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2009
Martins, M. C., J. P. Marques, A. M. Costa, J. P. Santos, F. Parente, S. Schlesser, Le E. - O. Bigot, and P. Indelicato. "Production and decay of sulfur excited species in an electron-cyclotron-resonance ion-source plasma." Physical Review A (Atomic, Molecular, and Optical Physics). 80 (2009): 032501. AbstractWebsite
The most important processes for the creation of S12+ to S14+ ions excited states from the ground configurations of S9+ to S14+ ions in an electron cyclotron resonance ion source, leading to the emission of K x-ray lines, are studied. Theoretical values for inner-shell excitation and ionization cross sections, including double-KL and triple-KLL ionizations, transition probabilities and energies for the de-excitation processes, are calculated in the framework of the multiconfiguration Dirac-Fock method. With reasonable assumptions about the electron energy distribution, a theoretical Kalpha x-ray spectrum is obtained, which is compared to recent experimental data.
Martins, M. C., J. P. Marques, A. M. Costa, J. P. Santos, F. Parente, S. Schlesser, E. O. Le Bigot, and P. Indelicato. "Production and decay of sulfur excited species in an electron-cyclotron-resonance ion-source plasma." Physical Review A. 80 (2009): 032501. AbstractWebsite

The most important processes for the creation of S12+ to S14+ ions excited states from the ground configurations of S9+ to S14+ ions in an electron cyclotron resonance ion source, leading to the emission of K x-ray lines, are studied. Theoretical values for inner-shell excitation and ionization cross sections, including double-KL and triple-KLL ionizations, transition probabilities and energies for the de-excitation processes, are calculated in the framework of the multiconfiguration Dirac-Fock method. With reasonable assumptions about the electron energy distribution, a theoretical Kalpha x-ray spectrum is obtained, which is compared to recent experimental data.

Torosantucci, Antonella, Paola Chiani, Carla Bromuro, Flavia De Bernardis, Angelina S. Palma, Yan Liu, Giuseppina Mignogna, Bruno Maras, Marisa Colone, Annarita Stringaro, Silvia Zamboni, Ten Feizi, and Antonio Cassone. "Protection by Anti-beta-Glucan Antibodies Is Associated with Restricted beta-1,3 Glucan Binding Specificity and Inhibition of Fungal Growth and Adherence." Plos One. 4 (2009). Abstract
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Chaves, I., C. Pinheiro, JAP Paiva, S. Planchon, K. Sergeant, J. Renaut, JA Graca, G. Costa, AV Coelho, and CPP Ricardo. "Proteomic evaluation of wound-healing processes in potato (Solanum tuberosum L.) tuber tissue." PROTEOMICS. 9 (2009): 4154-4175. Abstract
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Chaves, I., C. Pinheiro, JAP Paiva, S. Planchon, K. Sergeant, J. Renaut, JA Graca, G. Costa, AV Coelho, and CPP Ricardo. "Proteomic evaluation of wound-healing processes in potato (Solanum tuberosum L.) tuber tissue." PROTEOMICS. 9 (2009): 4154-4175. Abstract
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Viciosa, M. T., N. T. Correia, M. Salmeron Sanchez, AL Carvalho, MJ Romao, J. L. Gomez Ribelles, and M. Dionisio. "Real-Time Monitoring of Molecular Dynamics of Ethylene Glycol Dimethacrylate Glass Former." Journal of Physical Chemistry B. 113 (2009): 14209-14217. Abstract
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Childs, Robert A., Angelina S. Palma, Steve Wharton, Tatyana Matrosovich, Yan Liu, Wengang Chai, Maria A. Campanero-Rhodes, Yibing Zhang, Markus Eickmann, Makoto Kiso, Alan Hay, Mikhail Matrosovich, and Ten Feizi. "Receptor-binding specificity of pandemic influenza A (H1N1) 2009 virus determined by carbohydrate microarray." Nature Biotechnology. 27 (2009): 797-799. Abstract
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Santos, S., Alberto Cardoso, A. Santos, and P. Gil Robust Monitoring and Fault Tolerance in Wireless Sensor Networks. n/a, 2009. Abstract
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Martins, Rodrigo, P. Barquinha, L. Pereira, N. Correia, G. GONCALVES, I. Ferreira, and E. Fortunato. "Selective floating gate non‐volatile paper memory transistor." physica status solidi (RRL)-Rapid Research Letters. 3.9 (2009): 308-310. Abstract
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Martins, Rodrigo, LuÍs Pereira, Pedro Barquinha, Nuno Correia, Gonçalo Gonçalves, Isabel Ferreira, Carlos Dias, N. Correia, M. Dionísio, and M. Silva. "Self‐sustained n‐type memory transistor devices based on natural cellulose paper fibers." Journal of Information Display. 10.4 (2009): 149-157. Abstract
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Cardoso, Alberto, S. Santos, A. Santos, and P. Gil. "Simulation Platform for Wireless Sensor Networks based on the TrueTime Toolbox." IECON 2009 - 35th Annual Conference of the IEEE Industrial Electronics Society. n/a 2009. Abstract
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Gomes, J., Alberto Cardoso, and P. Gil. "Slope instability and landslides in Tua river basin and its relations with recent train disasters." Geomorphology 2009 - 7th International Conference on Geomorphology (ANZIAG). n/a 2009. Abstract
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Agra, A., D. M. Cardoso, J. O. Cerdeira, M. Miranda, and E. Rocha. "Solving huge size instances of the optimal diversity management problem." Journal of Mathematical Sciences. 161 (2009): 956-960. Abstract
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Cipriano, F., Ouerdiane Vilela Mendes H. R. "Stochastic Solution of a KPP-Type Nonlinear Fractional Differential Equation." Fractional Calculus and Applied Analysis. 12 (2009): 47-56. AbstractWebsite

