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2011
Amaro, P., A. Surzhykov, F. Parente, P. Indelicato, and J. P. Santos. "Calculation of two-photon decay rates of hydrogen-like ions by using B-polynomials." Journal of Physics A: Mathematical and Theoretical. 44 (2011): 245302. AbstractWebsite

A new approach is laid out to investigate two-photon atomic transitions. It is based on the application of the finite-basis solutions constructed from the Bernstein polynomial (B-polynomial) sets. We show that such an approach provides a very promising route for the relativistic second-order (and even higher-order) calculations since it allows for analytical evaluation of the involved matrices elements. In order to illustrate possible applications of the method and to verify its accuracy, detailed calculations are performed for the 2 s 1/2 ‚Üí 1 s 1/2 transition in neutral hydrogen and hydrogen-like ions, which are compared with the theoretical predictions based on the well-established B-spline basis-set approach.

Santin, E., M. Figueiredo, J. Goes, and L. Oliveira. "CMOS Fully Differential Feedforward-Regulated Folded Cascode Amplifier." Technological Innovation for Sustainability (2011): 565-572. Abstract
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Santos-Silva, T., A. Mukhopadhyay, J. D. Seixas, G. J. L. Bernardes, C. C. Romão, and MJ Romão. "CORM-3 reactivity toward proteins: The crystal structure of a Ru(II) dicarbonyl-lysozyme complex." Journal of the American Chemical Society. 133 (2011): 1192-1195. Abstract
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Dias, MI, Ondina M. Figueiredo, Antónia M. Matos, A. Pais, Maria Isabel Prudêncio, Teresa Pereira Silva, Christopher Ian Burbidge, A. L. Rodrigues, and João Pedro Veiga. "Datação, autenticidade, materiais e pigmentos. Estudos laboratoriais sobre faiança portuguesa e porcelana chinesa produzida para o mercado português, séculos XVI a XVIII." IX Congresso Ibérico de Arqueometria (CIA). 2011. Abstract
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Palma, L., F. Coito, P. Gil, and R. N. d Silva. "Design of Adaptive PCA Controllers for SISO Systems." 18th IFAC World Congress. n/a 2011. Abstract
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Louren{\c c}o, João, Diogo Sousa, Bruno C. Teixeira, and Ricardo Dias. "Detecting concurrency anomalies in transactional memory programs." Comput. Sci. Inf. Syst.. 8 (2011). Abstract
Software transactional memory is a promising programming model that adapts many concepts borrowed from the databases world to control concurrent accesses to main memory (RAM). This paper discusses how to support revertible operations, such as memory allocation and release, within software libraries that will be used in software memory transactional contexts. The proposal is based in the extension of the transaction life cycle state diagram with new states associated to the execution of user-defined handlers. The proposed approach is evaluated in terms of functionality and performance by way of a use case study and performance tests. Results demonstrate that the proposal and its current implementation are flexible, generic and efficient
Spagnolo, A., G. Marchi, F. Peduto, AJL Phillips, and G. Surico. "Detection of Botryosphaeriaceae species within grapevine woody tissues by nested PCR, with particular emphasis on the Neofusicoccum parvum/N. ribis complex." European Journal of Plant Pathology. 129 (2011): 485-500. Abstract
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Mendonça, E., M. Diniz, L. Silva, I. Peres, L. Castro, J. B. Correia, and A. Picado. "Effects of diamond nanoparticle exposure on the internal structure and reproduction of Daphnia magna." Journal of Hazardous Materials. 186 (2011): 265-271. AbstractWebsite
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Sebastião, PJ, A. Gradisek, LFV Pinto, T. Apih, M. H. Godinho, and M. Vilfan. "Fast field-cycling NMR relaxometry study of chiral and nonchiral nematic liquid crystals." The Journal of Physical Chemistry B. 115.49 (2011): 14348-14358. Abstract
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Sena, C., M. H. Godinho, PJ Sebastião, D. Sousa, and AM Figueiredo Neto. "Free-standing urethane/urea elastomer films undoped and doped with ferro-nano-particles." The European Physical Journal E. 34.1 (2011): 1-11. Abstract
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Santin, E., L. B. Oliveira, B. Nowacki, and J. Goes. "A Fully Integrated and Reconfigurable Architecture for Coherent Self-Testing of High Speed Analog-to-Digital Converters." Circuits and Systems I: Regular Papers, IEEE Transactions on. 58 (2011): 1531-1541. Abstract
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Araújo, J., J. D. Mitchell, and Csaba Schneider. "Groups that together with any transformation generate regular semigroups for idempotent generated semigroups." J. Algebra. 343 (2011): 93-106. AbstractWebsite
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Santos, J. P., A. M. Costa, M. C. Martins, P. Indelicato, and F. Parente. "K X-Ray Energies and Transition Probabilities for He-, Li- and Be-like Praseodymium ions." Journal of Physics: Conference Series. Accepted (2011).
Guimarães, D., M. L. Carvalho, M. Becker, A. von Bohlen, V. Geraldes, I. Rocha, and J. P. Santos. "Lead concentration in feces and urine of exposed rats by X-ray Fluorescence and Electrothermal Atomic Absorption Spectrometry." X-Ray Spectrometry. In press (2011). Abstract
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Sena, C., M. H. Godinho, Cristiano Luis Pinto de Oliveira, and AM Figueiredo Neto. "Liquid crystalline cellulosic elastomers: free standing anisotropic films under stretching." Cellulose. 18.5 (2011): 1151. Abstract
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Águas, H., I. Bernacka-Wojcik, T. Busani, E. Fortunato, R. Martins, P. Lopes, P. Simões, M. Ferreira, and L. Hilliou. "Microplat project: development status." III Annual Meeting of the I3N–Institute of Nanostructures, Nanomodelling and Nanofabrication, 2011. 2011. 9. Abstract
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Silva, Tiago A. N., and M. A. R. Loja Minimization of Thermal Residual Stresses on Functionally Graded Sandwich Structures Using Differential Evolution. Eds. Marques V. A Madureira C. Reis. 2nd International Symposium on Computational Intelligence for Engineering Systems (ISCIES 2011)., 2011. Abstract
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Gil, P., A. Paulo, L. Palma, A. Santos, and Alberto Cardoso. "Model Based Predictive Control over Wireless Sensor and Actuator Networks." The 37th Annual Conference of the IEEE Industrial Electronics Society (IECON 2011). n/a 2011. Abstract
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Guerra, M., F. Parente, P. Indelicato, and J. P. Santos. "Modified binary encounter Bethe model for electron-impact ionization." International Journal of Mass Spectrometry. Accepted (2011). Abstract

