Search Results - "Vilaça, Paulo"

An integrated network visualization framework towards metabolic engineering applications by Noronha, Alberto, Vilaça, Paulo, Rocha, Miguel

“…Background Over the last years, several methods for the phenotype simulation of microorganisms, under specified genetic and environmental conditions have been…”
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Reconstruction of a genome-scale metabolic model for Actinobacillus succinogenes 130Z by Pereira, Bruno, Miguel, Joana, Vilaça, Paulo, Soares, Simão, Rocha, I., Carneiro, Sónia

“…Background Actinobacillus succinogenes is a promising bacterial catalyst for the bioproduction of succinic acid from low-cost raw materials. In this work, a…”
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Turnover Dependent Phenotypic Simulation: A Quantitative Constraint-Based Simulation Method That Accommodates All Main Strain Design Strategies by Pereira, Rui, Vilaça, Paulo, Maia, Paulo, Nielsen, Jens, Rocha, Isabel

“…The uncertain relationship between genotype and phenotype can make strain engineering an arduous trial and error process. To identify promising gene targets…”
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Genome-Wide Semi-Automated Annotation of Transporter Systems by Dias, Oscar, Gomes, Daniel, Vilaça, Paulo, Cardoso, Joao, Rocha, Miguel, Ferreira, Eugenio C., Rocha, Isabel

“…Usually, transport reactions are added to genome-scale metabolic models (GSMMs) based on experimental data and literature. This approach does not allow…”
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Anterior minimally invasive bridge-plate technique for treatment of humeral shaft nonunion by Vilaça, Paulo Roberto, Uezumi, Marcelo Koh

“…Background The present study introduces a new surgical technique and the results of a case series of patients with humeral shaft nonunion. Materials and…”
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A computational tool for the simulation and optimization of microbial strains accounting integrated metabolic/regulatory information by Vilaça, Paulo, Rocha, Isabel, Rocha, Miguel

“…Recently, a number of methods and tools have been proposed to allow the use of genome-scale metabolic models for the phenotype simulation and optimization of…”
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CBFA: phenotype prediction integrating metabolic models with constraints derived from experimental data by Carreira, Rafael, Evangelista, Pedro, Maia, Paulo, Vilaça, Paulo, Pont, M., Tomb, J. F., Rocha, I., Rocha, Miguel

“…Background Flux analysis methods lie at the core of Metabolic Engineering (ME), providing methods for phenotype simulation that allow the determination of flux…”
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Discovery and implementation of a novel pathway for n-butanol production via 2-oxoglutarate by Ferreira, Ana Sofia Araújo, Pereira, R., Liu, Filipe Alexandre Wang, Vilaça, P., Rocha, Isabel

“…Background One of the European Union directives indicates that 10% of all fuels must be bio-synthesized by 2020. In this regard, biobutanolnatively produced by…”
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OptFlux: an open-source software platform for in silico metabolic engineering by Rocha, Isabel, Maia, Paulo, Evangelista, Pedro, Vilaça, Paulo, Soares, Simão, Pinto, José P, Nielsen, Jens, Patil, Kiran R, Ferreira, Eugénio C, Rocha, Miguel

“…Over the last few years a number of methods have been proposed for the phenotype simulation of microorganisms under different environmental and genetic…”
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Sequence based heuristics for two-dimensional bin packing problems by Alvelos, Filipe, Chan, T. M., Vilaça, Paulo, Gomes, Tiago, Silva, Elsa, Valério de Carvalho, J. M.

“…This article addresses several variants of the two-dimensional bin packing problem. In the most basic version of the problem it is intended to pack a given…”
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An integrated computational environment for elementary modes analysis of biochemical networks by Maia, Paulo, Vilaça, Paulo, Rocha, Isabel, Pont, Marcellinus, Tomb, Jean-François, Rocha, Miguel

“…Elementary flux modes (EFMs) have been claimed as one of the most promising approaches for pathway analysis. These are a set of vectors that emerge from the…”
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Computer-aided design and implementation of efficient biosynthetic pathways to produce high added-value products derived from tyrosine in Escherichia coli by Ferreira, Sofia, Balola, Alexandra, Sveshnikova, Anastasia, Hatzimanikatis, Vassily, Vilaça, Paulo, Maia, Paulo, Carreira, Rafael, Stoney, Ruth, Carbonell, Pablo, Souza, Caio Silva, Correia, João, Lousa, Diana, Soares, Cláudio M, Rocha, Isabel