Mathematics Subject Classification: 26A33, 76M35, 82B31A stochastic solution is constructed for a fractional generalization of the KPP (Kolmogorov, Petrovskii, Piskunov) equation. The solution uses a fractional generalization of the branching exponential process and propagation processes which are spectral integrals of Levy processes.

Pinto, R. M., A. A. Dias, and M. L. Costa. "Theoretical study of the molecular properties of methyl 2-azidopropionate and methyl 3-azidopropionate." Journal of Molecular Structure: THEOCHEM. 894 (2009): 80-87. AbstractWebsite

An extensive conformational analysis was carried at ab initio and DFT levels of theory on two molecules - methyl 2-azidopropionate (N3CH3CHCOOCH3) and methyl 3-azidopropionate (N3CH2CH2COOCH3). In each case, the lowest energy conformers were characterized and the energy barriers between them were estimated. Ionization energies and vibrational frequencies were also computed, in order to support future spectroscopic studies with ultraviolet photoelectron spectroscopy (UVPES) and matrix isolation infrared spectroscopy (Matrix Isolation FTIR).

Costa, P. M., H. M. Santos, I. Peres, M. H. Costa, S. Alves, J. L. Capelo-Martinez, and M. S. Diniz. "Toxicokinetics of waterborne trivalent arsenic in the freshwater bivalve corbicula fluminea." Archives of Environmental Contamination and Toxicology. 57 (2009): 338-347. AbstractWebsite
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Pereira, P., M. H. Fino, and F. V. Coito. "Using discrete-variable optimization for CMOS spiral inductor design." Proc. Int Microelectronics (ICM) Conf. 2009. 324-327. Abstract

In this paper a discrete-variable optimization methodology for the automatic design of CMOS integrated spiral inductors is introduced. The use of discrete variable optimization procedure offers the designer the possibility for exploring the design space exclusively in those points available for the technology under use. Further user-defined constraints between layout parameters may also be incorporated as a way of taking into account design heuristics. A comparison between using discrete-variable optimization and a continuous optimization procedure followed by a discretization of the results is presented, where the benefits of the proposed methodology are presented. An application using the proposed methodology was developed in Matlab and the optimization toolbox is used. For the sake of simplicity the pi-model has been used for characterizing the inductor. The validity of the design results is checked against circuit simulation with ASITIC.

