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2013
Matos, Pedro, Rui Micaelo, and Cátia Duarte Bituminous mastic behaviour at mixing and paving temperatures: filler and bitumen influence analysis. 5th EATA Conference. Braunschweig, Germany, 2013.
Barbosa, Rui, Diogo Dias, Nuno Lapa, Helena Lopes, and Benilde Mendes. "Chemical and ecotoxicological properties of size fractionated biomass ashes." Fuel Processing Technology. 109 (2013): 124-132. AbstractWebsite

The main aim of this work was to study the chemical and ecotoxicological properties of ashes produced in a biomass boiler of a pulp and paper industry and evaluate possible differences depending on the particle size of bottom and fly ashes. This industry produces electricity by burning eucalyptus and pine bark in a bubbling fluidized bed combustor. Bottom and fly ashes and their size fractions, obtained by sieving, were analysed for a set of metals and leaching behaviour. The eluates were also submitted to ecotoxicological characterization, using five indicators. The highest concentrations of metals and metalloids were found in the lower particle size fractions of bottom and fly ashes. However, generally, it could not be observed any specific releasing pattern of metals depending on the particle size, except for fly ashes in which the releasing rate of some earth and alkali-earth metals seemed to increase for lower particle size fractions. No specific pattern of the ecotoxicity levels could be associated to the different particle size fractions of ashes. The fractions of bottom ashes with 4,000–10,000 μm and > 10,000 μm have presented the lowest ecotoxicity levels. All the samples were classified as ecotoxic, except the fraction of bottom ashes > 10,000 μm.

Rybarczyk, Y., Vernay D., Rybarczyk P., Lebret M.C., Duhaut D., Lemasson G., Pesty S., and Lucidarme P. "COCHISE project: an augmented service dog for disabled people." 12th conference of the Association for the Advancement of Assistive Technology in Europe. Vilamoura, Portugal 2013. copy.pdf
Matos, P., R. Micaelo, and C. Duarte Comportamento do mastique betuminoso a temperaturas elevadas: influência do fíler e do betume. 7º Congresso Rodoviário Português. Lisboa, 2013.
Duarte Faria, Válter Lúcio, and António Ramos. "Development of a Design Proposal for a Slab Strengthening System using Prestress with Anchorages by Bonding." fib symposium Tel Aviv 2013. Tel Aviv: IACIE, 2013. 281-284. Abstract

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Rybarczyk, Y., and Mestre D. "Effect of visuo-manual configuration on a telerobot integration into the body schema." Le Travail Humain . 76.3 (2013): 181-204.copy.pdf
Dias, Ricardo J., Tiago M. Vale, and João M. Lourenço. "Efficient support for in-place metadata in Java software transactional memory." Concurrency and Computation: Practice and Experience. 25 (2013): 2394-2411. Abstractccpe2013-dias.pdfWebsite

Software transactional memory (STM) algorithms associate metadata with the memory locations accessed during a transaction's lifetime. This metadata may be stored in an external table by resorting to a mapping function that associates the address of a memory cell with the table entry containing the corresponding metadata (out-place or external strategy). Alternatively, the metadata may be stored adjacent to the associated memory cell by wrapping the cell and metadata together (in-place strategy). The implementation techniques to support these two approaches are very different and each STM framework is usually biased towards one of them, only allowing the efficient implementation of STM algorithms which suit one of the approaches and inhibiting a fair comparison with STM algorithms suiting the other. In this paper, we introduce a technique to implement in-place metadata that does not wrap memory cells, thus overcoming the bias and allowing STM algorithms to directly access the transactional metadata. The proposed technique is available as an extension to Deuce and enables the efficient implementation of a wide range of STM algorithms and their fair (unbiased) comparison in a common STM framework. We illustrate the benefits of our approach by analyzing its impact in two popular transactional memory algorithms with several transactional workloads, TL2 and multiversioning, each befitting out-place and in-place, respectively.

Diogo, T., J. Ma, and M. Rebelo. "Fully discretized collocation methods for a nonlinear singular Volterra integral equation." Journal of Computational and Applied Mathematics. 247.1 (2013): 84-101.
Marcelo, Filipa, Catarina Dias, Paulo J. Madeira, Tiago Jorge, Helena M. Florêncio, Javier F. Canada, Eurico J. Cabrita, Jésus Jiménez-Barbero, and Amelia P. Rauter. "Molecular Recognition of Rosmarinic Acid from Salvia sclareoides Extracts by Acetylcholinesterase: A New Binding Site Detected by NMR Spectroscopy." Chemistry: A European Journal. 19 (2013): 6641-6649. AbstractWebsite

