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In addition, this review shortly covers the reconstruction of metabolic networks using MS data.
A method is presented to identify flux controlling reactions in metabolic networks using experimentally determined flux distributions.
In perspective, this work might provide clues for constructing non-natural metabolic networks using multi-enzyme reactions or by degenerating metabolic reaction networks from the living cell.
However, there are important differences between our approach and studies that have focused on finding pathways within metabolic networks using specific enzyme and substrate names.
Despite these strengths, the reconstruction of metabolic networks using Pathway Tools also has some limitations.
This concept makes it possible to also study regulated metabolic networks using organization theory.
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After removing all these reactions, the E. coli and S. cerevisiae metabolic networks used in our analysis contain 737 and 632 reactions, respectively.
In order to minimize this, the metabolic networks used as reactions databases in this work concerned organisms closely related to A. nidulans, and thus the major part of the metabolic reactions present in this fungus were likely to be covered.
The plotting of expression values onto the metabolic network using the RiceCyc OMICs Viewer tool confirmed that the cycling genes span most metabolic processes.
The NETWORK component models the metabolic network using the constraint-based modeling framework [ 3].
We built the base metabolic network using the KEGG genome annotation for C. beijerinckii.
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