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2009
Gião, Rita, Valter Lúcio, Carlos Chastre, and Jorge Proença. "New Methodology For Reinforced Concrete Beam-Column Cyclic Test." International FIB Conference "Concrete - 21st Century Superhero. London: fib, 2009. Abstract

The aim of the present communication is to present an analysis of the gravity load influence on the hysteretic behaviour of a beam-column connection. For this purpose, in the experimental campaign a new procedure for RC cyclic tests is presented in order to reproduce closer demands on the beam critical zone than the traditional procedures. The Experimental campaign included cyclic tests of the specimens according with the ECCS recommendation and an innovate procedure. The test results are presented, compared and analysed. A numerical simulation of the tests is presented where the model for the hysteretic response of the beam was calibrated with the experimental results. Finally, the behaviour of a portal frame system under cyclic displacements up to a drift of 3.5% was analysed, assuming that the non-linearity is concentrated on the plastic hinges, considering different levels of gravity load. Thus it is intended to assess the influence of the gravity load on the behaviour of a structure subjected to cyclic loads.

Lourenço, João M., Nuno Preguiça, Ricardo J. Dias, João Nuno Silva, João Garcia, and Luís Veiga NGenVM: New Generation Execution Environments. EuroSys. Nuremberg, Germany, 2009. Abstractngenvm-poster.pdf

This document describes a work-in-progress development of NGen-VM, a distributed infrastructure that manages execution environments with run-time and programming language support targeting applications developed in the Java programming language, deployed over clusters of many-core computers. For each running application or suite of related applications, a dedicated single-system image will be provided, regardless of the concurrent threads running on a single machine (on several cores) or scattered on different computers. Such system images rely on a single model for concurrency management (Transactional Shared Memory Model), in order fill the gap between the hardware infrastructure of clusters of many-core nodes and the application runtime that is independent from that hardware infrastructure. Interactions between threads in the same tasks will be supported by a Transactional Memory framework that provides the programming language with Atomic and Isolated code regions. Interactions between thread on different machines will also use the Transactional Memory model, but now resorting to a Distributed Shared Memory abstraction.

Santos Oliveira, J. F., B. Mendes, and N. Lapa Resíduos: Gestão, Tratamento e sua Problemática em Portugal. Lisboa: Lidel, 2009.Website
Faria, D. M. V., V. J. G. Lúcio, and A. M. P. Ramos Strengthening of reinforced concrete flat slabs using post-tensioning with anchorages by bonding. Eds. Fib. Fib symposium–concrete: 21st century superhero, London. London, 2009. Abstract

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Paradela, F., F. Pinto, I. Gulyurtlu, I. Cabrita, and N. Lapa. "Study of the co-pyrolysis of biomass and plastic wastes." Clean Technologies and Environmental Policy. 11.1 (2009): 115-122. AbstractWebsite

This work aimed to study the recovery of two types of waste by the process of pyrolysis. The obtained results show that the adding of a plastic mix improves the overall efficiency of the slow pyrolysis of pine. Therefore, it was possible to achieve higher liquid yields and less solid product than in the classic slow pyrolysis carbonization of biomass. The obtained liquids showed heating values similar to that of heating fuel oil. The gas products had energetic contents superior to that of producer gas, and the obtained solid fractions showed heating values higher than some coals. There were also identified some typical products of fast biomass pyrolysis used as raw material in several industries. The effects of experimental conditions in product yield and composition were also studied. The parameters that showed higher influence were (with its increase): reaction time on gas product composition (increase of the alkane content) and on liquid composition (increase in aromatics content); reaction temperature on product yield (decrease of liquid yield with increase of solids and gases) and on gas product composition (increase in alkane content); initial pressure on liquid composition (increase in the aromatics content) and mainly the pine content of the initial mixture on products yield (increase of gas and solid yield with a decrease in liquids) and on the gas product composition (favouring CO and CO2 formation).

Lourenço, João M., Ricardo J. Dias, João Luís, 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). {PADTAD}'09. New York, NY, USA: ACM, 2009. 31-39. Abstractpadtad2009.pdf

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 J., and João M. Lourenço. "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. Abstracteuropar2009-umadt.pdf

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.

Silva, Tiago A. N., C. R. Leal, A. Rodrigues, M. F. Bento, and João M. C. Travassos Anisotropic Solutions Applied to a Smart Damper. IV ECCOMAS Thematic Conference on Smart Structures and Materials (SMART'09)., 2009. Abstract
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Costa, P. M., S. Caeiro, M. S. Diniz, J. Lobo, M. Martins, A. M. Ferreira, M. Caetano, C. Vale, T. Á. DelValls, and M. H. Costa. "Biochemical endpoints on juvenile Solea senegalensis exposed to estuarine sediments: The effect of contaminant mixtures on metallothionein and CYP1A induction." Ecotoxicology. 18 (2009): 988-1000. AbstractWebsite
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Carreira, R. J., C. Lodeiro, M. S. Diniz, I. Moura, and J. L. Capelo. "Can ultrasonic energy efficiently speed 18O-labeling of proteins?" Proteomics. 9 (2009): 4974-4977. AbstractWebsite
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Liu, Yan, Angelina S. Palma, and Ten Feizi. "Carbohydrate microarrays: key developments in glycobiology." Biological Chemistry. 390 (2009): 647-656. Abstract
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Meil, Pamela, Maria Stratigaki, Petros Linardos, Per Tengblad, Peter Docherty, Duco Bannink, Antonio Moniz, Margarida Paulos, Bettina Krings, and Linda Nierling Challenges for Europe under value chain restructuring: Contributions to policy debates., 2009. Abstract

