Field-Configurable GPU

Nesta dissertação pretende-se desenvolver uma arquitetura de processamento dedicada destinada à aceleração de aplicações específicas, inspirada na estrutura de unidades de processamento do tipo GPU. A unidade de processamento deverá ser programável e configurável para os requisitos de aplicações específicas, sendo adaptada aos tipos e à quantidade de recursos lógicos disponíveis num dispositivo FPGA selecionado. Pretende-se que o acelerador consiga tirar o máximo partido dos recursos disponíveis num determinado dispositivo FPGA (memória, unidades aritméticas, recursos lógicos) com o objetivo de maximizar o desempenho de aplicações selecionadas. Serão consideradas aplicações alvo no domínio do processamento de imagem e de "machine learning". Uma vez selecionada uma arquitetura base, a especialização para uma aplicação (ou classe de aplicações) terá por base a configuração de 3 componentes fundamentais: organização do sistema de memória distribuída (construído com os blocos de memória RAM internos da FPGA), organização das unidades de processamento aritmético (que podem ser heterogéneas) e dimensão dos caminhos de dados. O sistema a desenvolver deverá ser desenhado ao nível RTL, em Verilog, e contemplar um processo automatizado para personalizar o acelerador a partir de um conjunto de especificações definidas com base nas características da aplicação alvo. Esse processo de personalização poderá ser feito com base na definição de parâmetros em Verilog, ou também recorrendo a aplicações dedicadas, a desenvolver, para gerar diretamente código Verilog. Deverá também ser desenvolvido um conjunto elementar de ferramentas de suporte, nomeadamente para geração do código a executar pelo processador. Como validação final, pretende-se integrar e demonstrar o acelerador num sistema de processamento de imagem em tempo real

Exploring model-based and model-free reinforcement learning in obsessive-compulsive disorder

