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2012
Machado, D, dos Couto {IMSL}, Perdigão J, Rodrigues L, Portugal I, Baptista P, Veigas B, Amaral L, Bettencourt {MV}.  2012.  Contribution of Efflux to the Emergence of Isoniazid and Multidrug Resistance in Mycobacterium tuberculosis., apr. PLoS ONE. 7, Number 4: PLOS - Public Library of Science Abstract
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Amado, M, Lopes T.  2012.  Pré-Fabricação Aplicada ao Contexto de Reabilitação de EdifíciosS, 26 April. CCRSEEL. , Lisbon: Faculdade de Ciências e Tecnologia Abstractprefabricacao_aplicada_ao_contexto_da_reabilitacao.pdf

O sector da construção enfrenta actualmente um momento de crise na sua produção. Esta situação tem levado as empresas nacionais a apostar mais no mercado da reabilitação de edifícios. A acrescentar a esta mudança de mercado alvo, o ambiente conturbado que envolve as empresas de construção tem também estimulado, pelo menos as mais competitivas, a implementarem acções que conduzam à melhoria contínua da sua produtividade.
A industrialização do sector, através da utilização da pré-fabricação, mostra-se como uma possível solução para atingir esta melhoria desejada, considerando as significativas vantagens que a aplicação deste tipo de soluções introduz numa obra.
Existem contudo, ainda algumas barreiras no sector da construção que levam a uma reduzida utilização de
soluções de pré-fabricação, sendo a falta de conhecimento dos intervenientes das variedades de tecnologias existentes no mercado e em desenvolvimento, o principal obstáculo à sua adopção.
O presente artigo pretende, tornar evidentes as vantagens que esta tecnologia construtiva traz para o processo de construção e reabilitação, tanto ao nível de eficiência económica como ao nível dos seus benefícios ambientais e sociais, bem como, evidenciar as possibilidades de aplicação de sistemas de pré-fabricação existentes e em desenvolvimento, em detrimento das tecnologias construtivas convencionais, para diversas acções de
reabilitação habitualmente realizadas num edifício.

Amado, M, Poggi F.  2012.  Sustentabilidade em edíficios de habitação: um novo sistema de habitação, 26 April. CCRSEEL. , Lisbon: Gabinete de Planeamento Físico e Gestão Ambiental da Faculdade de Ciências e Tecnologia da UNL
Gomes, JF, Albuquerque PC, Miranda RM, Santos TG, Vieira MT.  2012.  Comparison of deposited surface area of airborne ultrafine particles generated from two welding processes, 2012. Inhalation Toxicology. 24(11):774-781. AbstractWebsite
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Amado, M, Montalvão D, Santana P, Lopes T.  2012.  Sustainability assessment – An applied sustainability method energy supply in informal settlements, 1 June. IAIA 2012. , Porto: International Association of Impact Asssessment
Neves, Nuno, Barros, R., Antunes, Elsa, Calado, João, Fortunato, Martins, Ferreira I.  2012.  Aluminum doped zinc oxide sputtering targets obtained from nanostructured powders: Processing and application. Journal of the European Ceramic Society. 32(16):4381-4391.
Ataíde, F, Azevedo C, Clemente JJ, Cunha AE, Freitas F, Reis MAM, Roque ACA, Oliveira R.  2012.  Analysis of oxygen transport enhancement by functionalized magnetic nanoparticles (FMP) in bioprocesses. New Biotechnology. 29S:S75.Website
Latino, DARS, Aires-de-Sousa J.  2012.  Automatic Perception of Chemical Similarities Between Metabolic Pathways. Molecular Informatics. (31):135-144.Website
Barroso, T, Roque ACA, Aguiar-Ricardo A.  2012.  Bioinspired and Sustainable Chitosan Based Monoliths for Antibody Capture and Release. RSC ADV. 2(30):11285-11294. AbstractWebsite

Chitosan-based monoliths activated by plasma technology induced the coupling of a robust biomimetic ligand, previously reported as an artificial Protein A, with high yields while minimizing the environmental impact of the procedure. Due to the high porosity, good mechanical and tunable physicochemical properties of the affinity chitosan-based monoliths, it is possible to achieve high binding capacities (150 ± 10 mg antibody per gram support), and to recover 90 ± 5% of the bound protein with 98% purity directly from cell-culture extracts. Therefore, the chitosan-based monoliths prepared by clean processes exhibit a remarkable performance for the one-step capture and recovery of pure antibodies or other biological molecules with biopharmaceutical relevance.

