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Fig. 3 | BMC Bioinformatics

Fig. 3

From: ChiMera: an easy to use pipeline for bacterial genome based metabolic network reconstruction, evaluation and visualization

Fig. 3

ChiMera results example for the model reconstruction of P. putida. A Schematic representation of initial protein sequence file required for ChiMera to perform reconstruction, model evaluation, and visualization. B SBML model representation. C Partial output of Flux Balance Analysis simulation for the GSMR. D Metabolic maps generated by Escher during ChiMera visualization module execution. Here we highlighted the TCA cycle. Blue reactions were detected in the model, the red ones indicate absence. E ChiMera enriched pathways result. Only the ten most frequently detected pathways are displayed. F Barplot of ChiMera single reactions knockout module. ChiMera was used to evaluate the impact of reaction knockout. The units are in g[CDW]/h

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