Pereira, P., M. H. Fino, and F. V. Coito. "Using discrete-variable optimization for CMOS spiral inductor design." Microelectronics (ICM), 2009 International Conference on. IEEE, 2009. 324-327. Abstract
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Conrath, Katja, Alice S. Pereira, Carlos E. Martins, Cristina G. Timoteo, Pedro Tavares, Silvia Spinelli, Joerg Kinne, Christophe Flaudrops, Christian Cambillau, Serge Muyldermans, Isabel Moura, Jose J. G. Moura, Mariella Tegoni, and Aline Desmyter. "{Camelid nanobodies raised against an integral membrane enzyme, nitric oxide reductase}." Protein science : a publication of the Protein Society. 18 (2009): 619-628. Abstract
Nitric Oxide Reductase (NOR) is an integral membrane protein performing the reduction of NO to N2O. NOR is composed of two subunits: the large one (NorB) is a bundle of 12 transmembrane helices (TMH). It contains a b type heme and a binuclear iron site, which is believed to be the catalytic site, comprising a heme b and a non-hemic iron. The small subunit (NorC) harbors a cytochrome c and is attached to the membrane through a unique TMH. With the aim to perform structural and functional studies of NOR, we have immunized dromedaries with NOR and produced several antibody fragments of the heavy chain (VHHs, also known as nanobodies (TM)). These fragments have been used to develop a faster NOR purification procedure, to proceed to crystallization assays and to analyze the electron transfer of electron donors. BIAcore experiments have revealed that up to three VHHs can bind concomitantly to NOR with affinities in the nanomolar range. This is the first example of the use of VHHs with an integral membrane protein. Our results indicate that VHHs are able to recognize with high affinity distinct epitopes on this class of proteins, and can be used as versatile and valuable tool for purification, functional study and crystallization of integral membrane proteins.
Martí, A., E. Antolín, P. G. Linares, E. Cánovas, D. {Fuertes Marrón}, C. Tablero, M. Mendes, A. Mellor, I. Tobías, M. Y. Levy, E. Hernández, A. Luque, C. D. Farmer, C. R. Stanley, R. P. Campion, J. L. Hall, S. V. Novikov, C. T. Foxon, R. Scheer, B. Marsen, H. W. Schock, M. Picault, and C. Chaix. "{IBPOWER: Intermediate band materials and solar cells for photovoltaics with high efficiency and reduced cost}." Conference Record of the IEEE Photovoltaic Specialists Conference. 2009. Abstract
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Rivas, Maria G., Cristiano S. Mota, Sofia R. Pauleta, Marta S. P. Carepo, Filipe Folgosa, Susana L. A. Andrade, Guy Fauque, Alice S. Pereira, Pedro Tavares, Juan J. Calvete, Isabel Moura, and Jose J. G. Moura. "{Isolation and characterization of a new Cu-Fe protein from Desulfovibrio aminophilus DSM12254.}." Journal Of Inorganic Biochemistry. 103 (2009): 1314-1322. Abstract
The isolation and characterization of a new metalloprotein containing Cu and Fe atoms is reported. The as-isolated Cu-Fe protein shows an UV-visible spectrum with absorption bands at 320 nm, 409 nm and 615 nm. Molecular mass of the native protein along with denaturating electrophoresis and mass spectrometry data show that this protein is a multimer consisting of 14+/-1 subunits of 15254.3+/-7.6 Da. Mössbauer spectroscopy data of the as-isolated Cu-Fe protein is consistent with the presence of [2Fe-2S](2+) centers. Data interpretation of the dithionite reduced protein suggest that the metallic cluster could be constituted by two ferromagnetically coupled [2Fe-2S](+) spin delocalized pairs. The biochemical properties of the Cu-Fe protein are similar to the recently reported molybdenum resistance associated protein from Desulfovibrio, D. alaskensis. Furthermore, a BLAST search from the DNA deduced amino acid sequence shows that the Cu-Fe protein has homology with proteins annotated as zinc resistance associated proteins from Desulfovibrio, D. alaskensis, D. vulgaris Hildenborough, D. piger ATCC 29098. These facts suggest a possible role of the Cu-Fe protein in metal tolerance.
Ayouchi, R., L. Bentes, C. Casteleiro, O. Conde, C. P. Marques, E. Alves, A. M. C. Moutinho, H. P. Marques, O. Teodoro, and R. Schwarz. "{Photosensitivity of nanocrystalline ZnO films grown by PLD}." Applied Surface Science. 255 (2009): 5917-5921. Abstract

