Organization of Excitable Dynamics in Hierarchical Biological Networks
Figure 2
Construction of a color-coded topological reference based on the TM of a network (Top), and formation of a dynamic clustering tree on the basis of the dynamic model simulation (Bottom).
(Top) The distance relations between all nodes are converted into a distance matrix L. (The color label encodes the distances between pairs of nodes.) The matrix L is then translated into a topological reference tree via UPGMA clustering (see Methods). The node indices in the graph correspond to the ones in the tree, the circles in the graph representation denote the modules found in the cluster tree after assigning a threshold (dotted line) which separates the downstream branches. Next, color labels are assigned (TM reference). (Bottom) The model produces a space-time pattern of excitations (white lines) which is then converted into a correlation matrix C. (The color labels encode the number of simultaneous excitations.) The matrix C is translated into a clustering tree (from the excitation patterns). The color labels of the leaves are copied from the TM reference.