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The NETWORK component models the metabolic network using the constraint-based modeling framework [ 3].
The plotting of expression values onto the metabolic network using the RiceCyc OMICs Viewer tool confirmed that the cycling genes span most metabolic processes.
We built the base metabolic network using the KEGG genome annotation for C. beijerinckii.
One application is to find the regulatory architecture of the metabolic network using the underlying transcriptome.
The graph diffusion kernel explores the topology of the metabolic network using random walks that visit metabolites and enzymes.
The first step in building a GSM is to reconstruct the metabolic network using the annotated genome (genome-scale reconstruction, GSR).
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Figure 1 depicts the metabolic network used in this study.
Measures of carotenoid metabolic network used in the study.
The metabolic network used for this analysis (see the Section 2 for a description) contains 600 metabolites and 949 arcs.
A third reconstruction of a human liver-specific metabolic network used primarily proteomics data (Zhao et al. 2010a).
The metabolic network used for C-based metabolic flux analyses was derived from the metabolic model described in [ 22] for P. pastoris.
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