Figure 1.
Screenshot of the esyN Model-building tool.
The left panel is the menu for the network building tool, with options e.g saving, uploading and exporting projects. The central blue panel is the window in which the network is displayed, in this case a model. This window is used for node and edge creation and selection. The right panel contains tools for editing individual nodes and edges. The lower yellow panel displays options to create parent-child relationships for the selected node. The lower right panel is the interface to the supported InterMine databases, allowing interaction data to be automatically retrieved for the selected node. The page layout is identical for the Graphs tool, which the exception of the node hierarchy panel (yellow), which is absent for graphs.
Figure 2.
Schematic representation of Kinase-Substrate interaction in a graph (left) and Petri Net (right).
Additional nodes and edges are required to represent the process in the Petri Net framework.