Theoretical expressions for ionization cross sections by electron impact based on the binary encounter Bethe (BEB) model, valid from ionization threshold up to relativistic energies, are proposed.The new modified BEB (MBEB) and its relativistic counterpart (MRBEB) expressions are simpler than the BEB (nonrelativistic and relativistic) expressions because they require only one atomic parameter, namely the binding energy of the electrons to be ionized, and use only one scaling term for the ionization of all sub-shells.The new models are used to calculate the K-, L- and M-shell ionization cross sections by electron impact for several atoms with Z from 6 to 83.Comparisons with all, to the best of our knowledge, available experimental data show that this model is as good or better than other models, with less complexity.

Garcia-Alvarez, Begona, Roberto Melero, Fernando M. V. Dias, Jose A. M. Prates, Carlos M. G. A. Fontes, Steven P. Smith, Maria Joao Romao, Ana Luisa Carvalho, and Oscar Llorca. "Molecular Architecture and Structural Transitions of a Clostridium thermocellum Mini-Cellulosome." Journal of Molecular Biology. 407 (2011): 571-580. Abstract
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Nunes, G. N. N. V., Alberto Cardoso, A. Santos, and P. Gil. "Multi-agent Topologies over WSANs in the Context of Fault Tolerant Supervision." DoCEIS 2011 - 2nd Edition of the Doctoral Conference on Computing, Electrical and Industrial Systems. n/a 2011. Abstract
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Figueiredo, Ondina M., Teresa Pereira Silva, and João Pedro Veiga. "Nanophases in the mineral world: the unique case of ferrihydrite." III Annual Meeting I3N. 2011. Abstract
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Santos, J. P., M. Guerra, and F. Parente. "New expression for the K-shell ionization." Journal of Physics: Conference Series. Accepted (2011).
Folgosa, F., C. M. Cordas, J. A. Santos, AS Pereira, JJG Moura, P. Tavares, and I. Moura. "New spectroscopic and electrochemical insights on a class I superoxide reductase: evidence for an intramolecular electron-transfer pathway." Biochemical Journal. 438 (2011): 485-494. AbstractWebsite

SORs (superoxide reductases) are enzymes involved in bacterial resistance to reactive oxygen species, catalysing the reduction of superoxide anions to hydrogen peroxide. So far three structural classes have been identified. Class I enzymes have two ironcentre-containing domains. Most studies have focused on the catalytic iron site (centre II), yet the role of centre I is poorly understood. The possible roles of this iron site were approached by an integrated study using both classical and fast kinetic measurements, as well as direct electrochemistry. A new heterometallic form of the protein with a zinc-substituted centre I, maintaining the iron active-site centre II, was obtained, resulting in a stable derivative useful for comparison with the native all-iron from. Second-order rate constants for the electron transfer between reduced rubredoxin and the different SOR forms were determined to be 2.8 x 10(7) M(-1) . s(-1) and 1.3 x 10(6) M(-1) . s(-1) for SOR(Fe(IIII)-Fe(II)) and for SOR(Fe(IIII)-Fe(III)) forms respectively, and 3.2 x 10(6) M(-1) s(-1) for the SOR(Zn(II)-Fe(III)) form. The results obtained seem to indicate that centre I transfers electrons from the putative physiological donor rubredoxin to the catalytic active iron site (intramolecular process). In addition, electrochemical results show that conformational changes are associated with the redox state of centre I, which may enable a faster catalytic response towards superoxide anion. The apparent rate constants calculated for the SOR-mediated electron transfer also support this observation.

Antão, Armando N., T. Santana, M. Vicente da Silva, and N. M. C. Guerra. "Passive earth-pressure coefficients by upper-bound numerical limit analysis." Canadian Geotechnical Journal. 48 (2011): 767-780. Abstract

A three-dimensional (3D) numerical implementation of the limit analysis upper-bound theorem is used to determine passive horizontal earth-pressure coefficients. An extension technique allowing determination of the 3D passive earth pressures for any width-to-height ratios greater than 7 is presented. The horizontal passive earth-pressure coefficients are presented and compared with solutions published previously. Results of the ratio between the 3D and two-dimensional horizontal passive earth-pressure coefficients are shown and found to be almost independent of the soil-to-wall friction ratio. A simple equation is proposed for calculating this passive earth-pressure ratio.