Eugénio C. Ferreira

39 papers B 3C 4Misc 2Journal 15Unranked 15

Year	Rank	Type	Title / Venue / Authors
2024	J	`jnl`	BioISO: An Objective-Oriented Application for Assisting the Curation of Genome-Scale Metabolic Models. IEEE ACM Trans. Comput. Biol. Bioinform. Fernando Cruz, João Capela, Eugénio C. Ferreira, Miguel Rocha, Oscar Dias
2019	J	`jnl`	Discrimination of Comput. Electron. Agric. Clara Sousa, Cristina Quintelas, Catarina Augusto, Eugénio C. Ferreira, Ricardo N. M. J. Páscoa
2019	J	`jnl`	SamPler - a novel method for selecting parameters for gene functional annotation routines. BMC Bioinform. Fernando Cruz, Davide Lagoa, João Mendes, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha, Oscar Dias
2017	J	`jnl`	Genome-Wide Semi-Automated Annotation of Transporter Systems. IEEE ACM Trans. Comput. Biol. Bioinform. Oscar Dias, Daniel Gomes, Paulo Vilaça, João G. R. Cardoso, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha
2014	J	`jnl`	Optimization of fed-batch fermentation processes with bio-inspired algorithms. Expert Syst. Appl. Miguel Rocha, Rui Mendes, Orlando Rocha, Isabel Rocha, Eugénio C. Ferreira
2013	—	`conf`	Image Analysis for Automatic Characterization of Polyhydroxyalcanoates Granules. ICIAR Daniela P. Mesquita, Gianluca Selvaggio, Jorge R. Cunha, Cristiano S. Leal, António Luís Amaral, Eugénio C. Ferreira
2012	J	`jnl`	Random sampling of elementary flux modes in large-scale metabolic networks. Bioinform. Daniel Machado, Zita Soons, Kiran Raosaheb Patil, Eugénio C. Ferreira, Isabel Rocha
2011	J	`jnl`	A Study of the Short and Long-term Regulation of E. coli Metabolic Pathways. J. Integr. Bioinform. Anália Lourenço, Sónia Carneiro, José P. Pinto, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha
2011	Misc	`conf`	A Systematic Modeling Approach to Elucidate the Triggering of the Stringent Response in Recombinant PACBB Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha
2011	J	`jnl`	Challenges in integrating Briefings Bioinform. Anália Lourenço, Sónia Carneiro, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha
2011	Misc	`conf`	Interpreting the Regulatory Interplay in PACBB Anália Lourenço, Sónia Carneiro, José P. Pinto, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha
2011	J	`jnl`	Semantic annotation of biological concepts interplaying microbial cellular responses. BMC Bioinform. Rafael Carreira, Sónia Carneiro, Rui Pereira, Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira, Anália Lourenço
2010	—	`conf`	Applying a Metabolic Footprinting Approach to Characterize the Impact of the Recombinant Protein Production in IWPACBB Sónia Carneiro, Silas Granato Villas-Bôas, Isabel Rocha, Eugénio C. Ferreira
2010	J	`jnl`	BioDR: Semantic indexing networks for biomedical document retrieval. Expert Syst. Appl. 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
2010	J	`jnl`	Hybrid dynamic modeling of Escherichia coli central metabolic network combining Michaelis-Menten and approximate kinetic equations. Biosyst. Rafael S. Costa, Daniel Machado, Isabel Rocha, Eugénio C. Ferreira
2010	—	`conf`	Model Transformation of Metabolic Networks using a Petri Net Based Framework. ACSD/Petri Nets Workshops Daniel Machado, Rafael S. Costa, Miguel Rocha, Isabel Rocha, Bruce Tidor, Eugénio C. Ferreira
2010	J	`jnl`	OptFlux: an open-source software platform for in silico metabolic engineering. BMC Syst. Biol. Isabel Rocha, Paulo Maia, Pedro Evangelista, Paulo Vilaça, Simão Soares, José P. Pinto, Jens Nielsen, Kiran Raosaheb Patil, Eugénio C. Ferreira, Miguel Rocha
2009	J	`jnl`	@Note: A workbench for Biomedical Text Mining. J. Biomed. Informatics Anália Lourenço, Rafael Carreira, Sónia Carneiro, Paulo Maia, Daniel Glez-Peña, Florentino Fdez-Riverola, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha
2009	—	`conf`	A Critical Review on Modelling Formalisms and Simulation Tools in Computational Biosystems. IWANN (2) Daniel Machado, Rafael S. Costa, Miguel Rocha, Isabel Rocha, Bruce Tidor, Eugénio C. Ferreira
