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2013
Martins, {RFDP}, Baptista {PMRV}, Fortunato {EMC}.  2013.  Sistema de dete{\c c}ão e quantifica{\c c}ão de matéria biológica constituído por um ou mais sensores óticos e uma ou mais fontes luminosas, processo associado e respectivas utiliza{\c c}ões, oct. Abstract

sistema de dete{\c c}ão e quantifica{\c c}ão de matéria biológica constituído por um ou mais sensores óticos e uma ou mais fontes luminosas, processo associado e aplica{\c c}ões relacionadas a inven{\c c}ão atual relaciona- se a um sistema e a um processo para a dete{\c c}ão e/ou a identifica{\c c}ão qualitativa e quantitativa do material biológico, tal como seqüências específicas de ácidos nucleicos ou de proteínas como anticorpos, presente em amostras biológicas. o sistema é composto por uma ou mais fontes luminosas ( 1) combinadas com um ou mais fotosensores óticos integrados, ou não, e vários componentes eletrônicos ( 4) , necessários para obter/processar o sinal emitido pelas nanosondas de metal funcionalizadas com uma solu{\c c}ão de compósi to biológico, assim como igualmente um microcontrolador e um microprocessador, reparados ou portátil. esta estrutura do fotosensor pode detectar e determinar as varia{\c c}ões da cor produzidas por nanosondas do metal, sendo este preferencialmente ouro, funcionalizado pelos oligonucleotídeos complementares às seqüências específicas, as proteínas de dna/rna, como por exemplo os anticorpos e/ou os antígenos relativos a determinada doen{\c c}a, ou a outra amostra ou solu{\c c}ão de composto biológico, que devem ser investigada. a dete{\c c}ão e o processo da quantifica{\c c}ão são baseados na resposta de um fotosensor, singular ou integrados, baseado na tecnologia da película fina de silicones amorfos, nanocristalinos ou microcristalino e suas ligas, assim como os semicondutores cerâmicos ativos novos, amorfos e não amorfos.

Conde, J, Rosa J, Baptista P.  2013.  Gold-Nanobeacons as a theranostic system for the detection and inhibition of specific genes, nov. Protocol Exchange. : Nature Publishing Group Abstract

This protocol describes the synthesis and detailed calibration of a gold nanoparticle-based nanobeacon (Au-nanobeacon) as an innovative theranostic approach for detection and inhibition of sequence-specific DNA and RNA for in vitro and ex vivo applications. Under hairpin configuration, proximity to gold nanoparticles leads to fluorescence quenching; hybridization to a complementary target restores fluorescence emission due to the gold nanobeacons’ conformational reorganization that causes the fluorophore and the AuNP to part from each other. This concept can easily be extended and adapted to assist the in vitro evaluation of silencing potential of a given sequence to be later used for ex vivo gene silencing and RNAi approaches, with the ability to monitor real-time gene delivery action. The time range for the entire protocol is  8 days, including synthesis, functionalization and calibration of Au-nanobeacons, RNAi and gene silencing assays.

Veigas, B, Pedrosa P, Couto I, Viveiros M, Baptista {PV}.  2013.  Isothermal DNA amplification coupled to Au-nanoprobes for detection of mutations associated to Rifampicin resistance in Mycobacterium tuberculosis, nov. Journal of Nanobiotechnology. 11, Number 1: BioMed Central (BMC) Abstract

Background: Tuberculosis accounted for 8.7 million new cases in 2011 and continues to be one of the leading human infectious diseases. Burdensome is the increasing rate of multi-drug resistant tuberculosis (MDRTB) and the difficulties created for treatment and public health control programs, especially in developing countries. Resistance to rifampicin (RIF), a first line antibiotic, is commonly associated with point mutations within the rpoB gene of Mycobacterium tuberculosis (Mtb) whose detection is considered the best early molecular predictor for MDRTB. Gold nanoparticles functionalized with thiol-modified oligonucleotides (Au-nanoprobes) have shown the potential to provide a rapid and sensitive detection method for Mtb and single base alterations associated with antibiotic resistance, namely in rpoB gene associated to RIF resistance.Results: We developed a strategy based on the isothermal amplification of sample DNA (LAMP) coupled to specific Au-nanoprobes capable of identifying members of the Mtb complex (MTBC) and discriminating specific mutations within the rpoB gene. Integration of LAMP and Au-nanoprobe assay allowed to detect MTBC member and identify mutations linked to RIF resistance. A total of 12 biological samples were tested and a 100% specificity and sensitivity was attained.Conclusions: There is an increasing demand for simple, fast and cheap methods for the molecular identification of Mtb and for the detection of molecular tags associated to drug resistance suitable for use at point-of-need. Here we describe such a method, that as the potential to get molecular diagnostic of tuberculosis to remote environments.

