclipse), as an example of projects with seasonal release cycles. We build an ARIMA model based on data collected from Eclipse’s change request tracking system since the project’s start. A change request may refer to defects found in the software, but also to suggested improvements in the system under scrutiny. Our model includes the identification of seasonal patterns and tendencies, and is validated through the forecast of the change requests evolution for the next 12 months. The usage of seasonal information significantly improves the estimation ability of this model, when compared to other ARIMA models found in the literature, and does so for a much longer estimation period. Being able to accurately forecast the change requests’ evolution over a fairly long time period is an important ability for enabling adequate process control in maintenance activities, and facilitates
effort estimation and timely resources allocation. The approach presented in this paper is suitable for projects with a relatively long history, as the model building process relies on historic data.

Pereira, Pedro, Helena Fino, and M. Ventim-Neves. "LC-VCO design methodology based on evolutionary algorithms." Synthesis, Modeling, Analysis and Simulation Methods and Applications to Circuit Design (SMACD), 2012 International Conference on. Seville - Spain 2012. 189-192. Abstract

In his paper the design of LC-VCOs is addressed. Due to the high-density integration needs as well as to low cost fabrication, RF applications are usually implemented in CMOS technology. However, this technology development brought up several issues such as the degradation of on-chip LC tank quality factor, yielding VCO's phase noise limitation. To overcome phase-noise limitations, optimization design methodologies are usually used. Since electromagnetic simulations are timely expensive, model based approaches are needed. In this work the characterization of the oscillator behaviour is guaranteed by a set of analytical models describing each circuit element performance. A set of working examples for UMC130 technology, aiming the VCO phase noise and power consumption optimization, is addressed. The results presented, spotlight the potential of the proposed design methodology, combined with a GA optimization procedure, for an accurate and timely efficient oscillator design. The accuracy of the results is checked against HSPICE/RF simulator.