RESUMO: A Perturbação Obsessivo-Compulsiva (POC) é uma doença neuropsiquiátrica comum, grave e incapacitante, para a qual os tratamentos actuais são ineficazes num grande número de casos. O instrumento mais utilizado para avaliar a gravidade de sintomas obsessivo-compulsivos é a Yale-Brown Obsessive-Compulsive Scale (YBOCS), que foi recentemente revista (Y-BOCS-II). No entanto, a sua validade de construto (tanto divergente como convergente) tem sido reportada como moderada e a sua validade de critério para diagnóstico de POC nunca foi testada. No primeiro capítulo desta tese testei, pela primeira vez, a validade de critério da Y-BOCS-II e demonstrei que um ponto de corte de 13 (pontuação total) atinge o melhor balanço entre sensibilidade e especificidade para o diagnóstico de POC. No entanto, confirmei que a sua validade divergente está longe de ser excelente. Este último achado levoume a procurar outros potenciais marcadores de POC. Têm sido demonstradas várias anomalias em doentes com POC utilizando tarefas neuropsicológicas ou técnicas de neuroimagem. Contudo, não existe ainda um marcador consistente para esta perturbação, que seja capaz de discriminar eficazmente pacientes que sofrem de POC, que seja sensível à mudança após intervenções terapêuticas e para o qual seja possível estabelecer uma correspondência com circuitos ou função cerebral. Uma abordagem que tem sido seguida nos últimos anos considera a POC como sendo caracterizada por uma disfunção nos sistemas cerebrais responsáveis pela aprendizagem de acções. As tarefas de decisão sequencial emergiram recentemente como um instrumento importante e sofisticado para estudar a aprendizagem de acções em humanos através da abordagem de reinforcement learning (RL). De acordo com a teoria subjacente ao RL, as acções podem ser aprendidas de duas formas distintas: um sistema modelbased funciona através da construção de um modelo interno das dinâmicas do ambiente e utiliza esse modelo para planear trajectórias comportamentais futuras, por oposição a um sistema model-free, que funciona armazenando o valor estimado das acções que foram implementadas recentemente e actualizando essas estimativas por tentativa e erro. As chamadas tarefas de decisão sequencial têm vindo a ser utilizadas para estabelecer associações entre disfunção de sistemas cerebrais de RL e algumas perturbações neuropsiquiátricas, como a POC, sendo que um desequilíbrio entre os sistemas model-based e model-free tem sido descrito. Através da aplicação de uma dessas tarefas de decisão sequencial, a two-step task, existe evidência que sugere que os doentes com POC têm um défice no sistema model-based. No entanto, neste paradigma em particular, antes de desempenhar esta tarefa os indivíduos recebem informação detalhada sobre a estrutura da mesma. Assim, não é claro como os dois principais sistemas de RL interagem quando os indivíduos aprendem exclusivamente através de interacção com o ambiente e como a informação explícita afecta as estratégias de RL. No segundo capítulo desta tese, desenvolvi uma nova tarefa de decisões sequenciais que permite não só quantificar o uso de estratégias modelbased RL e model-free RL, mas também diferenciar entre o impacto do conhecimento explícito da estrutura da tarefa e o impacto da experiência na mesma. Os resultados da aplicação da tarefa em indivíduos saudáveis demonstram que inicialmente a escolha de acções é controlada por aprendizagem model-free, com a aprendizagem model-based emergindo apenas numa minoria de indivíduos depois de experiência significativa com a tarefa, não emergindo de todo em indivíduos com POC, que por sua vez mostraram tendência para aumentar o uso de model-free RL com a experiência. Quando foi dada informação explícita sobre a estrutura da tarefa, observou-se um aumento dramático do uso de aprendizagem model-based, tanto nos voluntários saudáveis como em ambos os grupos clínicos. A informação explícita diminuiu o uso do sistema de aprendizagem model-free nos voluntários saudáveis e nos pacientes com perturbação do humor e ansiedade, mas essa diminuição não foi estatisticamente significativa no grupo de doentes com POC. Para além disso, depois das instruções, verificou-se em todos os grupos que a actualização do valor das acções aprendidas através do sistema model-free passou a ser mais influenciada pelo valor dos estados atingidos e menos influenciada pela consequência dos ensaios. Outro efeito da informação explícita sobre a estrutura da tarefa nos indivíduos saudáveis foi tornar as escolhas mais perseverantes, o que é consistente com uma modificação da estratégia de exploração. Estes resultados ajudam a clarificar o perfil de utilização de estratégias de RL dos pacientes com POC, que apresentam défice inespecíficos de aprendizagem model-based e achados mais específicos de maior uso de aprendizagem model-free, em ambos os casos antes de obterem informação sobrea estrutura da tarefa. Por fim, como a literatura ainda não é consensual sobre a interação entre um eventual sistema de model-based RL e um sistema de model-free RL nos circuitos cerebrais em humanos, devenvolvi um protocolo de ressonância magnética funcional para avaliar a escolha de ação sequencial com e sem instruções. Os resultados preliminares, em indivíduos saudáveis, sugerem que a reduced two-step task permite separar comportamento que utiliza aprendizagem predominantemente model-free (antes das instruções) de comportamento que utiliza aprendizagem predominantemente model-based (após as instruções), no mesmo indivíduo, estrutura da tarefa e ambiente. A análise dos dados de imagem funcional sugere que o conhecimento explícito sobre a estrutura da tarefa modifica a