Guerra, M, Pinto RM, Santos JP, Paiva ACS.  2013.  Towards the assignment of the REMPI spectrum of Ph 2O using CIS and TD-DFT methods, May 09. Molecular Physics. 111:3311-3319., Number 21 AbstractWebsite
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Sampaio, JM, Parente F, Indelicato P, Marques JP.  2013.  Relativistic calculations of M-shell decay rates and yields in Zn, Cd and Hg, Mar 26. Journal of Physics B: Atomic, Molecular and Optical Physics. 46:065001., Number 6 AbstractWebsite
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Conde, J, Rosa J, {de la Fuente} {JM }, Baptista {PV}.  2013.  Gold-nanobeacons for simultaneous gene specific silencing and intracellular tracking of the silencing events, mar. Biomaterials. 34:2516–2523., Number 10: Elsevier Abstract

The potential of a single molecular nanoconjugate to intersect all RNA pathways: from gene specific downregulation to silencing the silencers, i.e. siRNA and miRNA pathways, is demonstrated. Gold-nanobeacons are capable of efficiently silencing single gene expression, exogenous siRNA and endogenous miRNAs while yielding a quantifiable fluorescence signal directly proportional to the level of silencing. The silencing potential is comparable to that of traditional siRNA but the same nanoconjugates structure is also capable of reversing the effect of an exogenous siRNA. We further demonstrate the Gold-nanobeacons' efficiency at targeting and silencing miR-21, an endogenous miRNA involved in cancer development, which could become a valid nanotheranostics approach. Again, expression of miR-21 was inhibited with concomitant increase of the Au-nanobeacons' fluorescence that can be used to assess the silencing effect. This way, a single nanostructure can be used to intersect all RNA regulatory pathways while allowing for direct assessment of effective silencing and cell localization via a quantifiable fluorescence signal, making cancer nanotheranostics possible.

Moniz, AB.  2013.  {Robots and humans as co-workers? The human-centred perspective of work with autonomous systems}, Mar , Number 03/2013: Universidade Nova de Lisboa, IET/CICS.NOVA-Interdisciplinary Centre on Social Sciences, Faculty of Science and Technology Abstract

The design of work organisation systems with automated equipment is facing new challenges and the emergence of new concepts. The social aspects that are related with new concepts on the complex work environments (CWE) are becoming more relevant for that design. The work with autonomous systems implies options in the design of workplaces. Especially that happens in such complex environments. The concepts of “agents”, “co-working” or “human-centred technical systems” reveal new dimensions related to human-computer interaction (HCI). With an increase in the number and complexity of those human-technology interfaces, the capacities of human intervention can become limited, originating further problems. The case of robotics is used to exemplify the issues related with automation in working environments and the emergence of new HCI approaches that would include social implications. We conclude that studies on technology assessment of industrial robotics and autonomous agents on manufacturing environment should also focus on the human involvement strategies in organisations. A needed participatory strategy implies a new approach to workplaces design. This means that the research focus must be on the relation between technology and social dimensions not as separate entities, but integrated in the design of an interaction system.

Boavida, N, Baumann M, Moniz AB, Schippl J, Reichenbach M, Weil M.  2013.  {Technology transition towards electric mobility - technology assessment as a tool for policy design}, Mar. , Number 04/2013: Universidade Nova de Lisboa, IET/CICS.NOVA-Interdisciplinary Centre on Social Sciences, Faculty of Science and Technology Abstract

The paper aims to understand the degree of transition towards e-mobility. The assumption is that the degree of convergence between actors of each system (batteries, vehicles, grid, policies, business models and consumers) is an indicator of changes in the present socio-technical regime. After an introduction to the socio-technical transition towards e-mobility, the paper presents and discusses three technology assessment approaches to several projects related to technology, society and politics. There are several thematic crossovers between all projects presented leading to a synergetic technology assessment. This output results from the overlapping areas between the cases and can be used to first assess the extent of changes in the present socio-technical regime, as well as to extract standards and regulations, acceptance/risk analyses and behaviour changes that could be significant in the context of a transition towards electric mobility.

