publicações selecionadas
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artigo académico
- CRISPRi screens reveal genes modulating yeast growth in lignocellulose hydrolysate. Biotechnology for Biofuels. 2021
- Model-guided development of an evolutionarily stable yeast chassis. Molecular Systems Biology. 2021
- Yeast metabolic chassis designs for diverse biotechnological products. Acta Cytologica. 2016
- Identification of Metabolic Engineering Targets through Analysis of Optimal and Sub-Optimal Routes 2013
- Random sampling of elementary flux modes in large-scale metabolic networks. Bioinformatics. 2012
- OptFlux: An open-source software platform for in silico metabolic engineering. BMC Systems Biology. 2010
- Natural computation meta-heuristics for the in silico optimization of microbial strains. BMC Bioinformatics. 2008
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artigo de conferência
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documento
- FROG analysis ensures the reproducibility of genome scale metabolic models 2024
- Ecological modelling approaches for predicting emergent properties in microbial communities. Nature Ecology & Evolution. 2022
- Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology. 2020
- MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology. 2020
- Metabolic models and gene essentiality data reveal essential and conserved metabolism in prokaryotes. PLoS Computational Biology. 2018
- Yeast chassis design for dicarboxylic acids production 2018
- Integration of biomass formulations of genome-scale metabolic models with experimental data reveals universally essential cofactors in prokaryotes. Metabolic Engineering. 2017
- Rational modular design of yeast strains towards overproduction of industrially relevant products 2016
- Assessing the reliability of genome-scale metabolic models in the prediction of gene knockout phenotypes 2015
- Universally essential cofactors in prokaryotes 2015
- In silico design of Saccharomyces cerevisiae strains for production of industrial compounds derived from TCA cycle 2015
- Integration of biomass functions of genome-scale metabolic models with experimental data reveals universally essential cofactors in prokaryotes 2015
- In silico modular design of Saccharomyces cerevisiae strains for enhanced production of organic acids 2015
- Standardization and comparison of the biomass objective functions of manually curated genome-scale metabolic models 2014
- Systems biology perspectives on minimal and simpler cells. Microbiology and Molecular Biology Reviews. 2014
- Identification of metabolic engineering targets through pathway analysis 2011
- Towards a biologically relevant description of phenotypes based on pathway analysis 2011
- Metabolic network topology reveals transcriptional regulatory signatures of type 2 diabetes. PLoS Computational Biology. 2010
- Heuristics for simulated annealing search of active sub-networks in bio-molecular interaction networks 2009
- OptFlux: a software for metabolic engineering 2009
- An improved evolutionary algorithm-based framework for identifying in silico metabolic engineering targets 2006
- Evolutionary programming as a platform for in silico metabolic engineering. BMC Bioinformatics. 2005