Daniel Machado




Carreira

  • 2013 - 2015: Investigador Auxiliar Convidado, Universidade do Minho

Qualificações

  • 2012: Programa Doutoral em Bioengenharia, Universidade do Minho

Cargos e Responsabilidades

  • Desde  2013: Guest Editor at Frontiers in Bioengineering and Biotechnology

Honras e Prêmios

  • 2011: Best Poster Award at 5th Annual Workshop on the Business-Government Interface: Systems and Synthetic Biology, Universidade do Minho, Braga. Title: Exploring the gap between dynamic and constraint-based models of metabolism.

  • 2015 - 2016: Genome-scale modeling of allosteric regulation in E. coli
  • 2013 - 2015: Systems Biology
  • 2011 - 2012: SYNBIOBACTHER - Synthetic biology approaches to engineer "therapeutic" bacteria
  • 2008 - 2012: Novel modelling formalisms and simulation tools in Computational Biosystems

Projetos



Publicações Recentes

1
Stoichiometric representation of gene–protein–reaction associations leverages constraint-based analysis from reaction to gene-level phenotype prediction
  • PLoS Computational Biology, 12(10:e1005140), 1-24, 2016
2
Current state and challenges for dynamic metabolic modeling
  • Current Opinion in Microbiology, 33, 97-104, 2016
3
A comparative analysis of dynamic models of the central carbon metabolism of Escherichia coli
  • IFAC-PapersOnLine, 49(26), 270-276, 2016
4
  • Monk, Jonathan M.; Koza, Anna; Campodonico, Miguel A.; Machado, Daniel; Seoane, Jose Miguel; Palsson, Bernhard O.; Herrgård, Markus J.; Feist, Adam M.
Multi-omics quantification of species variation of Escherichia coli links molecular features with strain phenotypes
  • Cell Systems, 3(3), 238-251, 2016
5
Co-evolution of strain design methods based on flux balance and elementary mode analysis
  • Metabolic Engineering Communications, 2, 85-92, 2015
6
Modeling the contribution of allosteric regulation for flux control in the central carbon metabolism of E. coli
  • Frontiers in Bioengineering and Biotechnology, 3(154), 2015
7
A kinetic model for curcumin production in Escherichia coli
  • BioSystems, 125, 16-21, 2014
8
Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism
  • PLoS Computational Biology, 10(4), 2014
9
Random sampling of elementary flux modes in large-scale metabolic networks
  • Bioinformatics, 28(18), i515-i521, 2012
10
Exploring the gap between dynamic and constraint-based models of metabolism
  • Metabolic Engineering, 14(2), 112-119, 2012
11
Modeling formalisms in systems biology
  • AMB Express, 1(45), 1-14, 2011
12
Critical perspective on the consequences of the limited availability of kinetic data in metabolic dynamic modeling
  • IET Systems Biology, 5(3), 157-163, 2011
13
Hybrid dynamic modeling of E. coli central metabolic network combining Michaelis-Menten and approximate kinetic equations
  • BioSystems, 100(2), 150-157, 2010
14
A critical review on modelling formalisms and simulation tools in computational biosystems
  • Lecture Notes in Computer Science, 5518, 1063-1070, 2009
15
Large scale dynamic model reconstruction for the central carbon metabolism of Escherichia coli
  • Lecture Notes in Computer Science, No. 5518, 1079-1083, 2009
Listagem Completa de Publicações