Silva, R, Folgosa F, Soares P, Pereira AS, Garcia R, Gestal-Otero JJ, Tavares P, Gomes da Silva MDR.  2013.  Occupational cosmic radiation exposure in Portuguese airline pilots: study of a possible correlation with oxidative biological markers., Jun. Radiation and environmental biophysics. 52:211-220., Number 2 AbstractWebsite

Several studies have sought to understand the health effects of occupational exposure to cosmic radiation. However, only few biologic markers or associations with disease outcomes have so far been identified. In the present study, 22 long- and 26 medium-haul male Portuguese airline pilots and 36 factory workers who did not fly regularly were investigated. The two groups were comparable in age and diet, were non-smokers, never treated with ionizing radiation and other factors. Cosmic radiation exposure in pilots was quantified based on direct monitoring of 51 flights within Europe, and from Europe to North and South America, and to Africa. Indirect dose estimates in pilots were performed based on the SIEVERT (Système informatisé d'évaluation par vol de l'exposition au rayonnement cosmique dans les transports aériens) software for 6,039 medium- and 1,366 long-haul flights. Medium-haul pilots had a higher cosmic radiation dose rate than long-haul pilots, that is, 3.3 ± 0.2 μSv/h and 2.7 ± 0.3 μSv/h, respectively. Biological tests for oxidative stress on blood and urine, as appropriate, at two time periods separated by 1 year, included measurements of antioxidant capacity, total protein, ferritin, hemoglobin, creatinine and 8-hydroxy-2-deoxyguanosine (8OHdG). Principal components analysis was used to discriminate between the exposed and unexposed groups based on all the biological tests. According to this analysis, creatinine and 8OHdG levels were different for the pilots and the unexposed group, but no distinctions could be made among the medium- and the long-haul pilots. While hemoglobin levels seem to be comparable between the studied groups, they were directly correlated with ferritin values, which were lower for the airline pilots.

Moniz, AB, Boavida N, Baumann M, Schippl J, Reichenbach M, Weil M.  2013.  Technology transition towards electric mobility - technology assessment as a tool for policy design, Jun. Colloquium Gerpisa 2013. , Paris: Université d'Evry Abstract

The paper aims to understand the degree of transition towards e-mobility. The assumption is that the degree of convergence between actors of each system (batteries, vehicles, grid, policies, business models and consumers) is an indicator of changes in the present socio-technical regime. After an introduction to the socio-technical transition towards e-mobility, the paper presents and discusses three technology assessment approaches to several projects related to technology, society and politics. There are several thematic crossovers between all projects presented leading to a synergetic technology assessment. This output results from the overlapping areas between the cases and can be used to first assess the extent of changes in the present socio-technical regime, as well as to extract standards and regulations, acceptance/risk analyses and behaviour changes that could be significant in the context of a transition towards electric mobility.

Vilas-Boasa, V, Silva R, Nunes C, Reis S, Ferreira L, Vieira C, Carvalho F, de Bastos ML, Remiao F.  2013.  Mechanisms of P-gp inhibition and effects on membrane fluidity of a new rifampicin derivative, 1,8-dibenzoyl-rifampicin, JUL 18. TOXICOLOGY LETTERS. 220:259-266., Number 3 Abstract

Purpose: To assess P-glycoprotein (P-gp)-modulation ability and the mechanisms of P-gp inhibition mediated by a new synthetic rifampicin derivative, 1,8-dibenzoyl-rifampicin (DiBenzRif), in an in vitro model of the blood-brain barrier (BBB), RBE4 cells, and in membrane mimetic models (liposomes). Methods: P-gp expression (western blot) and activity {[}rhodamine 123 accumulation studies] were assessed until 72 h of exposure to DiBenzRif. The effects on intracellular ATP levels and on P-gp ATPase activity were studied using luciferin-luciferase bioluminescence assay. Membrane fluidity changes were tracked by steady-state anisotropy measurements. Non-P-gp-related rhodamine 123 accumulation was evaluated using liposomes prepared with the main lipids present in RBE4 cell membranes. Results: A significant increase in intracellular rhodamine 123 content was observed in DiBenzRif-treated cells at all tested time-points. This effect was associated with a significant reduction in ATP intracellular levels, the inhibition of P-gp ATPase activity and a significant increase in membrane fluidity. DiBenzRif also favoured rhodamine 123 accumulation in a liposomal model of RBE4 cells, suggesting that it may be useful in increasing intracellular levels of substances that passively diffuse into the cells. Conclusion: DiBenzRif-induced inhibitory effect on P-gp increases xenobiotic accumulation in BBB cells, which may contribute to the development of therapeutic adjuvants to enhance brain penetration of drugs. (C) 2013 Elsevier Ireland Ltd. All rights reserved.

