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In our model, Intracellular signaling pathways were represented by ordinary differential equations, while the intercellular communications and cellular population dynamics were modeled by stochastic differential equations.
Notably, both the classical and alternative pathways were represented, as shown by the upregulation of both C1 (classical pathway) as well as of Factors D, B and properdin (alternative pathway).
The top 10 KEGG pathway rankings using the two different parameters shared the categories, Pathways in Cancer, Cytokine-Cytokine Receptor Interaction, TGF-β Pathway, Wnt Pathway, and Hedgehog Signaling Pathway but other prominent cell signaling pathways were represented in one ranking or the other.
In contrast to GHD, no growth factor-related canonical pathways were represented by these genes.
Figure 2 shows which pathways were represented by the genes selected at each iteration.
The normalized expression values for the level 2 pathways were represented in a heatmap (Fig. 2).
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The complex pathways are represented by means of first-order decay and production terms, while branching ratios account for decay stoichiometry.
Currently, a small number of Arabidopsis thaliana, Oryza sativa and Zea mays pathways are represented on the Plants portal at WikiPathways.
The resulting pathways are represented by a directional graph in which the vertices stand for glycan species and the edges for glycan synthetic reactions with arrows pointing from substrates to products.
The observed terpenoid pathways are represented in a pie-chart.
Among these 48 genes, two major pathways are represented; cell cycle and stroma-associated.
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