Ramos, S, Moura JJG, Aureliano M.  2012.  A Comparison between Vanadyl, Vanadate, and Decavanadate Effects in Actin Structure and Function: Combination of Several Spectroscopic Studies. Spectroscopy: An International Journal. 27:355-359.
Grosso, AR, {De Almeida} SF, Braga J, Carmo-fonseca M, de Almeida SF, Braga J, Almeida FD, Carmo-fonseca M, Res G, Almeida FD, Grosso AR, Carmo-fonseca M.  2012.  Dynamic transitions in RNA polymerase II density profiles during transcription termination. Genome research. 22:1447–1456., Number 8 AbstractWebsite

Eukaryotic protein-coding genes are transcribed by RNA polymerase II (RNAPII) through a cycle composed of three main phases: initiation, elongation, and termination. Recent studies using chromatin immunoprecipitation coupled to high-throughput sequencing suggest that the density of RNAPII molecules is higher at the 3'-end relative to the gene body. Here we show that this view is biased due to averaging density profiles for "metagene" analysis. Indeed, the majority of genes exhibit little, if any, detectable accumulation of polymerases during transcription termination. Compared with genes with no enrichment, genes that accumulate RNAPII at the 3'-end are shorter, more frequently contain the canonical polyadenylation [poly(A)] signal AATAAA and G-rich motifs in the downstream sequence element, and have higher levels of expression. In 1% to 4% of actively transcribing genes, the RNAPII enriched at the 3'-end is phosphorylated on Ser5, and we provide evidence suggesting that these genes have their promoter and terminator regions juxtaposed. We also found a striking correlation between RNAPII accumulation and nucleosome organization, suggesting that the presence of nucleosomes after the poly(A) site induces pausing of polymerases, leading to their accumulation. Yet we further observe that nucleosome occupancy at the 3'-end of genes is dynamic and correlates with RNAPII density. Taken together, our results provide novel insight to transcription termination, a fundamental process that remains one of the least understood stages of the transcription cycle.

Elamurugu, E, Shanmugam P, Goncalves G, Franco N, Alves E, Martins R, Fortunato E.  2012.  The electronic transport mechanism in indium molybdenum oxide thin films RF sputtered at room temperature. Epl. 97(36002)
Pimenta, AFR, Baptista AC, Carvalho T, Brogueira P, Lourenço N, Afonso C, Barreiros S, Vidinha P, Borges JP.  2012.  Electrospinning of Ion Jelly fibers. Materials Letters. 83:161-164. AbstractWebsite

Ion Jelly materials combine the chemical versatility and conductivity of an ionic liquid (IL) with the morphological versatility of a biopolymer (gelatin). They exhibit very interesting properties, such as conductivities up to 10− 4 S cm− 1, and high thermostability up to 180 °C, and have been used successfully to design electrochromic windows. In this work we report on the preparation of Ion Jelly fibers through electrospinning in order to obtain high surface area conductive materials. We have used the IL 1-(2-hydroxyethyl)-3-methyl-imidazolium tetrafluoroborate ([C2OHmim]BF4), which exhibits conveniently high ionic conductivity (over 10− 3 S cm− 1) and electrochemical stability (electrochemical window over 6.0 V). The morphology of the obtained fibers was quantified using Scanning Electron Microscopy (SEM) and Atomic Force Microscopy (AFM). We found that on average the effect of the IL on fiber diameter differs for lower and higher IL concentrations and that this effect was correlated with the initial conductivity and viscosity of Ion Jelly electrospinning solution. Moreover we also found that conductivities of Ion Jelly fibers are of the same order of magnitude as the conductivities of Ion Jelly dense films (~ 10− 4 S cm− 1). To the best of our knowledge, this is the first report on the incorporation of an IL into gelatin fibers using electrospinning. This opens up new opportunities for the application of gelatin fibers in electrochemical and biomedical devices.

Miller, A. Z., Hernández-Mariné, M., Jurado, V., Dionísio, A., Barquinha, Fortunato, Afonso, M. J., Chaminé, H. I., Saiz-Jimenez C.  2012.  Enigmatic reticulated filaments in subsurface granite. Environmental Microbiology Reports. 4(6):596–603.
Borlido, L, Azevedo AM, Sousa AG, Oliveira PH, Roque ACA, Aires-Barros MR.  2012.  Fishing human monoclonal antibodies from a CHO cell supernatant with boronic acid magnetic particles. Journal of Chromatography B. 903:163-170. AbstractWebsite