We have studied the properties of ZnO thin films grown by laser ablation of ZnO targets on (0 0 0 1) sapphire (Al2O3), under substrate temperatures around 400 8C. The films were characterized by different methods including X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD) and atomic force microscopy (AFM). XPS analysis revealed that the films are oxygen deficient, and XRD analysis with u–2u scans and rocking curves indicate that the ZnO thin films are highly c-axis oriented. All the films are ultraviolet (UV) sensitive. Sensitivity is maximum for the films deposited at lower temperature. The films deposited at higher temperatures show crystallite sizes of typically 500 nm, a high dark current and minimum photoresponse. In all films we observe persistent photoconductivity decay. More densely packed crystallites and a faster decay in photocurrent is observed for films deposited at lower temperature.

Duarte, Ana Rita C., Sofia G. Caridade, Jo??o F. Mano, and Rui L. Reis. "{Processing of novel bioactive polymeric matrixes for tissue engineering using supercritical fluid technology}." Materials Science and Engineering C. 29 (2009): 2110-2115. Abstract

The aim of this study was to develop a new process for the production of bioactive 3D scaffolds using a clean and environmentally friendly technology. The possibility of preparing composite scaffolds of Bioglass?? and a polymeric blend of starch and poly(l-lactic acid) (SPLA50) was evaluated. Supercritical phase-inversion technique was used to prepare inorganic particles loaded starch-based porous composite matrixes in a one-step process for bone tissue engineering purposes. Due to their osteoconductive properties some glasses and ceramics are interesting materials to be used for bone tissue engineering purposes; however their poor mechanical properties create the need of a polymeric support where the inorganic fraction can be dispersed. Samples impregnated with different concentrations of Bioglass?? (10 and 15{%} wt/wt polymer) were prepared at 200??bar and 55????C. The presence of Bioglass?? did not affect the porosity or interconnectivity of the polymeric matrixes. Dynamic mechanical analysis has proven that the modulus of the SPLA50 scaffolds increases when glass particles are impregnated within the matrix. In vitro bioactivity studies were carried out using simulated body fluid and the results show that a calcium-phosphate layer started to be formed after only 1??day of immersion. Chemical analysis of the apatite layer formed on the surface of the scaffold was performed by different techniques, namely EDS and FTIR spectroscopy and X-ray diffraction (XRD). The ion concentration in the simulated body fluid was also carried out by ICP analysis. Results suggest that a bone-like apatite layer was formed. This study reports the feasibility of using supercritical fluid technology to process, in one step, a porous matrix loaded with a bioactive material for tissue engineering purposes. ?? 2009 Elsevier B.V. All rights reserved.

Cruz, J., M. Fonseca, H. Luis, R. Mateus, H. Marques, A. P. Jesus, J. P. Ribeiro, O. M. N. D. Teodoro, and C. Rolfs. "{Production and characterization of thin 7 Li targets fabricated by ion implantation}." Nuclear Inst. and Methods in Physics Research, B. 267 (2009): 478-481. AbstractWebsite

Very high fluence implantation of 7Li+ ions was used to promote the formation of a thin and high density 7Li target in the surface region of Al samples. The implanted volume was characterized by particle induced gamma-ray emission, Rutherford backscattering spectrometry, X-ray photoelectron spectros- copy and nuclear reaction analysis, revealing that the implanted surface is a combination of Li2CO3, metallic lithium, LiOH and C, with almost no Al present. Radiation damage effects by proton beams were studied by observing the evolution of the 7Li(p,a)4He nuclear reaction yield with the accumulated charge, at different proton energies, revealing high stability of the produced Li target.

Martins, Rodrigo, P. Barquinha, L. Pereira, N. Correia, G. Gonçalves, I. Ferreira, and E. Fortunato. "{Selective floating gate non-volatile paper memory transistor}." physica status solidi (RRL) - Rapid Research Letters. 3 (2009): 308-310. AbstractWebsite
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