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Lopes, M. E., H. L. Gomes, M. C. R. Medeiros, P. Barquinha, L. Pereira, E. Fortunato, R. Martins, and I. Ferreira. "Gate-bias stress in amorphous oxide semiconductors thin-film transistors." Applied Physics Letters. 95.6 (2009): 063502-3. Abstract
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Lopes, M.E.a, Gomes Medeiros Barquinha Pereira Fortunato Martins Ferreira H. L. a M. "Gate-bias stress in amorphous oxide semiconductors thin-film transistors." Applied Physics Letters. 95 (2009). AbstractWebsite

A quantitative study of the dynamics of threshold-voltage shifts with time in gallium-indium zinc oxide amorphous thin-film transistors is presented using standard analysis based on the stretched exponential relaxation. For devices using thermal silicon oxide as gate dielectric, the relaxation time is 3× 105 s at room temperature with activation energy of 0.68 eV. These transistors approach the stability of the amorphous silicon transistors. The threshold voltage shift is faster after water vapor exposure suggesting that the origin of this instability is charge trapping at residual-water-related trap sites. © 2009 American Institute of Physics.

Costa, P. M., M. S. Diniz, S. Caeiro, J. Lobo, M. Martins, A. M. Ferreira, M. Caetano, C. Vale, T. A. DelValls, and M. H. Costa. "Histological biomarkers in liver and gills of juvenile Solea senegalensis exposed to contaminated estuarine sediments: A weighted indices approach." Aquatic Toxicology. 92 (2009): 202-212. AbstractWebsite
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Liu, Yan, Angelina S. Palma, Wengang Chai, Claudia Muhle-Goll, Yukishige Ito, and Ten Feizi. "The Latest on Malectin - A Lectin of the Endoplasmic Reticulum." Glycobiology. 19 (2009): 1301-1302. Abstract
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Rivas, M. G., M. S. P. Carepo, C. S. Mota, M. Korbas, M. C. Durand, A. T. Lopes, CD Brondino, AS Pereira, GN George, A. Dolla, JJG Moura, and I. Moura. "Molybdenum Induces the Expression of a Protein Containing a New Heterometallic Mo-Fe Cluster in Desulfovibrio alaskensis." Biochemistry. 48 (2009): 873-882. AbstractWebsite

The characterization of a novel Mo-Fe protein (MorP) associated with a system that responds to Mo in Desulfovibrio alaskensis is reported. Biochemical characterization shows that MorP is a periplasmic homomultimer of high molecular weight (260 +/- 13 kDa) consisting of 16-18 monomers of 15321.1 +/- 0.5 Da. The UV/visible absorption spectrum of the as-isolated protein shows absorption peaks around 280, 320, and 570 nm with extinction coefficients of 18700, 12800, and 5000 M(-1) cm(-1), respectively. Metal content, EXAFS data and DFT calculations support the presence of a Mo-2S-[2Fe-2S]-2S-Mo cluster never reported before. Analysis of the available genomes from Desulfovibrio species shows that the MorP encoding gene is located downstream of a sensor and a regulator gene. This type of gene arrangement, called two component system, is used by the cell to regulate diverse physiological processes in response to changes in environmemtal conditions. Increase of both gene expression and protein production was observed when cells were cultured in the presence of 45 mu M molybdenum. Involvement of this system in Mo tolerance of sulfate reducing bacteria is proposed.

Louren{\c c}o, João, Nuno Pregui{\c c}a, Ricardo Dias, João Nuno Silva, João Garcia, and Lu\'ıs Veiga NGenVM: New Generation Execution Environments. Nuremberg, Germany, 2009. Abstract
This document describes a work-in-progress development of NGen-VM, a distributed infrastructure that manages execution environments with run-time and programming language support targeting applications developed in the Java programming language, deployed over clusters of many-core computers. For each running application or suite of related applications, a dedicated single-system image will be provided, regardless of the concurrent threads running on a single machine (on several cores) or scattered on different computers. Such system images rely on a single model for concurrency management (Transactional Shared Memory Model), in order fill the gap between the hardware infrastructure of clusters of many-core nodes and the application runtime that is independent from that hardware infrastructure. Interactions between threads in the same tasks will be supported by a Transactional Memory framework that provides the programming language with Atomic and Isolated code regions. Interactions between thread on different machines will also use the Transactional Memory model, but now resorting to a Distributed Shared Memory abstraction.
Silva, M. M., C. M. Leitão, and L. B. Oliveira. "Noise Performance of Transimpedance Amplifiers for Radiation Detectors." Proc. Of XXIV conference on Design of Circuits and Integrated Systems (DCIS2009) (2009): 1-6. Abstract
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Medeiros Silva, M., C. Leitão, and L. B. Oliveira. "Noise Performance of Transimpedance Amplifiers for Radiation Detectors." (2009). Abstract
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Capelo, J. L., R. Carreira, M. Diniz, L. Fernandes, M. Galesio, C. Lodeiro, H. M. Santos, and G. Vale. "Overview on modern approaches to speed up protein identification workflows relying on enzymatic cleavage and mass spectrometry-based techniques." Analytica Chimica Acta. 650 (2009): 151-159. AbstractWebsite
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Fortunato, E., Nuno Correia, Pedro Barquinha, Claudia Costa, Luis Pereira, Goncalo Goncalves, and Rodrigo Martins. "Paper Field Effect Transistor." 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, 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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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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