atividade neuronal no córtex paracingulado (cortex prefrontal medial) durante a transição do primeiro para o segundo passo da tarefa. Objectivos futuros incluem o uso de técnicas de análise multivariada para explorar a representação cerebral dos estados da tarefa e a aplicação deste protocolo de ressonância magnética funcional em populações clínicas.ABSTRACT: Obsessive-compulsive disorder (OCD) is a common, chronic and disabling neuropsychiatric condition for which current treatments are ineffective in a large proportion of cases. The gold-standard instrument to assess the severity of OCD symptoms is the Yale-Brown Obsessive-Compulsive Scale (Y-BOCS), which was recently revised (Y-BOCS-II). However, its construct validity has been reported has moderate and its criterion-related validity for the diagnosis of OCD has never been tested. In the first chapter of this dissertation, I tested, for the first time, criterion-related validity of the Y-BOCS-II and demonstrated that a cut-off of 13 (total score) attains the best balance between sensitivity and specificity for the diagnosis of OCD. However, I confirmed that its divergent validity is far from excellent. This last finding led me to search for other potential markers of OCD. Several abnormalities have been demonstrated in OCD patients in studies using neuropsychological and neuroimaging approaches, but we still lack a consistent marker for the disorder which is able to discriminate patients with OCD from healthy subjects or from patients with other mental disorders, which is sensitive to treatmentinduced changes, and which can be mapped to brain circuits or function. An approach which has been followed over the last decade is considering OCD as a disorder of action learning systems of the brain. Sequential decision tasks have recently emerged as an influential and sophisticated tool to investigate action learning in humans through the reinforcement learning (RL) framework. According to the RL framework, actions can be learned in two different ways: model-based control works by learning a model of the dynamics of the environment and later using that model to plan future behavioral trajectories, while model-free control works by storing the estimated value of recently taken actions and updating these estimates by trial-and-error. Sequential decision tasks have been used to assess associations between dysfunction in RL control systems and certain behavioral disorders, such as OCD, where an unbalance between model-based and model-free RL has been hypothesized. In fact, using the most commonly applied sequential decision task, the two-step task, evidence has been produced suggesting that OCD patients have a deficit in model-based learning. However, in this specific paradigm, subjects typically receive detailed information about task structure prior to performing the task. Thus, it remains unclear how different RL systems contribute when subjects learn exclusively from experience, and how explicit information about task structure modifies RL strategy. To address these questions, I created a sequential decision task requiring minimal prior instruction, the reduced two-step task. I assessed performance both prior to and after delivering explicit information on task structure, in healthy volunteers, patients with OCD and patients with other mood and anxiety disorders. Initially model-free control dominated, with model-based control emerging only in a minority of subjects after significant task experience, and not at all in patients with OCD, who had instead a tendency to increase their use of model-free control. Once explicit information about task structure was provided, a dramatic increase in the use of model-based RL was observed,similarly across healthy volunteers and both patient groups, including OCD. The debriefing also significantly decreased the use of model-free RL in healthy volunteers and in patients with mood and anxiety disorders, but not in OCD patients. Additionally, after instructions, model-free action value updates were influenced more by state values and less by trial outcomes, in all groups, and subject choices became more perseverative in healthy subjects, consistent with changes in exploration strategy. These results help in clarifying the RL profile for patients with OCD, with unspecific findings of deficient model-based control, and more specific findings of enhanced model-free control, in both cases prior to information about task structure. Finally, as the literature is not yet consensual on how model-free and modelbased RL systems interact in human brain circuits, I developed a functional magnetic resonance imaging (fMRI) protocol to assess uninstructed and instructed sequential action choice. Preliminary results in healthy subjects suggest that the fMRI version of the reduced two-step task allows to separate predominantly model-free control (before instructions) from predominantly model-based control (after instructions), in the same subject, task structure and environment. Across all sessions, choice events were associated with increases blood-oxygen-level-dependent (BOLD) activity in the left precentral gyrus and reward events were associated with increased BOLD activity in the ventral striatum. I found that explicit knowledge about task structure modifies blood-oxygen-level-dependent (BOLD) activity in the paracingulate cortex (medial prefrontal cortex) during the transition from the first- to the second-step of the task. Future directions include using multivariate pattern analysis techniques to explore how the brain represents state space in sequential decision tasks and applying the current fMRI protocol in clinical populations

