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Therefore, the S. aureus MRSA-252 gene association network structure fits well with further analysis based on module decomposition.
As explained in the introduction, for reaction models these invariants are used for flux analysis, variable simplification through conservation law extraction, module decomposition, etc.
Some have been used for module decomposition, like (I/O) T-invariants [ 4, 5], related to dynamical notions of elementary flux modes [ 6].
However, if the module decomposition scheme is appropriate, functional inferences from such granular descriptions should be equivalent to more detailed molecular forms.
As communities were defined on basis of module decomposition of the FC matrix, I X) here reflects the level of integration between functional domains of the brain system.
The use of Petri nets to manipulate Systems Biology models and make available a variety of tools is quite old, and recently analyses based on invariant computation for biological models have become more and more frequent, for instance in the context of module decomposition.
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Moreover, we can create independent modules promoting decomposition, and we can specify source artifacts promoting more abstraction levels.
A second type of decomposition of modules relates to cancellation of direct summands.
These transcription factors are important because not only do they link the gene regulation map with the protein-protein map as shown in Figure 2, but they also link different modules obtained from the decomposition of the map.
We address the problem of large-scale metabolic model visualization by combining meaningful decomposition into modules with automatic multi-level abstraction.
The calculation of ΔG° for each residue has been carried out using pairwise decomposition with mmpbsa.py module [ 40].
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