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2009
Pereira, L.a, Barquinha Gonçalves Vilà Olziersky Morante Fortunato Martins P. a G. a. "Sputtered multicomponent amorphous dielectrics for transparent electronics." Physica Status Solidi (A) Applications and Materials Science. 206 (2009): 2149-2154. AbstractWebsite

In this work, we present the structural and electrical properties of HfO 2, HfO 2 +SiO 2, and HfO 2 +Al 2O 3 dielectric composite layers deposited by sputtering without any intentional substrate heating. The films were deposited on glass and 〈100〉 crystalline silicon (c-Si) substrates from ceramic targets by using argon (Ar) and oxygen (O 2) as sputtering and reactive gases, respectively. The incorporation of SiO 2 and Al 2O 3 into hafnia was obtained by co-sputtering and itwas controlled by adjusting the ratio of r.f. power applied between the targets. The HfO 2 films present a microcrystalline structure, when deposited at room temperature (RT). The lowest leakage current in c-Si MIS (Metal-Insulator- Semiconductor) structures (below 10 9A/cm 2 at 10V on films with a thickness around 180 nm) was obtained for an Ar/O 2 ratio of 14:1 sccm, and further increase in O 2 flow does not enhance the electrical characteristics. The codeposition of SiO 2 or Al 2O 3 with hafnia has a strong influence on the structure of the resulting films since they become amorphous. The leakage current in MISstructures incorporating these multi-component dielectrics is reduced at least by a factor of 2, which is accompanied by an increase on the band gap. The dielectric constant is decreased due to the lower values for SiO 2 and Al 2O 3. © 2009 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

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.

Alves, E.a, Franco Barradas Munnik Monteiro Peres Wang Martins Fortunato N. a N. P. "Structural and optical properties of nitrogen doped ZnO films." Vacuum. 83 (2009): 1274-1278. AbstractWebsite

Zinc oxide is getting an enormous attention due to its potential applications in a variety of fields such as optoelectronics, spintronics and sensors. The renewed interest in this wide band gap oxide semiconductor relies on its direct high energy gap (Eg ∼ 3.437 eV at low temperatures) and large exciton binding energy. However to reach the stage of device production the difficulty to produce in a reproducible way p-type doping must be overcome. In this study we discuss the structural and optical properties of ZnO films doped with nitrogen, a potential p-type dopant. The films were deposited by magnetron sputtering using different conditions and substrates. The composition and structural properties of the films were studied combining X-ray diffraction (XRD), Rutherford backscattering (RBS), and heavy ion elastic recoil detection analysis (HI-ERDA). The results show an improvement of the quality of the films deposited on sapphire with increasing radio-frequency (RF) power with a preferentially growth along the c-axis. The ERDA analysis reveals the presence of H in the films and a homogeneous composition over the entire thickness. The photoluminescence of annealed samples evidences an improvement on the optical quality as identified by the well structured near band edge recombination. © 2009 Elsevier Ltd. All rights reserved.

Agostinho, M., V. Rosa, T. Aviles, R. Welter, and P. Braunstein. "Synthesis and characterization of Co and Ni complexes stabilized by keto- and acetamide-derived P,O-type phosphine ligands." Dalton T (2009): 814-822. AbstractWebsite

The coordination properties of the beta-keto phosphine ligands R(2)PCH(2)C(O)Ph (HL(1), R = i-Pr; HL(2), R = Ph), of the new acetamide-derived phosphine ligand (i-Pr)(2)PNHC(O) Me (HL(3)) and of Ph(2)PNHC(O) Me (HL(4)) have been examined towards Ni(II) complexes. Comparisons are made between systems in which the PCH(2) function of the ketophosphine has been replaced with an isoelectronic PNH group in amide-derived ligands, or the PCH functionality of phosphinoenolates with a PN group in phosphinoiminolate complexes. Furthermore, ligands HL(2) and HL(4) reacted with [(eta(5)-C(5)H(5))CoI(2)(CO)] to afford the phosphine mono-adducts [(eta(5)-C(5)H(5))CoI(2){Ph(2)PCH(2)C(O)Ph}] (1) and [(eta(5)-C(5)H(5))CoI(2){Ph(2)PNHC(O)Me}] (3), respectively, which upon reaction with excess NEt(3) yielded the phosphinoenolate complex [(eta(5)-C(5)H(5))CoI{Ph(2)PCH (center dot center dot center dot) under barC((center dot center dot center dot) under barO)Ph}] (2) and the phosphinoiminolate complex [(eta(5)-C(5)H(5))CoI{Ph(2)PN (center dot center dot center dot) under barC((center dot center dot center dot) under barO)Me}] (4), respectively. The complexes cis-[Ni{(i-Pr)(2)PN (center dot center dot center dot) under barC((center dot center dot center dot) under barO)Me}(2)] (6) and cis-[Ni{Ph(2)PN (center dot center dot center dot) under barC((center dot center dot center dot) under barO)Me}(2)] (7) were obtained similarly from NiCl(2) and HL(3) and HL(4), respectively, in the presence of a base. The phosphinoenolate complex [Ni{(i-Pr)(2)PCH (center dot center dot center dot) under barC((center dot center dot center dot) under barO) Ph}(2)] (5) exists in ethanol as a mixture of the cis and trans isomers, in contrast to cis-[Ni{(Ph(2)PCH (center dot center dot center dot) under barC((center dot center dot center dot) under barO)Ph}(2)], and the solid-state structure of the trans isomer of 5 was established by X-ray diffraction. The structures of the ligand HL3 and of the complexes 1, 3 in 3 center dot 3/2CH(2)Cl(2), 4, 6 and 7 have also been determined by X-ray diffraction and are compared with those of related complexes. Complexes 4, 6 and 7 contain a five-membered heteroatomic metallocyclic moiety, which is constituted by five different chemical elements. The structural consequences of the steric bulk of the P substituents and of the electronic characteristics of the P, O chelates are discussed.

