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Fig. 7 | BMC Systems Biology

Fig. 7

From: DynamicME: dynamic simulation and refinement of integrated models of metabolism and protein expression

Fig. 7

DynamicME simulations with protein dynamics constraints. Mass fraction of protein groups (by metabolic subsystem as in [49]) for baseline (a) and inertia-constrained models (b). (c) Principal component analysis (PCA) of protein concentrations. Percent variance explained is shown in the axis labels. These values were computed using principal components computed from the baseline data. Time points (in hours) are shown next to the markers. (d) Select protein concentrations that differed markedly between models. (e) Extracellular metabolite concentrations simulated by the inertia-constrained model. (f) Select metabolic fluxes that differed markedly between models. GAPD: glyceraldehyde-3-phosphate dehydrogenase. GLCptspp: glucose transport by phosphotransferase system. TPI: triose-phosphate isomerase. FBA: fructose-biphosphate aldolase. ENO: enolase. ATPS4rpp: ATP synthase. NADH16pp: NADH dehydrogenase (ubiquinone). PDH: pyruvate dehydrogenase. PGI: glucose-6-phosphate isomerase. PGK: phosphoglycerate kinase. PFK: phosphofructokinase. NDPK1: nucleoside-diphosphate kinase (ATP:GDP)

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