Raje, VP, Morgado PI, Ribeiro MP, Correia IJ, Bonifacio VDB, Branco PS, Aguiar-Ricardo A.  2013.  Dual on-off and off-on switchable oligoaziridine biosensor, JAN 15. BIOSENSORS & BIOELECTRONICS. 39:64-69., Number 1 Abstract
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Baptista, {PMRV}.  2013.  Association of FTO and PPARG polymorphisms with obesity in Portuguese women., jan. Diabetes, Metabolic Syndrome and Obesity: Targets and Therapy. 6:241–245., Number NA: Dove Medical Press Abstract
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de Fernandes, {MANCR}, Baptista {PMRV}.  2013.  Cancer Nanotechnology: Prospects for Cancer Diagnostics and Therapy - An Update on Novel Molecular Players, jan. Current Cancer Therapy Reviews. 9:1., Number NA: Bentham Science Publishers Abstract

Nanotechnology has emerged as a {"}disruptive technology{"} that may provide researchers with new and innovativeways to diagnose, treat and monitor cancer. In fact, nanomedicine approaches have delivered several strategies, suchas new imaging agents, real-time assessments of therapeutic and surgical efficacy, multifunctional, targeted devices capableof bypassing biological barriers to target and silence specific pathways in tumours. Of particular interest, has been theincreased capability to deliver multiple therapeutic agents directly to bulk cancer cells and cancer stem cells that play acritical role in cancer growth and metastasis. These multifunctional targeted nanoconjugates are also capable of avoidingcancer resistance and monitor predictive molecular changes that open the path for preventive action against pre-cancerouscells, minimizing costs and incidence of relapses. A myriad of nanoconjugates with effective silencing and site-targetingmoieties can be developed by incorporating a diverse selection of targeting, diagnostic, and therapeutic components. Adiscussion of the integrative effort of nanotechnology systems with recent developments of biomolecular interactions incancer progression is clearly required. Here, we will update the state of the art related to the development and applicationsof nanoscale platforms and novel biomolecular players in cancer diagnosis, imaging and treatment.

Baptista, {PMRV}.  2013.  The chemistry and biology of gold nanoparticle-mediated photothermal therapy: promises and challenges, jan. Nano LIFE. 03:nr.1330001., Number 03: World Scientific Publishing Abstract

Under laser radiation, cells labeled with gold nanoparticles (AuNPs) are believed to suffer thermal damage due to the transfer of the absorbed light from theAuNPsto the cells. This process, which involves complex mechanisms such as the rapid electron–phonon decay in theAuNPs, followed by phonon–phonon relaxation, culminates in the localized heating of both theAuNPsand the cells, setting the rational for the use of these nanostructures, under laser light, in cancer photothermal therapy (PTT). Here, we discuss the chemical and biological aspects of this promising new therapeutic approach, including the advantages over conventional cancer therapies and the challenges that scientists still need to overcome to progress toward translation research.Read More:http://www.worldscientific.com/doi/abs/10.1142/S179398441330001X

Capelo, {JL}, Baptista {PMRV}.  2013.  Fast nucleotide identification through fingerprinting using gold nanoparticle-based surface-assisted laser desorption/ionisation, jan. Talanta. 105:417–21., Number NA: Elsevier Abstract

We report a method centred on gold nanoparticle-based surface-assisted laser desorption/ionisation for analysis of deoxynucleotides and alkylated nucleobases. Gold nanoparticles allow for enhanced analysis capability by eliminating undesired signature peaks; thus more elegant mass spectra can be attained that allow identification by nucleotide mass fingerprint. The resulting fingerprinting patterns on the spectra are compared and associated with the presence of different nucleotides in the sample. This method can be easily extended to modified nucleotides implicated in genome lesions due to exposure to environment chemicals, such as DNA adducts (e.g. guanine adducts). The use of gold nanoparticles for surface-assisted laser desorption/ionisation can be an useful tool to resolve common issues of background noise when analysing nucleic acids samples.