Pais, Tiago C., and Paula Amaral. "A Tabu Search Based Approach For Exams Timetabling Problem." Livro de actas do 14º Congresso da Associação Portuguesa de Investigação Operacional, IO 2009, 7-9 September 2009. 2009. 155-162. Abstract
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Sergeant, K., C. Pinheiro, JF Hausman, and al.et. "Taking Advantage of Nonspecific Trypsin Cleavages for the Identification of Seed Storage Proteins in Cereals." JOURNAL OF PROTEOME RESEARCH. 8 (2009): 3182-3190. Abstract
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Sergeant, K., C. Pinheiro, JF Hausman, and al.et. "Taking Advantage of Nonspecific Trypsin Cleavages for the Identification of Seed Storage Proteins in Cereals." JOURNAL OF PROTEOME RESEARCH. 8 (2009): 3182-3190. Abstract
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Phillips, AJL, and A. Alves. "Taxonomy, phylogeny, and epitypification of Melanops tulasnei, the type species of Melanops." Fungal Diversity. 38 (2009): 155-166. Abstract
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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).

Silva, V., J. R. Fernandes, L. B. Oliveira, H. C. Neto, R. ferreira, S. Freitas, and P. P. Freitas. "Thermal Assisted Switching Magnetic Tunnel Junctions as FPGA Memory Elements." Mixed Design of Integrated Circuits & Systems, 2009. MIXDES'09. MIXDES-16th International Conference. IEEE, 2009. 332-336. Abstract
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Barquinha, P., Pereira Goņalves Martins Fortunato L. G. R. "Toward high-performance amorphous GIZO TFTs." Journal of the Electrochemical Society. 156 (2009): H161-H168. AbstractWebsite

This work analyzes the role of processing parameters on the electrical performance of GIZO (Ga2 O3: In2 O3:ZnO) films and thin-film transistors (TFTs). Parameters such as oxygen partial pressure, deposition pressure, target composition, thickness, and annealing temperature are studied. Generally, better devices are obtained when low oxygen partial pressure is used. This is related to the damage induced by oxygen ion bombardment and very high film's resistivity when higher oxygen partial pressures are used. Low deposition pressures and targets with richer indium compositions led to films with high carrier concentration, resulting in transistors with field-effect mobility as high as ∼80 cm2 Vs but poor channel conductivity modulation, becoming ineffective as switching devices. Nevertheless, it is demonstrated that reducing the GIZO thickness from 40 to 10 nm greatly enhances the switching behavior of those devices, due to the lower absolute number of free carriers and hence to their easier depletion. Annealing also proves to be crucial to control device performance, significantly modifying GIZO electrical resistivity and promoting local atomic rearrangement, being the optimal temperature determined by the as-produced films' properties. For the best-performing transistors, even with a low annealing temperature (150°C), remarkable properties such as μFE =73.9 cm2 Vs, onoff ratio≈7× 107, VT ≈0.2 V, and S=0.29 Vdec are achieved. © 2008 The Electrochemical Society.