Cyclic scheduling of pulp digesters with integrated heating tasks

This paper addresses a multistage batch plant scheduling problem under energy constraints. These reflect the limited availability of a thermal heating utility that is shared among parallel digesters of different capacities for the production of pulp. Depending on the processing sequence, more or less steam will be available for a given digester, which will affect the duration of its heating stage and the overall cycle time. Such integrated heating tasks resemble direct heat integration, which has been addressed through models based on generic frameworks for process representation (e.g., State-Task Network, Resource-Task Network, State-Sequence Network) and relying on a single time grid, either discrete or continuous. A new multiple time grid continuous-time model is now proposed where the complex energy constraints are derived from the higher level modeling framework that is Generalized Disjunctive Programming. The results show a considerable better performance compared to RTN discrete and continuous-time formulations, due to a substantially lower integrality gap and model size

A unified model of ketamine’s dissociative and psychedelic properties

OKKetamine is an N-methyl-d-aspartate antagonist which is increasingly being researched and used as a treatment for depression. In low doses, it can cause a transitory modification in consciousness which was classically labelled as ‘dissociation’. However, ketamine is also commonly classified as an atypical psychedelic and it has been recently reported that ego dissolution experiences during ketamine administration are associated with greater antidepressant response. Neuroimaging studies have highlighted several similarities between the effects of ketamine and those of serotonergic psychedelics in the brain; however, no unified account has been proposed for ketamine’s multi-level effects – from molecular to network and psychological levels. Here, we propose that the fast, albeit transient, antidepressant effects observed after ketamine infusions are mainly driven by its acute modulation of reward circuits and sub-acute increase in neuroplasticity, while its dissociative and psychedelic properties are driven by dose- and context-dependent disruption of large-scale functional networks. Computationally, as nodes of the salience network (SN) represent high-level priors about the body (‘minimal’ self) and nodes of the default-mode network (DMN) represent the highest-level priors about narrative self-experience (‘biographical’ self), we propose that transitory SN desegregation and disintegration accounts for ketamine’s ‘dissociative’ state, while transitory DMN desegregation and disintegration accounts for ketamine’s ‘psychedelic’ state. In psychedelic-assisted psychotherapy, a relaxation of the highest-level beliefs with psychotherapeutic support may allow a revision of pathological self-representation models, for which neuroplasticity plays a permissive role. Our account provides a multi-level rationale for using the psychedelic properties of ketamine to increase its long-term benefits.publishersversionepub_ahead_of_prin

Relatório de actividades desenvolvidas na vinha e no sector de Enologia da empresa José Maria da Fonseca

Mestrado em Engenharia de Viticultura e Enologia / Instituto Superior de Agronomia. Universidade de Lisboa / Faculdade de Ciências. Universidade do PortoO presente relatório, no âmbito do mestrado em Engenharia de Viticultura e Enologia, refere-se ao estágio em contexto empresarial realizado na José Maria da Fonseca Vinhos S.A., empresa de grande dimensão e méritos reconhecidos no sector vitivinícola, fortemente associada à região da Península de Setúbal e à produção de Moscatel de Setúbal. No período de 1 de abril a 9 de agosto de 2019 foram desenvolvidas actividades nos sectores de Viticultura e Enologia desta empresa, respectivamente no controlo de doenças e de pragas da vinha, e nas operações de filtração tangencial e flotação no tratamento de mostos e vinhos. Com o apoio valioso dos responsáveis técnicos e restantes profissionais da empresa, foram aprofundados e consolidados conhecimentos científicos e técnicos previamente adquiridos. Foi adquirido conhecimento in loco sobre a região do Moscatel de Setúbal, a segunda mais antiga região demarcada do país. O estágio permitiu ainda o desenvolvimento de competências de trabalho em equipa e a aquisição de importante experiência de trabalho em contexto de Adega, numa grande empresa do sector vitivinícolaN/

Nursing interventions to the person with cardiac disease submitted to ECMO – integrative literature review

Abstract in proceedings of the Fourth International Congress of CiiEM: Health, Well-Being and Ageing in the 21st Century, held at Egas Moniz’ University Campus in Monte de Caparica, Almada, from 3–5 June 2019.This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.info:eu-repo/semantics/publishedVersio

Bioprospection of the bacterial β-myrcene-biotransforming trait in the rhizosphere

The biocatalysis of β-myrcene into value-added compounds, with enhanced organoleptic/therapeutic properties, may be performed by resorting to specialized enzymatic machinery of β-myrcene-biotransforming bacteria. Few β-myrcene-biotransforming bacteria have been studied, limiting the diversity of genetic modules/catabolic pathways available for biotechnological research. In our model Pseudomonas sp. strain M1, the β-myrcene catabolic core-code was identified in a 28-kb genomic island (GI). The lack of close homologs of this β-myrcene-associated genetic code prompted a bioprospection of cork oak and eucalyptus rhizospheres, from 4 geographic locations in Portugal, to evaluate the environmental diversity and dissemination of the β-myrcene-biotransforming genetic trait (Myr+). Soil microbiomes were enriched in β-myrcene-supplemented cultures, from which β-myrcene-biotransforming bacteria were isolated, belonging to Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, and Sphingobacteriia classes. From a panel of representative Myr+ isolates that included 7 bacterial genera, the production of β-myrcene derivatives previously reported in strain M1 was detected in Pseudomonas spp., Cupriavidus sp., Sphingobacterium sp., and Variovorax sp. A comparative genomics analysis against the genome of strain M1 found the M1-GI code in 11 new Pseudomonas genomes. Full nucleotide conservation of the β-myrcene core-code was observed throughout a 76-kb locus in strain M1 and all 11 Pseudomonas spp., resembling the structure of an integrative and conjugative element (ICE), despite being isolated from different niches. Furthermore, the characterization of isolates not harboring the Myr+-related 76-kb locus suggested that they may biotransform β-myrcene via alternative catabolic loci, being thereby a novel source of enzymes and biomolecule catalogue for biotechnological exploitation. KEY POINTS: • The isolation of 150 Myr+ bacteria hints the ubiquity of such trait in the rhizosphere. • The Myr+ trait is spread across different bacterial taxonomic classes. • The core-code for the Myr+ trait was detected in a novel ICE, only found in Pseudomonas spp.Open access funding provided by FCT|FCCN (b-on). This work was supported by the project VALEU (PTDC/EAM-AMB/30488/2017), by the strategic program UID/BIA/04050/2013 (POCI-01–0145-FEDER-007569), by the GenomePT project (POCI-01–0145-FEDER-022184), supported by COMPETE 2020—Opera tional Programme for Competitiveness and Internationalisation (POCI), Lisboa Portugal Regional Operational Programme (Lisboa2020), Algarve Portugal Regional Operational Programme (CRESC Algarve2020), under the Portugal 2020 Partnership Agreement, funded by national funds through the Fundação para a Ciência e a Tecnologia (FCT) I.P. and the European Regional Development Fund (ERDF), through the COMPETE2020-Programa Operacional Competitividade e Internacionalização (POCI). The work was supported as well through the Ph.D. grants to P.S-C (grant number SFRH/BD/76894/2011) and to F.S. (grant number PD/BD/146184/2019)