Ferreira, PS, Nogueira TB, Costa VM, Branco PS, Ferreira LM, Fernandes E, Bastos ML, Meisel A, Carvalho F, Capela JP.  2013.  Neurotoxicity of ``ecstasy{''} and its metabolites in human dopaminergic differentiated SH-SY5Y cells, FEB 4. TOXICOLOGY LETTERS. 216:159-170., Number 2-3 Abstract
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Madeira, TI, Amorim P, Parente F, Indelicato P, Marques JP.  2013.  Analysis of the quasicontinuum band emitted by highly ionised tungsten atoms in the 4–7 nm range, Feb 31. The European Physical Journal D. 67:12., Number 1 AbstractWebsite
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Maia, MJ.  2013.  {Equity in access to MRI equipment: the Portuguese case}, Feb. , Number 02/2013: Universidade Nova de Lisboa, IET/CICS.NOVA-Interdisciplinary Centre on Social Sciences, Faculty of Science and Technology Abstract

Magnetic resonance imaging (MRI) is a method of image diagnose proven to be of undeniable importance when it comes to neuro and cardio related diseases. In fact, these diseases (such as: ischemic heart disease, stroke and acute myocardial infection) have high incidence in Portugal. For these reasons, the allocation of this medical technology should not be considered with light thoughts. In fact, making decision of resource allocation in health care can be a very complex and contested matter. The impacts of new technology allocation, such MRI, can be assessed in a variety of ways. However, a fundamental component should always be present: the use of evidence-based decision-making methods. One of these methods is Technology Assessment (TA). This paper aims to characterize the equity on access of the Portuguese population in general, to a specific medical device such as MRI, under the TA point of view. It is hoped to promote a bridge of scientific knowledge between the gap on research and policy-making through TA that can emerge as a tool to aid decision-makers in the organization of health systems. There are gaps in providing healthcare, due to geographical imbalances, with some areas unable to provide certain specialized services, as hospitals in the countryside do not provide all medical specialties. Portugal has also a large independent private sector that provides diagnostic and therapeutic services to NHS users under contracts called conventions. These medical contracts cover ambulatory health facilities for laboratory tests and examinations such as diagnostic tests and Radiology. However, there is no convention from the NHS when concerning the MRI exam. Therefore, this reality can be considered a limitation in the access of the general population to this kind of clinical exam. TA can play an useful and important role in helping the decision-makers to explore potential gains that might be achieved by introducing a more rational decision making into health care ma

Simão, J, Singer J, Veiga L.  2013.  A Comparative Look at Adaptive Memory Management in Virtual Machines, dec. IEEE CloudCom 2013. : IEEE Abstract2013-cloudcom-simao-c.pdf

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Costa, N, Matos S, Gomes da Silva MDR, Pereira MMA.  2013.  Cyclodextrin-Based Ionic Liquids as Enantioselective Stationary Phases in Gas Chromatography, DEC. CHEMPLUSCHEM. 78:1466-1474., Number 12 Abstract
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Conde, J, Ambrosone A, Hernandez Y, Marchesano V, Tian F, {Ricardo Ibarra} M, Baptista {PV}, Tortiglione C, {de la Fuente} {JM }.  2013.  Designing gold nanoparticles for in vivo gene silencing as a new therapeutic tool, dec. Human Gene Therapy. 24:A24–A24., Number 12: Mary Ann Leibert Abstract
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Silva, JPM, Simão J, Veiga L.  2013.  Ditto – Deterministic Execution Replayability-as-a-Service for Java VM on Multiprocessors, dec. ACM/IFIP/Usenix International Middleware Conference (Middleware 2013). : Springer Abstract2013-middleware-silva.pdf

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Simão, J, Veiga L.  2013.  Flexible SLAs in the Cloud with Partial Utility-driven Scheduling (Best-Paper Award Runner-up), dec. IEEE 5th International Conference on Cloud Computing Technology and Science (CloudCom 2013). : IEEE Abstract2013-cloudcom-simao-a-best-paper-award-runner-up.pdf

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Simão, J, Rameshan N, Veiga L.  2013.  Resource-Aware Scaling of Multi-threaded Java Applications in Multi-tenancy Scenarios, dec. IEEE CloudCom 2013. : IEEE Abstract2013-cloudcom-simao-b.pdf

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