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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Louren{\c c}o, João, Ricardo Dias, João Lu\'ıs, Miguel Rebelo, and Vasco Pessanha. "Understanding the behavior of transactional memory applications." Proceedings of the 7th Workshop on Parallel and Distributed Systems: Testing, Analysis, and Debugging. PADTAD ’09. New York, NY, USA: ACM, 2009. 3:1-3:9. Abstract
Transactional memory is a new trend in concurrency control that was boosted by the advent of multi-core processors and the near to come many-core processors. It promises the performance of finer grain with the simplicity of coarse grain threading. However, there is a clear absence of software development tools oriented to the transactional memory programming model, which is confirmed by the very small number of related scientific works published until now. This paper describes ongoing work. We propose a very low overhead monitoring framework, developed specifically for monitoring TM computations, that collects the transactional events into a single log file, sorted in a global order. This framework is then used by a visualization tool to display different types of charts from two categories: statistical charts and thread-time space diagrams. These last diagrams are interactive, allowing to identify conflicting transactions. We use the visualization tool to analyse the behavior of two different, but similar, testing applications, illustrating how it can be used to better understand the behavior of these transactional memory applications.
Dias, Ricardo, and João Louren{\c c}o. "Unifying Memory and Database Transactions." Proceedings of the 15th International Euro-Par Conference on Parallel Processing. Euro-Par ’09. Berlin, Heidelberg: Springer-Verlag, 2009. 349-360. Abstract
Software Transactional Memory is a concurrency control technique gaining increasing popularity, as it provides high-level concurrency control constructs and eases the development of highly multi-threaded applications. But this easiness comes at the expense of restricting the operations that can be executed within a memory transaction, and operations such as terminal and file I/O are either not allowed or incur in serious performance penalties. Database I/O is another example of operations that usually are not allowed within a memory transaction. This paper proposes to combine memory and database transactions in a single unified model, benefiting from the ACID properties of the database transactions and from the speed of main memory data processing. The new unified model covers, without differentiating, both memory and database operations. Thus, the users are allowed to freely intertwine memory and database accesses within the same transaction, knowing that the memory and database contents will always remain consistent and that the transaction will atomically abort or commit the operations in both memory and database. This approach allows to increase the granularity of the in-memory atomic actions and hence, simplifies the reasoning about them.
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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Xavier, J., S. Avril, F. Pierron, and J. Morais. "Variation of transverse and shear stiffness properties of wood in a tree." Composites Part A: Applied Science and Manufacturing. 40 (2009): 1953-1960. Abstract
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Filanovsky, I. M., L. B. Oliveira, and J. R. Fernandes. "Wide tuning range quadrature VCO using coupled multivibrators." Mixed Design of Integrated Circuits & Systems, 2009. MIXDES'09. MIXDES-16th International Conference. IEEE, 2009. 341-344. Abstract
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Martins, R., Luisa Pereira, P. Barquinha, I. Ferreira, R. Prabakaran, G. GONCALVES, A. Goncalves, and E. Fortunato Zinc oxide and related compounds: order within the disorder. SPIE OPTO: Integrated Optoelectronic Devices. International Society for Optics and Photonics, 2009. Abstract
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Martins, R., L. Pereira, P. Barquinha, I. Ferreira, R. Prabakaran, G. GONCALVES, A. Goncalves, and E. Fortunato. "Zinc oxide and related compounds: order within the disorder." Zinc Oxide Materials and Devices Iv. Eds. F. H. Teherani, C. W. Litton, and D. J. Rogers. Vol. 7217. Proceedings of SPIE, 7217. 2009. Abstract
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Martins, R., Pereira Barquinha Ferreira Prabakaran Gonçalves Gonçalves Fortunato L. P. I. "Zinc oxide and related compounds: Order within the disorder." Proceedings of SPIE - The International Society for Optical Engineering. Vol. 7217. 2009. Abstract

This paper discusses the effect of order and disorder on the electrical and optical performance of ionic oxide semiconductors based on zinc oxide. These materials are used as active thin films in electronic devices such as pn heterojunction solar cells and thin-film transistors. Considering the expected conduction mechanism in ordered and disordered semiconductors the role of the spherical symmetry of the s electron conduction bands will be analyzed and compared to covalent semiconductors. The obtained results show p-type c-Si/a-IZO/poly-ZGO solar cells exhibiting efficiencies above 14% in device areas of about 2.34 cm2. Amorphous oxide TFTs based on the Ga-Zn-Sn-0 system demonstrate superior performance than the polycrystalline TFTs based on ZnO, translated by ION/IOFF ratio exceeding 107, turn-on voltage below 1-2 V and saturation mobility above 25 cm2/Vs. Apart from that, preliminary data on p-type oxide TFT based on the Zn-Cu-O system will also be presented. © 2009 SPIE.

Neshataeva, Ekaterina, Tilmar Kuemmell, André Ebbers, Gerd Bacher, David J. Rogers, VE Sandana, Hosseini F. Teherani, M. Razeghi, HJ Drouhin, and R. Martins. "Zinc Oxide Materials and Devices IV (Proceedings Volume)." (2009). Abstract
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Fortunato, E., A. Gonçalves, A. Pimentel, P. Barquinha, G. Gonçalves, L. Pereira, I. Ferreira, and R. Martins. "Zinc oxide, a multifunctional material: from material to device applications." Applied Physics A. 96.1 (2009): 197-205. Abstract
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Fortunato, E., Gonçalves Pimentel Barquinha Gonçalves Pereira Ferreira Martins A. A. P. "Zinc oxide, a multifunctional material: From material to device applications." Applied Physics A: Materials Science and Processing. 96 (2009): 197-205. AbstractWebsite

In this paper we report on some of the recent advances in transparent thin film oxide semiconductors, specifically zinc oxide produced by radio frequency magnetron sputtering at room temperature, with multifunctional properties. By controlling the deposition parameters it is possible to produce undoped material with electronic semiconductor properties, or by doping it to get either n-type or p-type semiconductor behavior. In this work we refer to our experience in producing n-type doped zinc oxide as transparent electrode to be used in optoelectronic applications such as solar cells and position sensitive detectors, while the undoped zinc oxide can be used as active layer of fully transparent thin film transistors. © 2009 Springer-Verlag.

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.