Machado, Daniel

MEMOTE for standardized genome-scale metabolic model testing

Lieven, C., Beber, M. E., Olivier, B. G., Bergmann, F. T., Ataman, M., Babaei, P., Bartell, J. A., Blank, L. M., Chauhan, S., Correia, K., et al. (2020) · Nature Biotechnology

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 509

Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community

Blasche, S., Kim, Y., Mars, R. A. T., Machado, D., Maansson, M., Kafkia, E., Milanese, A., Zeller, G., Teusink, B., Nielsen, J., et al. (2021) · Nature Microbiology

Probiotics and Fermented FoodsGut microbiota and health

Cited by 328

Modeling formalisms in Systems Biology

Machado, D., Costa, R. S., Rocha, M., Ferreira, E. C., Tidor, B., & Rocha, I. (2011) · AMB Express

Gene Regulatory Network AnalysisBioinformatics and Genomic Networks

Cited by 189

Stoichiometric Representation of Gene–Protein–Reaction Associations Leverages Constraint-Based Analysis from Reaction to Gene-Level Phenotype Prediction

Machado, D., Herrgård, M. J., & Rocha, I. (2016) · PLOS Computational Biology

Microbial Metabolic Engineering and BioproductionGene Regulatory Network Analysis

Cited by 82