Figure 6

Workflow of the centrality-based pathway enrichment analysis. A typical figure on the left illustrates the corresponding step on the right side. The essential steps are: 1) Obtain a differentially expressed gene list. This list can be compiled using a variety of methods and sources; 2) Map genes to nodes; 3) Select several centrality measurements and calculate their values; 4) Weighting nodes by centrality, calculate the pathway-level score; 5) In simulations, repeat steps 1 to 4 for a user-specified number of cycles (1000 cycles were used in the current study) and generate a null distribution of pathway-level scores; 6) Calculate p-values and display the results summary.