Acetylcholinesterase (AChE) inhibition is one of the most currently available therapies for the management of Alzheimer’s disease (AD) symptoms. In this context, NMR spectroscopy binding studies were accomplished to explain the inhibition of AChE activity by Salvia sclareoides extracts. HPLC-MS analyses of the acetone, butanol and water extracts eluted with methanol and acidified water showed that rosmarinic acid is present in all the studied samples and is a major constituent of butanol and water extracts. Moreover, luteolin 4′-O-glucoside, luteolin 3′,7-di-O-glucoside and luteolin 7-O-(6′′-O-acetylglucoside) were identified by MS2 and MS3 data acquired during the LC-MSn runs. Quantification of rosmarinic acid by HPLC with diode-array detection (DAD) showed that the butanol extract is the richest one in this component (134 μg mg−1 extract). Saturation transfer difference (STD) NMR spectroscopy binding experiments of S. sclareoides crude extracts in the presence of AChE in buffer solution determined rosmarinic acid as the only explicit binder for AChE. Furthermore, the binding epitope and the AChE-bound conformation of rosmarinic acid were further elucidated by STD and transferred NOE effect (trNOESY) experiments. As a control, NMR spectroscopy binding experiments were also carried out with pure rosmarinic acid, thus confirming the specific interaction and inhibition of this compound against AChE. The binding site of AChE for rosmarinic acid was also investigated by STD-based competition binding experiments using Donepezil, a drug currently used to treat AD, as a reference. These competition experiments demonstrated that rosmarinic acid does not compete with Donepezil for the same binding site. A 3D model of the molecular complex has been proposed. Therefore, the combination of the NMR spectroscopy based data with molecular modelling has permitted us to detect a new binding site in AChE, which could be used for future drug development.

Vale, Tiago M., Ricardo J. Dias, and João M. Lourenço. "On the Relevance of Total-Order Broadcast Implementations in Replicated Software Transactional Memories." Multicore Software Engineering, Performance, and Tools. Eds. João M. Lourenço, and Eitan Farchi. Vol. 8063. Lecture Notes in Computer Science, 8063. Springer Berlin Heidelberg, 2013. 49-60. Abstractmusepat13-vale.pdf

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Salminen, J., J. Dinis, and O. Mateus Preliminary magnetostratigraphy for Jurassic/Cretaceous transition in Porto da Calada, Portugal. In: Veikkolainen, T., Suhonen, K., Näränen, J., Kauristie, K., and Kaasalainen, S. (eds.). XXVI Geofysiikan päivät,. May 21-22 2013 in Helsinki, 2013.salminen.johanna_gfp2013_portugal_preliminary_magnetostratigraphy_for_jurassic_cretaceous_transition_in.pdf
D. Algarvio, Maria Margarida Rolim Augusto Lima, Cunha M. L. "Quality Improvement of Recycled Aggregates from a Construction and Demolition Waste Recycling Pilot Plant." Advanced Materials Forum Vi. 730-732 (2013): 630-635 .
Delgado, Manuel, and Vítor H. Fernandes. "Rees quotients of numerical semigroups." Portugaliae Mathematica. 70.2 (2013): 93-112. AbstractWebsite

We introduce a class of finite semigroups obtained by considering Rees
quotients of numerical semigroups.
Several natural questions concerning this class, as well as particular
subclasses obtained by considering some special ideals, are answered while
others remain open. We exhibit nice presentations for these semigroups and
prove that the Rees quotients by ideals of N, the positive integers under
addition, constitute a set of generators for the pseudovariety of commutative
and nilpotent semigroups.

Viegas, Aldino, João Sardinha, Daniel F. Duarte, Ana Luisa Carvalho, Carlos M. G. A. Fontes, Maria Joao Romao, Anjos L. Macedo, and Eurico J. Cabrita. "Solution Structure, Dynamics and Binding Studies of a Family 11 Carbohydrate-Binding Module from Clostridium thermocellum (CtCBM11)." Biochemical Journal. 451 (2013): 289-300. AbstractWebsite

Non-catalytic cellulosomal carbohydrate-binding modules (CBMs) are responsible for increasing the catalytic efficiency of cellulosic enzymes by selectively putting the substrate (a wide range of poly- and oligosaccharides) and enzyme into close contact. In the present work we carried out an atomistic rationalization of the molecular determinants of ligand specificity of a family 11 CBM from thermophilic C. thermocellum (CtCBM11), based on a NMR and molecular modeling approach. We have determined the NMR solution structure of CtCBM11 at 25 and 50 ºC and derived information on the residues of the protein involved in ligand recognition and on the influence of the length of the saccharide chain on binding. We obtained models of the CtCBM11/cellohexaose and CtCBM11/cellotetraose complexes by docking in accordance with the NMR experimental data. Specific ligand/protein CH-π and Van der Waals interactions were found to be determinant for the stability of the complexes and for defining specificity. Using the order parameters derived from backbone dynamics analysis in the presence and absence of ligand and at 25 and 50 ºC, we determined that the protein’s backbone conformational entropy is slightly positive. This data in combination with the negative binding entropy calculated from ITC studies supports a selection mechanism where a rigid protein selects a defined oligosaccharide conformation.