In this work we have evaluated the potential of boronic acid functionalized magnetic particles for the one-step capture of a human monoclonal antibody (mAb) from a Chinese hamster ovary (CHO) cell culture supernatant. For comparison, Protein A coated magnetic particles were also used. The most important factor influencing the overall process yield and product purity in boronic acid particles was found to be the binding pH. Basic pH values promoted higher purities while resulting in decreased yields due to the competing effects of molecules such as glucose and lactate present in the cell culture supernatant. After optimization, the particles were successfully used in a multi-cycle purification process of the mAb from the CHO feedstock. Boronic acid particles were able to achieve an average overall yield of 86% with 88% removal of CHO host cell proteins (HCP) when the binding was performed at pH 7.4, while at pH 8.5 these values were 58% and 97%, respectively. In both cases, genomic DNA removal was in excess of 97%. Comparatively, Protein A particles recorded an average overall yield of 80% and an HCP removal greater than 99%. The adsorption of the mAb to the boronic acid particles was shown to be mediated by strong affinity interactions. Overall, boronic acid based purification processes can offer a cost-effective alternative to Protein A as the direct capturing step from the mammalian cell culture.

Sandu, ICA, Roque ACA, Matteini P, Schäfer S, Agati G, Correia CR, Viana JFFP.  2012.  Fluorescence recognition of proteinaceous binders in works of art by a novel integrated system of investigation. Microscopy Research and Technique. 75(3):316-24. AbstractWebsite

Fluorescence microscopy and microspectrofluorometry are important tools in the characterization and identification of proteins, offering a great range of applications in conservation science. Because of their high selectivity and sensitivity, the combination of these techniques can be exploited for improved recognition and quantification of proteinaceous binders in paintings and polychromed works of art. The present article explores an analytical protocol integrating fluorescence microscopy and fluorometry for both identification and mapping of proteinaceous binders (in particular egg and glues) in paint samples. The study has been carried out on historically accurate reconstructions simulating the structure and composition of tempera and oil paints containing these binders. To assess the spatial distribution of specific proteins within the paint layers, cross-sections from the reconstructions were analyzed by fluorescence imaging after staining with an exogenous fluorophore. Reference fluorescence spectra for each layer were acquired by a multichannel spectral analyzer and compared after Gaussian deconvolution. The results obtained demonstrated the effectiveness of the integrated protocol, highlighting the potential for the use of fluorescent staining coupled with microspectrofluorometry as a routine diagnostic tool in conservation science. The current work creates a set of fully characterized reference samples for further comparison with those from actual works of art.

Azzazy, HME, Mansour MMH, Samir TM, Franco R.  2012.  Gold nanoparticles in the clinical laboratory: principles of preparation and applications. Clinical Chemistry and Laboratory Medicine. 50(2):192-209.
Guirgis, BSS, e Cunha CSá, Gomes I, Cavadas M, Silva I, Doria G, Blatch GL, Baptista PV, Pereira E, Azzazy HME, Mota MM, Prudêncio M, Franco R.  2012.  GOLD NANOPARTICLES-BASED FLUORESCENCE IMMUNOASSAY FOR MALARIA ANTIGEN DETECTION. Anal. Bioanal. Chem.. 402:1019-1027.
Filonovich, Sergej Alexandrovich, Águas, Hugo, Busani, Tito, Vicente, António, Araújo, Andreia, Gaspar, Diana, Vilarigues, Marcia, Leitão, Joaquim, Fortunato, Martins R.  2012.  Hydrogen plasma treatment of very thin p-type nanocrystalline Si films grown by RF-PECVD in the presence of B(CH3)(3). Science and Technology of Advanced Materials. 13(4)
Gokulakrishnan, V., Parthiban, S., Elangovan, E., Jeganathan, K., Kanjilal, D., Asokan, K., Martins, Fortunato, Ramamurthi K.  2012.  Investigation of O7+ swift heavy ion irradiation on molybdenum doped indium oxide thin films. Radiation Physics and Chemistry. 81(6):589-593.
Araújo, T, Nunes N, Quintão C, Gamboa H.  2012.  Localized electroencephalography sensor and detection of evoked potentials. Proc INSTICC 2nd International Workshop on Computing Paradigms for Mental Health - MindCare 2012 (MINDCARE 2012). , Vilamoura, Portugal
Araújo, T, Nunes N, Gamboa H.  2012.  Miniaturized wireless controlled electroestimulator. Proceedings of Biodevices - 5th International Conference on Bio-Inspired and Signal Processing (BIODEVICES 2012). , Vilamoura, Portugal
Muller, C, Marcou G, Horvath D, Aires-de-Sousa J, Varnek A.  2012.  Models for Identification of Erroneous Atom-to-Atom Mapping of Reactions Performed by Automated Algorithms. J. Chem. Inf. Model. 52(12):3116-3122.Website
Mathies, G, Almeida RM, Gast P, Moura JJ, Groenen EJ.  2012.  Multifrequency EPR Study of Fe(3+) and Co(2+) in the Active Site of Desulforedoxin. J Phys Chem B. 116(24):7122-7128.
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