Eugénio C. Ferreira - researchr alias

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Viewing Publication 1 - 38 from 38

2024

BioISO: An Objective-Oriented Application for Assisting the Curation of Genome-Scale Metabolic ModelsFernando Cruz, João Capela, Eugénio C. Ferreira, Miguel Rocha 0001, Oscar Días. tcbb, 21(2):215-226, March - April 2024. [doi]

2019

SamPler - a novel method for selecting parameters for gene functional annotation routinesFernando Cruz, Davide Lagoa, João Mendes, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha, Oscar Días. bmcbi, 20(1), 2019. [doi]

Camellia japonica cultivars and chemometric models: An interlaboratory studyClara Sousa, Cristina Quintelas, Catarina Augusto, Eugénio C. Ferreira, Ricardo N. M. J. Páscoa. cea, 159:28-33, 2019. [doi]

2017

Genome-Wide Semi-Automated Annotation of Transporter SystemsOscar Días, Daniel Gomes, Paulo Vilaça, João Cardoso, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha. tcbb, 14(2):443-456, 2017. [doi]

2014

Optimization of fed-batch fermentation processes with bio-inspired algorithmsMiguel Rocha, Rui Mendes, Orlando Rocha, Isabel Rocha, Eugénio C. Ferreira. eswa, 41(5):2186-2195, 2014. [doi]

2013

Image Analysis for Automatic Characterization of Polyhydroxyalcanoates GranulesDaniela P. Mesquita, Gianluca Selvaggio, Jorge R. Cunha, Cristiano S. Leal, A. Luís Amaral, Eugénio C. Ferreira. iciar 2013: 790-797 [doi]

2012

Random sampling of elementary flux modes in large-scale metabolic networksDaniel Machado, Zita Soons, Kiran Raosaheb Patil, Eugénio C. Ferreira, Isabel Rocha. bioinformatics, 28(18):515-521, 2012. [doi]

2011

E. coli SystemsSónia Carneiro, Eugénio C. Ferreira, Isabel Rocha. pacbb 2011: 313-320 [doi]

Semantic annotation of biological concepts interplaying microbial cellular responsesRafael Carreira, Sónia Carneiro, Rui Pereira, Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira, Anália Lourenço. bmcbi, 12:460, 2011. [doi]

A Study of the Short and Long-term Regulation of E. coli Metabolic PathwaysAnália Lourenço, Sónia Carneiro, José P. Pinto, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha. jib, 8(3), 2011. [doi]

Challenges in integrating ::::Escherichia coli:::: molecular biology dataAnália Lourenço, Sónia Carneiro, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha. bib, 12(2):91-103, 2011. [doi]

E. coli Metabolic PathwaysAnália Lourenço, Sónia Carneiro, José P. Pinto, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha. pacbb 2011: 303-312 [doi]

2010

Applying a Metabolic Footprinting Approach to Characterize the Impact of the Recombinant Protein Production in ::::Escherichia coli::::Sónia Carneiro, Silas Granato Villas-Bôas, Isabel Rocha, Eugénio C. Ferreira. isami 2010: 193-200 [doi]

Hybrid dynamic modeling of Escherichia coli central metabolic network combining Michaelis-Menten and approximate kinetic equationsRafael S. Costa, Daniel Machado, Isabel Rocha, Eugénio C. Ferreira. biosystems, 100(2):150-157, 2010. [doi]

BioDR: Semantic indexing networks for biomedical document retrievalAnália Lourenço, Rafael Carreira, Daniel Glez-Peña, José Ramon Méndez, Sónia Carneiro, Luis Mateus Rocha, Fernando Díaz, Eugénio C. Ferreira, Isabel Rocha, Florentino Fdez-Riverola, Miguel Rocha. eswa, 37(4):3444-3453, 2010. [doi]

Model Transformation of Metabolic Networks using a Petri Net Based FrameworkDaniel Machado, Rafael S. Costa, Miguel Rocha, Isabel Rocha, Bruce Tidor, Eugénio C. Ferreira. acsd 2010: 103-117 [doi]

OptFlux: an open-source software platform for in silico metabolic engineeringIsabel Rocha, Paulo Maia, Pedro Evangelista, Paulo Vilaça, Simão Soares, José P. Pinto, Jens Nielsen, Kiran Raosaheb Patil, Eugénio C. Ferreira, Miguel Rocha. bmcsb, 4:45, 2010. [doi]

