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Metabolism admits a natural bipartite network representation where metabolites and the biochemical reactions they take part in are represented as two different classes of nodes, linked whenever one metabolite participates in one reaction.
The central aim is to survey the extent to which each metabolite participates in defining metabolic pools and whether some metabolites participate to an equal extent in spite of the selected kinetic parameters.
The number of reactions each metabolite participates in was summed.
Simply, the connectivity is the number of reactions that a metabolite participates in.
Then, a directed edge or arc will exist between a metabolite and a reaction if the metabolite participates in the reaction.
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This was done by comparing the signs of the stoichiometric coefficients of each metabolite participating in the reactions between the two columns representing the reaction pair in the stoichiometric matrix.
Following this rule, we constructed the metabolic network by linking enzymes, when the corresponding metabolite participated in fewer than 18 reactions and not in "Xenobiotics Biodegradation and Metabolism".
Examples of these precursors include oxaloacetate, a metabolite participating in the tricarboxylic acid cycle, which is used in the synthesis of amino acids such as asparagine, aspartate, lysine, and threonine [ 29, 42].
The latest version (15.4) of the Pathway Tools software allows the storage of compartmentalization information for any metabolite participating in a reaction via a recently added reaction frame slot called RXN-LOCATIONS.
Increased EDCFs-induced vasoconstriction, mediated presumably by cyclooxygenase (COX) metabolites, participates in impairment of endothelium-dependent vasorelaxation in both genetic models of arterial hypertension and age-induced vascular changes [ 5, 6, 10].
Similarly, pyruvate (pyr), 2 phosphoglycerate (2pg) and phosphoenolpyruvate (pep) represent the predominant metabolites participating in the 32nd metabolic pool library.
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