Publications

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Submitted
von Stosch, M., R. Oliveira, J. Peres, and Feyo S. de Azevedo. "{A hybrid semi-parametric approach to dynamical modelling of biological systems based on delayed differential equations}." {NEW BIOTECHNOLOGY}. {25} (Submitted): {S350}. Abstract
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von Stosch, M., R. Oliveira, J. Peres, and Feyo S. de Azevedo. "{A novel identification method for hybrid (N)PLS dynamical systems with application to bioprocesses}." {EXPERT SYSTEMS WITH APPLICATIONS}. {38} (Submitted): {10862-10874}. Abstract
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von Stosch, Moritz, Joana Peres, Sebastiao Feyo de Azevedo, and Rui Oliveira. "{Modelling biochemical networks with intrinsic time delays: a hybrid semi-parametric approach}." {BMC SYSTEMS BIOLOGY}. {4} (Submitted). Abstract
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Dias, J. M. L., L. S. Serafim, P. C. Lemos, M. A. M. Reis, and R. Oliveira. "{Mathematical modelling of a mixed culture cultivation process for the production of polyhydroxybutyrate}." {BIOTECHNOLOGY AND BIOENGINEERING}. {92} (Submitted): {209-222}. Abstract
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Ferreira, A. R., F. Ataide, M. von Stosch, J. M. L. Dias, J. J. Clemente, A. E. Cunha, and R. Oliveira. "{Application of adaptive DO-stat feeding control to Pichia pastoris X33 cultures expressing a single chain antibody fragment (scFv)}." {BIOPROCESS AND BIOSYSTEMS ENGINEERING}. {35} (Submitted): {1603-1614}. Abstract
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Dias, Joao M. L., Paulo C. Lemos, Luisa S. Serafim, Cristina Oliveira, Marta Eiroa, Maria G. E. Albuquerque, Ana M. Ramos, Rui Oliveira, and Maria A. M. Reis. "{Recent advances in polyhydroxyalkanoate production by mixed aerobic cultures: From the substrate to the final product}." {MACROMOLECULAR BIOSCIENCE}. {6} (Submitted): {885-906}. Abstract
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Ferreira, Ana R., Joao M. L. Dias, Ana P. Teixeira, Nuno Carinhas, Rui M. C. Portela, Ines A. Isidro, Moritz von Stosch, and Rui Oliveira. "{Projection to latent pathways (PLP): a constrained projection to latent variables (PLS) method for elementary flux modes discrimination}." {BMC SYSTEMS BIOLOGY}. {5} (Submitted). Abstract
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von Stosch, Moritz, Steven Davy, Kjell Francois, Vytautas Galvanauskas, Jan-Martijn Hamelink, Andreas Luebbert, Martin Mayer, Rui Oliveira, Ronan O'Kennedy, Paul Rice, and Jarka Glassey. "{Hybrid modeling for quality by design and PAT - benefits and challenges of applications in biopharmaceutical industry}." {BIOTECHNOLOGY JOURNAL}. {9} (Submitted): {719-726}. Abstract
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Teixeira, Ana P., Joao M. L. Dias, Nuno Carinhas, Marcos Sousa, Joao J. Clemente, Antonio E. Cunha, Moritz von Stosch, Paula M. Alves, Manuel J. T. Carrondo, and Rui Oliveira. "{Cell functional enviromics: Unravelling the function of environmental factors}." {BMC SYSTEMS BIOLOGY}. {5} (Submitted). Abstract
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Dias, Joao M. L., Adrian Oehmen, Luisa S. Serafim, Paulo C. Lemos, Maria A. M. Reis, and Rui Oliveira. "{Metabolic modelling of polyhydroxyalkanoate copolymers production by mixed microbial cultures}." {BMC SYSTEMS BIOLOGY}. {2} (Submitted). Abstract
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Simon, Levente L., Hajnalka Pataki, Gyoergy Marosi, Fabian Meemken, Konrad Hungerbuehler, Alfons Baiker, Srinivas Tummala, Brian Glennon, Martin Kuentz, Gerry Steele, Herman J. M. Kramer, James W. Rydzak, Zengping Chen, Julian Morris, Francois Kjell, Ravendra Singh, Rafiqul Gani, Krist V. Gernaey, Marjatta Louhi-Kultanen, John O'Reilly, Niklas Sandler, Osmo Antikainen, Jouko Yliruusi, Patrick Frohberg, Joachim Ulrich, Richard D. Braatz, Tom Leyssens, Moritz von Stosch, Rui Oliveira, Reginald B. H. Tan, Huiquan Wu, Mansoor Khan, Des O'Grady, Anjan Pandey, Remko Westra, Emmanuel Delle-Case, Detlef Pape, Daniele Angelosante, Yannick Maret, Olivier Steiger, Miklos Lenner, Kaoutar Abbou-Oucherif, Zoltan K. Nagy, James D. Litster, Vamsi Krishna Kamaraju, and Min-Sen Chiu. "{Assessment of Recent Process Analytical Technology (PAT) Trends: A Multiauthor Review}." {ORGANIC PROCESS RESEARCH & DEVELOPMENT}. {19} (Submitted): {3-62}. Abstract
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von Stosch, Moritz, Rui Oliveira, Joana Peres, and Sebastiao Feyo de Azevedo. "{Hybrid semi-parametric modeling in process systems engineering: Past, present and future}." {COMPUTERS & CHEMICAL ENGINEERING}. {60} (Submitted): {86-101}. Abstract
