Rafael S. Costa

发表

Towards a genome-scale kinetic modeling of Escherichia coli metabolism

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2011 .

An approach towards genome-scale kinetic modelling : application to the Escherichia coli metabolism

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2011 .

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

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2009, IWANN.

Identifying IIR filter coefficients using particle swarm optimization with application to reconstruction of missing cardiovascular signals

Rafael S. Costa, João Miranda Lemos, J. M. Lemos, 2014, Eng. Appl. Artif. Intell..

Multi-level Dynamic Modeling in Biological Systems - Application of Hybrid Petri Nets to Network Simulation

Rafael S. Costa, Susana Vinga, Daniel Machado, 2012, BIOINFORMATICS.

KiMoSys: a web-based repository of experimental data for KInetic MOdels of biological SYStems

Rafael S. Costa, Susana Vinga, André Veríssimo, 2014, BMC Systems Biology.

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

Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha, 2009, IWANN.

Reconstruction of dynamic metabolic networks : challenges, limitations and alternative solutions

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2009 .

Exploring the Cellular Objective in Flux Balance Constraint-Based Models

Rafael S. Costa, Son Nguyen, Susana Vinga, 2014, CMSB.

Model reduction based on dynamic sensitivity analysis : a systems biology case of study

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2008 .

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

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2010, Biosyst..

Model Transformation of Metabolic Networks using a Petri Net Based Framework

Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha, 2010, ACSD/Petri Nets Workshops.

Implementation of a Specific Rate Controller in a Fed-Batch E. Coli Fermentation

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2008 .

Galacto-oligosaccharides production during lactose hydrolysis by free Aspergillus oryzae β-galactosidase and immobilized on magnetic polysiloxane-polyvinyl alcohol

Eugénio C. Ferreira, Isabel Rocha, Rafael S. Costa, 2009 .

Identification of switched ARX models via convex optimization and expectation maximization

Joao Xavier, João M. Lemos, Rafael S. Costa, 2015 .

Modeling formalisms in Systems Biology

Miguel Rocha, Isabel Rocha, Rafael S. Costa, 2011, AMB Express.

BacHBerry: BACterial Hosts for production of Bioactive phenolics from bERRY fruits

Rafael S. Costa, Morten H. H. Nørholm, L. Stougie, 2017, Phytochemistry Reviews.

Assessing Escherichia coli metabolism models and simulation approaches in phenotype predictions: Validation against experimental data

Rafael S. Costa, S. Vinga, R. Costa, 2018, Biotechnology progress.

Exploring the gap between dynamic and steady-state models of metabolism

Rafael S. Costa, C. D. Machado, B. Tidor, 2010 .

Dynamic Flux Balance Analysis for Modeling Lactococcus lactis Mannitol Production

Rafael S. Costa, A. Neves, S. Vinga, 2014 .

BacHBerry: BACterial Hosts for production of Bioactive phenolics from bERRY fruits

Rafael S. Costa, Morten H. H. Nørholm, L. Stougie, 2017, Phytochemistry Reviews.

An extended dynamic model of Lactococcus lactis metabolism for mannitol and 2,3-butanediol production.

Rafael S. Costa, A. Neves, S. Vinga, 2014, Molecular bioSystems.

Critical perspective on the consequences of the limited availability of kinetic data in metabolic dynamic modelling.

Rafael S. Costa, Isabel Rocha, Daniel Machado, 2011, IET systems biology.

Exploring the gap between dynamic and constraint-based models of metabolism.

Rafael S. Costa, B. Tidor, D. Machado, 2012, Metabolic engineering.

Characterisation of Cellulose Synthase Like F6 (CslF6) Mutants Shows Altered Carbon Metabolism in β-D-(1,3;1,4)-Glucan Deficient Grain in Brachypodium distachyon

Rafael S. Costa, Monika S. Doblin, M. Doblin, 2021, Frontiers in Plant Science.

Toward community standards and software for whole-cell modeling

Chris J. Myers, Daewon Lee, Anna Zhukova, 2016, IEEE Transactions on Biomedical Engineering.

Kinetic modeling of cell metabolism for microbial production.

Rafael S. Costa, S. Vinga, R. Costa, 2016, Journal of biotechnology.

Toward standards for tomorrow’s whole-cell models

Arne T. Bittig, Rafael S. Costa, Jonathan R. Karr, 2015 .

A general deep hybrid model for bioreactor systems: Combining first principles with deep neural networks

Rafael S. Costa, R. Costa, G. Striedner, 2022, Comput. Chem. Eng..

A general deep hybrid model for bioreactor systems: combining first Principles equations with deep neural networks

Rafael S. Costa, R. Costa, G. Striedner, 2022, bioRxiv.

BacHBerry: BACterial Hosts for production of Bioactive phenolics from bERRY fruits

Rafael S. Costa, Morten H. H. Nørholm, L. Stougie, 2017, Phytochemistry Reviews.