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. 2011 Feb 2;6(2):e16605. doi: 10.1371/journal.pone.0016605

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Petter Holme.

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

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In A we see how the two substrates and one product (circles) of a reaction (triangle) gets reduced to a substance graph. An arrow going into a reaction marks the substrate, an arrow going out marks the product. Panel B illustrates a reaction system obtained with the method of the manuscript. The parameter values for this reaction-system example are , , , and . The algorithm proceeds by assembling reactions and metabolites in disjoint clusters (the three larger clusters of distinct colors). Then we add a fraction of metabolites and reactions that can connect to any parts of the system. The larger this fraction of global reactions is, the lower is the network modularity of the projected network.

Inline graphic — In A we see how the two substrates and one product (circles) of a reaction (triangle) gets reduced to a substance graph. An arrow going into a reaction marks the substrate, an arrow going out marks the product. Panel B illustrates a reaction system obtained with the method of the manuscript. The parameter values for this reaction-system example are , , , and . The algorithm proceeds by assembling reactions and metabolites in disjoint clusters (the three larger clusters of distinct colors). Then we add a fraction of metabolites and reactions that can connect to any parts of the system. The larger this fraction of global reactions is, the lower is the network modularity of the projected network.