“…Developing efficient bioprocesses requires selecting the best biosynthetic pathways, which can be challenging and time-consuming due to the vast amount of data…”
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MEMOTE for standardized genome-scale metabolic model testing by Lieven, Christian, Beber, Moritz E., Olivier, Brett G., Bergmann, Frank T., Ataman, Meric, Babaei, Parizad, Bartell, Jennifer A., Blank, Lars M., Chauhan, Siddharth, Correia, Kevin, Diener, Christian, Dräger, Andreas, Ebert, Birgitta E., Edirisinghe, Janaka N., Faria, José P., Feist, Adam M., Fengos, Georgios, Fleming, Ronan M. T., García-Jiménez, Beatriz, Hatzimanikatis, Vassily, van Helvoirt, Wout, Henry, Christopher S., Hermjakob, Henning, Herrgård, Markus J., Kaafarani, Ali, Kim, Hyun Uk, King, Zachary, Klamt, Steffen, Klipp, Edda, Koehorst, Jasper J., König, Matthias, Lakshmanan, Meiyappan, Lee, Dong-Yup, Lee, Sang Yup, Lee, Sunjae, Lewis, Nathan E., Liu, Filipe, Ma, Hongwu, Machado, Daniel, Mahadevan, Radhakrishnan, Maia, Paulo, Mardinoglu, Adil, Medlock, Gregory L., Monk, Jonathan M., Nielsen, Jens, Nielsen, Lars Keld, Nogales, Juan, Nookaew, Intawat, Palsson, Bernhard O., Papin, Jason A., Patil, Kiran R., Poolman, Mark, Price, Nathan D., Resendis-Antonio, Osbaldo, Richelle, Anne, Rocha, Isabel, Sánchez, Benjamín J., Schaap, Peter J., Malik Sheriff, Rahuman S., Shoaie, Saeed, Sonnenschein, Nikolaus, Teusink, Bas, Vilaça, Paulo, Vik, Jon Olav, Wodke, Judith A. H., Xavier, Joana C., Yuan, Qianqian, Zakhartsev, Maksim, Zhang, Cheng

“…Reconstructing metabolic reaction networks enables the development of testable hypotheses of an organism’s metabolism under different conditions…”
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DIACERHEIN VERSUS GLUCOSAMINE IN A RAT MODEL OF OSTEOARTHRITIS by de Rezende, Márcia Uchôa, Gurgel, Henrique Melo de Campos, Vilaça, Paulo Roberto, Kuroba, Rogério Kawassaki, Lopes, Alex Silva Santiago, Phillipi, Renée Zon, Hernandez, Arnaldo José

“…The purpose of this study was to compare the chondroprotective effect of diacerein and glucosamine regarding degenerative changes and articular stiffness in an…”
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Reg4OptFlux: an OptFlux plug-in that comprises meta-heuristics approaches for Metabolic engineering using integrated models by Rocha, Orlando, Vilaca, Paulo, Rocha, Miguel, Mendes, Rui

“…Metabolic engineering (ME) strategies have been implemented over the last few years, in order to improve microbial strains of interest in industrial…”
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Morphological Analysis of Neonates of Rats Treated with Dexamethasone in the Initial Phase of Pregnancy by Vilaça Júnior, Paulo Estevao Araújo, Teixeira, Alvaro Aguiar Coelho, Wanderley Teixeira, Valéria, Moraes, Eleonora de Figueiredo, Araújo, Ana Claudia Carvalho de, Maia, Carina Scanoni

“…The glucocorticoid dexamethasone has been largely used due to its anti-inflammatory effect. However, several authors report that the excessive exposition to it…”
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Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing by Lieven, Christian, Beber, Moritz E., Olivier, Brett G., Bergmann, Frank T., Ataman, Meric, Babaei, Parizad, Bartell, Jennifer A., Blank, Lars M., Chauhan, Siddharth, Correia, Kevin, Diener, Christian, Dräger, Andreas, Ebert, Birgitta E., Edirisinghe, Janaka N., Faria, José P., Feist, Adam M., Fengos, Georgios, Fleming, Ronan M. T., García-Jiménez, Beatriz, Hatzimanikatis, Vassily, van Helvoirt, Wout, Henry, Christopher S., Hermjakob, Henning, Herrgård, Markus J., Kaafarani, Ali, Kim, Hyun Uk, King, Zachary, Klamt, Steffen, Klipp, Edda, Koehorst, Jasper J., König, Matthias, Lakshmanan, Meiyappan, Lee, Dong-Yup, Lee, Sang Yup, Lee, Sunjae, Lewis, Nathan E., Liu, Filipe, Ma, Hongwu, Machado, Daniel, Mahadevan, Radhakrishnan, Maia, Paulo, Mardinoglu, Adil, Medlock, Gregory L., Monk, Jonathan M., Nielsen, Jens, Nielsen, Lars Keld, Nogales, Juan, Nookaew, Intawat, Palsson, Bernhard O., Papin, Jason A., Patil, Kiran R., Poolman, Mark, Price, Nathan D., Resendis-Antonio, Osbaldo, Richelle, Anne, Rocha, Isabel, Sánchez, Benjamín J., Schaap, Peter J., Sheriff, Rahuman S. Malik, Shoaie, Saeed, Sonnenschein, Nikolaus, Teusink, Bas, Vilaça, Paulo, Vik, Jon Olav, Wodke, Judith A. H., Xavier, Joana C., Yuan, Qianqian, Zakhartsev, Maksim, Zhang, Cheng

“…An amendment to this paper has been published and can be accessed via a link at the top of the paper…”
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Development and application of efficient pathway enumeration algorithms for metabolic engineering applications by Liu, F, Vilaça, P, Rocha, I, Rocha, M

“…Highlights • Paper reviews the main (hyper)graph based algorithms for metabolic pathway enumeration. • The FindPath and SSG revealed limitations in metabolic…”
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Simulação de Protocolos de Encaminhamento em Redes Oportunistas by Pires, João Paulo Vilaça

“…Nos dias que correm existe um crescimento tecnológico que se traduz não só no número de dispositivos, mas também nas suas capacidades de processamento. Cada…”
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Análise da literatura sobre os modelos de avaliação da capacidade de internacionalização de uma PME escolha do modelo mais adequado às PMEs do setor agroalimentar português by Vilaça, Paulo Bruno

“…Apesar da importância crescente da internacionalização empresarial, este Trabalho Final de Mestrado permitiu identificar uma carência na produção científica…”
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