Corvo, Marta C., João Sardinha, Sonia C. Menezes, Sandra Einloft, Marcus Seferin, Jairton Dupont, Teresa Casimiro, and Eurico J. Cabrita. "Solvation of CO2 in [C4mim][BF4] and [C4mim][PF6] ionic liquids revealed by High Pressure NMR." Angewandte Chemie International Edition. 49.52 (2013): 13024-13027.Website
Ferrão, Lúcio Emanuel Represas, Seco João Ricardo Viegas Da Costa, Caires Luis Manuel Marques Da Costa, Caleira Borrêga, Gonçalo Filipe Xavier, António Augusto Vieira Melo, and OutSystems-Software em Rede SA SYSTEMS, METHODS, AND APPARATUS FOR MODEL-BASED SECURITY CONTROL., 2013. Abstract

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Domingues, Miguel Brazão, and João Costa Seco Typeful Updates on Reactive Live Web Programming. Universidade Nova de Lisboa, 2013.techreport-2013.pdf
Mendes, P., Rybarczyk Y., Rybarczyk P., and Vernay D. "A web-based platform for the therapeutic education of patients with physical disabilities." 6th International Conference of Education, Research and Innovation. Seville, Spain 2013. poster.pdf
Maurício, R., C. J. Dias, N. Jubilado, and F. Santana. "Biofilm thickness measurement using an ultrasound method in a liquid phase." Environmental Monitoring and Assessment. 185 (2013): 8125-8133. AbstractWebsite
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Núñez, C., C. Silva López, O. N. Faza, J. Fernández-Lodeiro, M. Diniz, R. Bastida, J. L. Capelo, and C. Lodeiro. "Bis(o-methylserotonin)-containing iridium(III) and ruthenium(II) complexes as new cellular imaging dyes: Synthesis, applications, and photophysical and computational studies." Journal of Biological Inorganic Chemistry. 18 (2013): 679-692. AbstractWebsite
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Crusat, Martin, Junfeng Liu, Angelina S. Palma, Robert A. Childs, Yan Liu, Stephen A. Wharton, Yi Pu Lin, Peter J. Coombs, Stephen R. Martin, Mikhail Matrosovich, Zi Chen, David J. Stevens, Vo Minh Hien, Tran Tan Thanh, Le Nguyen Truc Nhu, Lam Anh Nguyet, Do Quang Ha, Rogier H. van Doorn, Tran Tinh Hien, Harald S. Conradt, Makoto Kiso, Steve J. Gamblin, Wengang Chai, John J. Skehel, Alan J. Hay, Jeremy Farrar, Menno D. de Jong, and Ten Feizi. "Changes in the hemagglutinin of H5N1 viruses during human infection - Influence on receptor binding." Virology. 447 (2013): 326-337. Abstract
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Vieira, E. M. F., S. Levichev, C. J. Dias, R. Igreja, M. Buljan, S. Bernstorff, O. Conde, A. Chahboun, A. G. Rolo, and M. J. M. Gomes. "Charge storage behavior of nanostructures based on SiGe nanocrystals embedded in Al2O3 matrix." European Physical Journal B. 86 (2013). AbstractWebsite
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Vieira, Eliana M. F., Sergey Levichev, Carlos J. Dias, Rui Igreja, Maja Buljan, Sigrid Bernstorff, Olinda Conde, Adil Chahboun, Anabela G. Rolo, and Maria J. M. Gomes. "Charge storage behavior of nanostructures based on SiGe nanocrystals embedded in Al2O3 matrix." European Physical Journal B. 86 (2013). Abstract
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Dias, G. F., M. F. S. F. de Moura, J. A. G. Chousal, and J. Xavier. "Cohesive laws of composite bonded joints under mode I loading." Composite Structures. 106 (2013): 646-652. Abstract
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Teixeira, T., M. Diniz, R. Calado, and R. Rosa. "Coral physiological adaptations to air exposure: Heat shock and oxidative stress responses in Veretillum cynomorium." Journal of Experimental Marine Biology and Ecology. 439 (2013): 35-41. AbstractWebsite
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