Eugénio C. Ferreira

According to our database, Eugénio C. Ferreira authored at least 40 papers between 2001 and 2024.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2024

BioISO: An Objective-Oriented Application for Assisting the Curation of Genome-Scale Metabolic Models.

Fernando Cruz, João Capela, Eugénio C. Ferreira, Miguel Rocha, Oscar Días

IEEE ACM Trans. Comput. Biol. Bioinform., 2024

2021

A kinetic model of the central carbon metabolism for acrylic acid production in Escherichia coli.

Alexandre Oliveira, Joana Rodrigues, Eugénio Campos Ferreira, Lígia R. Rodrigues, Oscar Días

PLoS Comput. Biol., 2021

2019

Discrimination of <i>Camellia japonica</i> cultivars and chemometric models: An interlaboratory study.

Clara Sousa, Cristina Quintelas, Catarina Augusto, Eugénio C. Ferreira, Ricardo N. M. J. Páscoa

Comput. Electron. Agric., 2019

SamPler - a novel method for selecting parameters for gene functional annotation routines.

Fernando Cruz, Davide Lagoa, João Mendes, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha, Oscar Días

BMC Bioinform., 2019

2017

Genome-Wide Semi-Automated Annotation of Transporter Systems.

Oscar Días, Daniel Gomes, Paulo Vilaça, João G. R. Cardoso, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha

IEEE ACM Trans. Comput. Biol. Bioinform., 2017

2014

Optimization of fed-batch fermentation processes with bio-inspired algorithms.

Miguel Rocha, Rui Mendes, Orlando Rocha, Isabel Rocha, Eugénio C. Ferreira

Expert Syst. Appl., 2014

2013

Image Analysis for Automatic Characterization of Polyhydroxyalcanoates Granules.

Daniela P. Mesquita, Gianluca Selvaggio, Jorge R. Cunha, Cristiano S. Leal, António Luís Amaral, Eugénio C. Ferreira

Proceedings of the Image Analysis and Recognition - 10th International Conference, 2013

2012

Random sampling of elementary flux modes in large-scale metabolic networks.

Daniel Machado, Zita Soons, Kiran Raosaheb Patil, Eugénio C. Ferreira, Isabel Rocha

Bioinform., 2012

2011

A Study of the Short and Long-term Regulation of E. coli Metabolic Pathways.

Anália Lourenço, Sónia Carneiro, José P. Pinto, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha

J. Integr. Bioinform., 2011

Semantic annotation of biological concepts interplaying microbial cellular responses.

Rafael Carreira, Sónia Carneiro, Rui Pereira, Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira, Anália Lourenço

BMC Bioinform., 2011

Challenges in integrating <i>Escherichia coli</i> molecular biology data.

Anália Lourenço, Sónia Carneiro, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha

Briefings Bioinform., 2011

Interpreting the Regulatory Interplay in <i>E. coli</i> Metabolic Pathways.

Anália Lourenço, Sónia Carneiro, José P. Pinto, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha

Proceedings of the 5th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2011

A Systematic Modeling Approach to Elucidate the Triggering of the Stringent Response in Recombinant <i>E. coli</i> Systems.

Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha

Proceedings of the 5th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2011

2010

BioDR: Semantic indexing networks for biomedical document retrieval.

Anália Lourenço, Rafael Carreira, Daniel Glez-Peña, José Ramón Méndez, Sónia Carneiro, Luis Mateus Rocha, Fernando Díaz, Eugénio C. Ferreira, Isabel Rocha, Florentino Fdez-Riverola, Miguel Rocha

Expert Syst. Appl., 2010

OptFlux: an open-source software platform for in silico metabolic engineering.

Isabel Rocha, Paulo Maia, Pedro Evangelista, Paulo Vilaça, Simão Soares, José P. Pinto, Jens Nielsen, Kiran Raosaheb Patil, Eugénio C. Ferreira, Miguel Rocha

BMC Syst. Biol., 2010

Hybrid dynamic modeling of Escherichia coli central metabolic network combining Michaelis-Menten and approximate kinetic equations.

Rafael S. Costa, Daniel Machado, Isabel Rocha, Eugénio C. Ferreira

Biosyst., 2010

Applying a Metabolic Footprinting Approach to Characterize the Impact of the Recombinant Protein Production in <i>Escherichia coli</i>.

Sónia Carneiro, Silas Granato Villas-Bôas, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the Advances in Bioinformatics, 2010

Model Transformation of Metabolic Networks using a Petri Net Based Framework.

Daniel Machado, Rafael S. Costa, Miguel Rocha, Isabel Rocha, Bruce Tidor, Eugénio C. Ferreira

Proceedings of the Workshops of the 31st International Conference on Application and Theory of Petri Nets and Other Models of Concurrency (PETRI NETS 2010) and of the 10th International Conference on Application of Concurrency to System Design (ACSD 2010), 2010

2009

@Note: A workbench for Biomedical Text Mining.

