Figure 4.

Regulation of Gene Ontology (GO) terms and protein-protein interactions. (A) All quantified differentially expressed and detected proteins were ranked by their effect sizes and −log₁₀ P values prior to being subjected to gene set enrichment analysis (GSEA) against the M5 mouse collection of the Molecular Signature Database, which contains expression signatures of three root GO ontologies: biological processes (prefixed with “GOBP”), cellular components (prefixed with “GOCC”), and molecular functions (prefixed with “GOMF”). The top 20 enriched pathways are shown with upregulated (orange bubbles) and downregulated (blue bubbles) pathways listed on the y-axis while the x-axis represents the normalized enrichment scores. The top 50 upregulated (B) and top 50 downregulated (C) differentially expressed proteins were inputted into the STRING database to evaluate protein-protein interactions or associations. Interaction network maps were generated with a medium confidence (0.400) and the main interacting clusters observed were color highlighted.