Mobile journalism and new skills in the journalistic field

info:eu-repo/semantics/publishedVersio

GC-MS – Still standing for clinical and forensic analysis: validation of a multidrug method to detect and quantify illicit drugs

An SPE-GC-MS analytical method using whole blood samples has been developed and validated to detect and quantify nineteen compounds belonging to the Drugs of Abuse (DA) groups of cocaine and metabolites, opiates and new psychoactive substances (NPS). The method detailed here is necessary because the recreational consumption of these DA has increased considerably in recent years and poly-drug-consumption is now very common. The method developed was both specific and selective. Three different working ranges have been defined due to the differences between therapeutic, toxic and lethal concentrations of DA. Linearity was confirmed for the defined working ranges of all DA, except pseudoephedrine, ephedrine, norephedrine, and TFMPP. Since the remaining nineteen substances showed heteroscedasticity, six ponderation factors were studied to find the best fit for each compound. Limits of Detection and Lower Limits of Quantification have been studied and defined. No carryover was noted, with acceptable extraction recoveries. The achievement of all validation criteria according to international guidelines allows the application of the proposed method in routine forensic analysis. Using this method can also significantly reduce response times and GC-MS analysis costs.info:eu-repo/semantics/acceptedVersio

Triboelectric energy harvesting response of different polymer-based materials

Energy harvesting systems for low-power devices are increasingly being a requirement within the context of the Internet of Things and, in particular, for self-powered sensors in remote or inaccessible locations. Triboelectric nanogenerators are a suitable approach for harvesting environmental mechanical energy otherwise wasted in nature. This work reports on the evaluation of the output power of different polymer and polymer composites, by using the triboelectric contact-separation systems (10 N of force followed by 5 cm of separation per cycle). Different materials were used as positive (Mica, polyamide (PA66) and styrene/ethylene-butadiene/styrene (SEBS)) and negative (polyvinylidene fluoride (PVDF), polyurethane (PU), polypropylene (PP) and Kapton) charge materials. The obtained output power ranges from 0.2 to 5.9 mW, depending on the pair of materials, for an active area of 46.4 cm2. The highest response was obtained for Mica with PVDF composites with 30 wt.% of barium titanate (BT) and PA66 with PU pairs. A simple application has been developed based on vertical contact-separation mode, able to power up light emission diodes (LEDs) with around 30 cycles to charge a capacitor. Further, the capacitor can be charged in one triboelectric cycle if an area of 0.14 m2 is used.This research was funded by Fundação para a Ciência e Tecnologia under framework of the Strategic Funding UID/FIS/04650/2020 and projects UIDB/05549/2020 and TSSiPRO-NORTE-01-0145-FEDER-000015. The authors also thank the F.C.T. for financial support under grants SFRH/BD/140242/2018 (T.R.M.), SFRH/BPD/98109/2013 (P.C.). Finally, the authors acknowledge funding by Spanish State Research Agency (A.E.I.) and the European Regional Development Fund (ERFD) through the project PID2019-106099RB-C43/AEI/10.13039/501100011033 and from the Basque Government Industry and Education Department under the ELKARTEK, HAZITEK and PIBA (PIBA-2018-06) programs, respectively, are also acknowledged