Research Paper Volume 15, Issue 5 pp 1237—1256

Figure 2. Integrative omics analysis shows that senescent MSCs regulate endosomal pathways. Integrative Analysis (proteome and transcriptome) using Functional Enrichment (FunRich) GO Analysis and IPA showed unique and overlapping genes and pathways between pre- and senescent MSCs. Omics analysis showed that 138 overlapping genes were down regulated (green) and 70 overlapping genes were positively enriched (red) (A, B). The percentage of proteome (light) and transcriptome (dark) genes that are involved in shared biological pathways are listed. These pathways include processes related to cell cycle, extracellular matrix interactions, and vesicle transport (C, D). Network analysis of genes associated to cell cycle, assembly, organization, DNA replication, cell-cell signaling and interaction, and protein synthesis. Green represents downregulated, red represents upregulated expression, solid lines indicate direct interaction, and dotted lines indicate indirect interaction (E). Significant proteins associated to cell-cell signaling, such as endocytic processes (clathrin and caveolin), and respective localized areas (cytoplasm, extracellular space, and plasma membrane) were further reported (F, G). Senescent MSC expression was normalized to pre-senescent expression. Proteins were down- and upregulated; however, more proteins were enriched in senescent MSCs. Pre- and senescent MSC samples were processed (n = 4) and proteins were considered significant if p < 0.05.