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Teixeira, Ana P., Sonia Sa Santos, Nuno Carinhas, Rui Oliveira, and Paula M. Alves. "{Combining metabolic flux analysis tools and C-13 NMR to estimate intracellular fluxes of cultured astrocytes}." {NEUROCHEMISTRY INTERNATIONAL}. {52} (Submitted): {478-486}. Abstract
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Carrondo, Manuel J. T., Paula M. Alves, Nuno Carinhas, Jarka Glassey, Friedemann Hesse, Otto-Wilhelm Merten, Martina Micheletti, Thomas Noll, Rui Oliveira, Udo Reichl, Arne Staby, Ana P. Teixeira, Henry Weichert, and Carl-Fredrik Mandenius. "{How can measurement, monitoring, modeling and control advance cell culture in industrial biotechnology?}." {BIOTECHNOLOGY JOURNAL}. {7} (Submitted): {1522-1529}. Abstract
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Torres, Cristiana A. V., Rodolfo Marques, Silvia Antunes, Vitor D. Alves, Isabel Sousa, Ana Maria Ramos, Rui Oliveira, Filomena Freitas, and Maria A. M. Reis. "{Kinetics of production and characterization of the fucose-containing exopolysaccharide from Enterobacter A47}." {JOURNAL OF BIOTECHNOLOGY}. {156} (Submitted): {261-267}. Abstract
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von Stosch, Moritz, Rui Oliveira, Joana Peres, and Sebastiao Feyo de Azevedo. "{A general hybrid semi-parametric process control framework}." {JOURNAL OF PROCESS CONTROL}. {22} (Submitted): {1171-1181}. Abstract
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Oliveira, R., R. Simutis, and SF de Azevedo. "{Design of a stable adaptive controller for driving aerobic fermentation processes near maximum oxygen transfer `capacity}." {JOURNAL OF PROCESS CONTROL}. {14} (Submitted): {617-626}. Abstract
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Goerke, Aaron R., Johannes Scholten, Nedim Emil Altaras, Ana Teixeira, Joao Clemente, Antonio Cunha, Rui Oliveira, and John G. Aunins. "{BIOT 328-Fast development of Pichia pastoris cultures based on hybrid semiparametric process control}." {ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY}. {236} (Submitted). Abstract
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Santos, J. L. C., A. M. Hidalgo, R. Oliveira, S. Velizarov, and J. G. Crespo. "{Analysis of solvent flux through nanofiltration membranes by mechanistic, chemometric and hybrid modelling}." {JOURNAL OF MEMBRANE SCIENCE}. {300} (Submitted): {191-204}. Abstract
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Ferreira, A. R., J. M. L. Dias, M. von Stosch, J. Clemente, A. E. Cunha, and Rui Oliveira. "{Fast development of Pichia pastoris GS115 Mut(+) cultures employing batch-to-batch control and hybrid semi-parametric modeling}." {BIOPROCESS AND BIOSYSTEMS ENGINEERING}. {37} (Submitted): {629-639}. Abstract
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Glassey, Jarka, Krist V. Gernaey, Christoph Clemens, Torsten W. Schulz, Rui Oliveira, Gerald Striedner, and Carl-Fredrik Mandenius. "{Process analytical technology (PAT) for biopharmaceuticals}." {BIOTECHNOLOGY JOURNAL}. {6} (Submitted): {369-377}. Abstract
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Oliveira, R., A. Cunha, J. Clemente, and M. J. T. Carrondo. "{Adaptive DO-based control of substrate feeding in high cell density cultures operated under oxygen transfer limitation}." {Adaptive and Natural Computing Algorithms}. Eds. B. {Ribeiro, RF Albrecht, A. Dobnikar, DW Pearson, and NC} Steele. {SPRINGER COMPUTER SCIENCE}. Submitted. {300-303}. Abstract
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Oliveira, R., and R. Salcedo. "{Benchmark testing of simulated annealing, adaptive random search and genetic algorithms for the global optimization of bioprocesses}." {Adaptive and Natural Computing Algorithms}. Eds. B. {Ribeiro, RF Albrecht, A. Dobnikar, DW Pearson, and NC} Steele. {SPRINGER COMPUTER SCIENCE}. Submitted. {292-295}. Abstract
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Lopes Dias, Joao Miguel, Paulo Lemos, Luisa Serafim, Adrian Oehmen, Maria A. M. Reis, and Rui Oliveira. "{Development and implementation of a non-parametric/metabolic model in the process optimisation of PHA production by mixed microbial cultures}." {17TH EUROPEAN SYMPOSIUM ON COMPUTER AIDED PROCESS ENGINEERING}. Eds. V. {Plesu, and PS} Agachi. Vol. {24}. {Computer-Aided Chemical Engineering}, {24}. {Univ Bucharest; Univ Cluj Napoca}, Submitted. {995-1000}. Abstract
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Teixeira, A., A. Cunha, J. Clemente, P. M. Alves, M. J. T. Carrondo, and R. Oliveira. "{Dynamic modelling and optimisation of a mammalian cells process using hybrid grey-box systems}." {Adaptive and Natural Computing Algorithms}. Eds. B. {Ribeiro, RF Albrecht, A. Dobnikar, DW Pearson, and NC} Steele. {SPRINGER COMPUTER SCIENCE}. Submitted. {296-299}. Abstract
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