74 Chapter 3 Figure 4: Functional enrichment and interactome analyses of proteins upregulated or downregulated by LPS treatment in combination with KDAC inhibitors. Alveolar-like macrophages were incubated with 1 ug/ ml KDAC1/2/3 inhibitor MS275 or KDAC3 inhibitor RGFP966, or vehicle for 16 h and then stimulated with 10 ng/ ml LPS or vehicle for 4 h. (A) Enriched ontology pathways and gene network analysis of 83 >1.5-fold upregulated and 85 < 0.7-fold downregulated proteins in MS275+LPS compared to LPS treatment alone. (B) Enriched ontology pathways and gene network analysis of 7 >1.5-fold upregulated and 13 < 0.7-fold downregulated proteins in RGFP966+LPS compared to LPS treatment alone. A matched one-way ANOVA test was used to compare groups with a Bonferroni’s correction for multiple testing. (n=6). The website Metascape was used to perform the functional enrichment and interactome analyses (43).
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