Fig. 2: Two-step inference analysis to determine whether relevant molecular processes were identified in CARNIVAL. | npj Systems Biology and Applications

Fig. 2: Two-step inference analysis to determine whether relevant molecular processes were identified in CARNIVAL.

From: From expression footprints to causal pathways: contextualizing large signaling networks with CARNIVAL

Fig. 2

First, dysregulated pathways were inferred by over-representation of the nodes in CARNIVAL solution networks based on the KEGG pathway sets in MSigDB. In the second step, an enrichment analysis was performed on the identified dysregulated pathways using stimulus specific pathways as prior set. The distributions of p-values from multiple statistical tests are reported as final result. A significant enrichment of the attributed pathways in the direction that the target protein is perturbed is expected

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