Exploration of the Key Proteins in the Normal-Adenoma-Carcinoma Sequence of Colorectal Cancer Evolution Using In-Depth Quantitative Proteomics

Figure 2

Enrichment analysis of proteomic profiles and DEPs in the N-A and A-C processes. (a) Gene set enrichment analysis (GSEA) showing that the biological process of alternative mRNA splicing (normalized enrichment score (NES) = 2.21, false discovery rate (FDR) < 0.01), regulation of mRNA processing (NES = 2.49, FDR < 0.01), ribosome biogenesis (NES = 2.48, FDR < 0.01), and spliceosome-related pathway (NES = 2.61, FDR < 0.01) were significantly enriched between AG and NG. (b) DEPs between AG and NG were mainly enriched in spliceosome-, RNA transport-, ribosome-, and chromosome-related pathways; the area of each small polygon tile represents a specific protein abundance ratio between AG and NG. (c) GSEA showing that the biological process of extracellular structure organization (NES = 2.97, FDR < 0.01) and the pathway of integrin cell surface interaction (NES = 2.77, FDR < 0.01), extracellular matrix (ECM) receptor interaction (NES = 2.55, FDR < 0.01), and N-glycan biosynthesis (NES = 2.42, FDR < 0.01) were significantly enriched between CG and AG. (d) DEPs between CG and AG were mainly enriched in cancer- and metabolism-related pathways; the area of each small polygon tile represents a specific protein abundance ratio between CG and AG.

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