2009	—	`conf`	A Software Tool for the Simulation and Optimization of Dynamic Metabolic Models. IWANN (2) Pedro Evangelista, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha
2009	—	`conf`	Biomedical Text Mining Applied to Document Retrieval and Semantic Indexing. IWANN (2) 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
2009	—	`conf`	Evolutionary Approaches for Strain Optimization Using Dynamic Models under a Metabolic Engineering Perspective. EvoBIO Pedro Evangelista, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha
2009	—	`conf`	Large Scale Dynamic Model Reconstruction for the Central Carbon Metabolism of Escherichia coli . IWANN (2) Rafael S. Costa, Daniel Machado, Isabel Rocha, Eugénio C. Ferreira
2008	C	`conf`	A framework for the development of Biomedical Text Mining software tools. BIBE Anália Lourenço, Rafael Carreira, Sónia Carneiro, Paulo Maia, Daniel Glez-Peña, Florentino Fdez-Riverola, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha
2008	C	`conf`	A framework for the integrated analysis of metabolic and regulatory networks. BIBE Rui Mendes, Anália Lourenço, Sónia Carneiro, Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira
2008	—	`conf`	Data Integration Issues in the Reconstruction of the Genome-Scale Metabolic Model of Zymomonas Mobillis. IWPACBB José P. Pinto, Oscar Dias, Anália Lourenço, Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha
2008	C	`conf`	Evaluating evolutionary multiobjective algorithms for the in silico optimization of mutant strains. BIBE Paulo Maia, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha
2008	J	`jnl`	Natural computation meta-heuristics for the in silico optimization of microbial strains. BMC Bioinform. Miguel Rocha, Paulo Maia, Rui Mendes, José P. Pinto, Eugénio C. Ferreira, Jens Nielsen, Kiran Raosaheb Patil, Isabel Rocha
2007	—	`conf`	Evaluating Evolutionary Algorithms and Differential Evolution for the Online Optimization of Fermentation Processes. EvoBIO Miguel Rocha, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira
2007	—	`conf`	Evaluating Simulated Annealing Algorithms in the Optimization of Bacterial Strains. EPIA Workshops Miguel Rocha, Rui Mendes, Paulo Maia, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira
2007	B	`conf`	Exact Fuzzy Observer for a Baker's Yeast Fed-Batch Fermentation Process. FUZZ-IEEE Enrique J. Herrera-López, Bernardino Castillo, Jesús Ramírez, Eugénio C. Ferreira
2007	C	`conf`	Optimization of Bacterial Strains with Variable-Sized Evolutionary Algorithms. CIBCB Miguel Rocha, José P. Pinto, Isabel Rocha, Eugénio C. Ferreira
2007	—	`conf`	Takagi-sugeno multiple-model controller for a continuous baking yeast fermentation process. ICINCO-ICSO Enrique J. Herrera-López, Bernardino Castillo, Jesús Ramírez, Eugénio C. Ferreira
2006	B	`conf`	A Comparison of Algorithms for the Optimization of Fermentation Processes. IEEE Congress on Evolutionary Computation Rui Mendes, Isabel Rocha, Eugénio C. Ferreira, Miguel Rocha
2006	—	`conf`	Image analysis methodology to study the evolution of chromium penetration in chromium tannage. CompIMAGE António Luís Amaral, Manuel Mota, Eugénio C. Ferreira, A. Crispim
2005	B	`conf`	A new representation in evolutionary algorithms for the optimization of bioprocesses. Congress on Evolutionary Computation Miguel Rocha, Isabel Rocha, Eugénio C. Ferreira
2005	—	`conf`	NEOS Server Usage in Wastewater Treatment Cost Minimization. ICCSA (4) Isabel A. Espírito-Santo, Edite M. G. P. Fernandes, M. Madalena Araújo, Eugénio C. Ferreira
2004	—	`conf`	Evolutionary Algorithms for Optimal Control in Fed-Batch Fermentation Processes. EvoWorkshops Miguel Rocha, José Neves, Isabel Rocha, Eugénio C. Ferreira
2001	J	`jnl`	Can spreadsheet solvers solve demanding optimization problems? Comput. Appl. Eng. Educ. Eugénio C. Ferreira, Romualdo Salcedo