2009

Large Scale Dynamic Model Reconstruction for the Central Carbon Metabolism of Escherichia coli Rafael S. Costa, Daniel Machado, Isabel Rocha, Eugénio C. Ferreira. iwann 2009: 1079-1083 [doi]

A Software Tool for the Simulation and Optimization of Dynamic Metabolic ModelsPedro Evangelista, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha. iwann 2009: 1071-1078 [doi]

Evolutionary Approaches for Strain Optimization Using Dynamic Models under a Metabolic Engineering PerspectivePedro Evangelista, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha. evoW 2009: 140-151 [doi]

Biomedical Text Mining Applied to Document Retrieval and Semantic IndexingAnália Lourenço, Sónia Carneiro, Eugénio C. Ferreira, Rafael Carreira, Luis Mateus Rocha, Daniel Glez-Peña, José Ramon Méndez, Florentino Fdez-Riverola, Fernando Díaz, Isabel Rocha, Miguel Rocha. iwann 2009: 954-963 [doi]

A Critical Review on Modelling Formalisms and Simulation Tools in Computational BiosystemsDaniel Machado, Rafael S. Costa, Miguel Rocha, Isabel Rocha, Bruce Tidor, Eugénio C. Ferreira. iwann 2009: 1063-1070 [doi]

2008

A framework for the development of Biomedical Text Mining software toolsAnália Lourenço, Rafael Carreira, Sónia Carneiro, Paulo Maia, D. Glez-Pea, Florentino Fdez-Riverola, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha. bibe 2008: 1-6 [doi]

Evaluating evolutionary multiobjective algorithms for the in silico optimization of mutant strainsPaulo Maia, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha. bibe 2008: 1-6 [doi]

A framework for the integrated analysis of metabolic and regulatory networksRui Mendes, Anália Lourenço, Sónia Carneiro, Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira. bibe 2008: 1-6 [doi]

Data Integration Issues in the Reconstruction of the Genome-Scale Metabolic Model of Zymomonas MobillisJosé P. Pinto, Oscar Días, Anália Lourenço, Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha. iwpacbb 2009: 92-101 [doi]

Natural computation meta-heuristics for the in silico optimization of microbial strainsMiguel Rocha, Paulo Maia, Rui Mendes, José P. Pinto, Eugénio C. Ferreira, Jens Nielsen, Kiran Raosaheb Patil, Isabel Rocha. bmcbi, 9, 2008. [doi]

2007

Takagi-sugeno multiple-model controller for a continuous baking yeast fermentation processEnrique Herrera, Bernardino Castillo, Jesús Ramírez, Eugénio C. Ferreira. icinco 2007: 436-439

Exact Fuzzy Observer for a Baker s Yeast Fed-Batch Fermentation ProcessEnrique Herrera, Bernardino Castillo, Jesús Ramírez, Eugénio C. Ferreira. fuzzIEEE 2007: 1-6 [doi]

Evaluating Evolutionary Algorithms and Differential Evolution for the Online Optimization of Fermentation ProcessesMiguel Rocha, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira. evoW 2007: 236-246 [doi]

Optimization of Bacterial Strains with Variable-Sized Evolutionary AlgorithmsMiguel Rocha, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira. cibcb 2007: 331-337 [doi]

Evaluating Simulated Annealing Algorithms in the Optimization of Bacterial StrainsMiguel Rocha, Rui Mendes, Paulo Maia, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira. epia 2007: 473-484 [doi]

2006

Image analysis methodology to study the evolution of chromium penetration in chromium tannageAntónio Luís Amaral, Manuel Mota, Eugénio C. Ferreira, A. Crispim. compimage 2007: 53-56

A Comparison of Algorithms for the Optimization of Fermentation ProcessesRui Mendes, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha. cec 2006: 2018-2025 [doi]

2005

NEOS Server Usage in Wastewater Treatment Cost MinimizationIsabel A. Espírito-Santo, Edite M. G. P. Fernandes, M. Madalena Araújo, Eugénio C. Ferreira. iccsa 2005: 632-641 [doi]

A new representation in evolutionary algorithms for the optimization of bioprocessesMiguel Rocha, Isabel Rocha, Eugénio C. Ferreira. cec 2005: 484-490 [doi]

2004

Evolutionary Algorithms for Optimal Control in Fed-Batch Fermentation ProcessesMiguel Rocha, José Neves, Isabel Rocha, Eugénio C. Ferreira. evoW 2004: 84-93 [doi]

2001

Can spreadsheet solvers solve demanding optimization problems?Eugénio C. Ferreira, Romualdo Salcedo. caee, 9(1):49-56, 2001. [doi]

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