Anália Lourenço, Rafael Carreira, Sónia Carneiro, Paulo Maia, Daniel Glez-Peña, Florentino Fdez-Riverola, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha

J. Biomed. Informatics, 2009

A Critical Review on Modelling Formalisms and Simulation Tools in Computational Biosystems.

Daniel Machado, Rafael S. Costa, Miguel Rocha, Isabel Rocha, Bruce Tidor, Eugénio C. Ferreira

Proceedings of the Distributed Computing, 2009

Biomedical Text Mining Applied to Document Retrieval and Semantic Indexing.

Anália Lourenço, Sónia Carneiro, Eugénio C. Ferreira, Rafael Carreira, Luis M. Rocha, Daniel Glez-Peña, José Ramón Méndez, Florentino Fdez-Riverola, Fernando Díaz, Isabel Rocha, Miguel Rocha

Proceedings of the Distributed Computing, 2009

A Software Tool for the Simulation and Optimization of Dynamic Metabolic Models.

Pedro Evangelista, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha

Proceedings of the Distributed Computing, 2009

Large Scale Dynamic Model Reconstruction for the Central Carbon Metabolism of Escherichia coli .

Rafael S. Costa, Daniel Machado, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the Distributed Computing, 2009

Evolutionary Approaches for Strain Optimization Using Dynamic Models under a Metabolic Engineering Perspective.

Pedro Evangelista, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha

Proceedings of the Evolutionary Computation, 2009

2008

Natural computation meta-heuristics for the in silico optimization of microbial strains.

Miguel Rocha, Paulo Maia, Rui Mendes, José P. Pinto, Eugénio C. Ferreira, Jens Nielsen, Kiran Raosaheb Patil, Isabel Rocha

BMC Bioinform., 2008

Data Integration Issues in the Reconstruction of the Genome-Scale Metabolic Model of Zymomonas Mobillis.

José P. Pinto, Oscar Días, Anália Lourenço, Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha

Proceedings of the 2nd International Workshop on Practical Applications of Computational Biology and Bioinformatics, 2008

A framework for the integrated analysis of metabolic and regulatory networks.

Rui Mendes, Anália Lourenço, Sónia Carneiro, Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the 8th IEEE International Conference on Bioinformatics and Bioengineering, 2008

Evaluating evolutionary multiobjective algorithms for the in silico optimization of mutant strains.

Paulo Maia, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha

Proceedings of the 8th IEEE International Conference on Bioinformatics and Bioengineering, 2008

A framework for the development of Biomedical Text Mining software tools.

Anália Lourenço, Rafael Carreira, Sónia Carneiro, Paulo Maia, Daniel Glez-Peña, Florentino Fdez-Riverola, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha

Proceedings of the 8th IEEE International Conference on Bioinformatics and Bioengineering, 2008

2007

Takagi-sugeno multiple-model controller for a continuous baking yeast fermentation process.

Enrique J. Herrera-López, Bernardino Castillo, Jesús Ramírez, Eugénio C. Ferreira

Proceedings of the ICINCO 2007, 2007

Exact Fuzzy Observer for a Baker's Yeast Fed-Batch Fermentation Process.

Enrique J. Herrera-López, Bernardino Castillo, Jesús Ramírez, Eugénio C. Ferreira

Proceedings of the FUZZ-IEEE 2007, 2007

Evaluating Evolutionary Algorithms and Differential Evolution for the Online Optimization of Fermentation Processes.

Miguel Rocha, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the Evolutionary Computation, 2007

Evaluating Simulated Annealing Algorithms in the Optimization of Bacterial Strains.

Miguel Rocha, Rui Mendes, Paulo Maia, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the Progress in Artificial Intelligence, 2007

Optimization of Bacterial Strains with Variable-Sized Evolutionary Algorithms.

Miguel Rocha, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the 2007 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2007

2006

Image analysis methodology to study the evolution of chromium penetration in chromium tannage.

António Luís Amaral, Manuel Mota, Eugénio C. Ferreira, A. Crispim

Proceedings of the Computational Modeling of Objects Represented in Images-Fundamentals, 2006

A Comparison of Algorithms for the Optimization of Fermentation Processes.

Rui Mendes, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha

Proceedings of the IEEE International Conference on Evolutionary Computation, 2006

2005

NEOS Server Usage in Wastewater Treatment Cost Minimization.

Isabel A. Espírito-Santo, Edite M. G. P. Fernandes, M. Madalena Araújo, Eugénio C. Ferreira

Proceedings of the Computational Science and Its Applications, 2005

A new representation in evolutionary algorithms for the optimization of bioprocesses.

Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the IEEE Congress on Evolutionary Computation, 2005

2004

Evolutionary Algorithms for Optimal Control in Fed-Batch Fermentation Processes.

Miguel Rocha, José Neves, Isabel Rocha, Eugénio C. Ferreira

Proceedings of the Applications of Evolutionary Computing, 2004

2001

Can spreadsheet solvers solve demanding optimization problems?

Eugénio C. Ferreira, Romualdo Salcedo

Comput. Appl. Eng. Educ., 2001