Additional file 10: of Induction of cell cycle arrest and inflammatory genes by combined treatment with epigenetic, differentiating, and chemotherapeutic agents in triple-negative breast cancer

Figure S3. ED induces interferon gamma genes associated with an increase in tumor lymphocytes. (A) Hierarchical supervised clustering of expression of interferon-gamma (IFN-G) genes against signatures of MDA-MB-231 cells following treatments. (B) qRT-PCR of (a) IFN-G in MDA-MB-231 and (b) CXCL10 and TRIM48 in SUM-159 cells treated with EAD singly and in combinations (doxorubicin 12.5 and 200 nM). (C) Unsupervised hierarchical cluster analysis of tumor-infiltrating lymphocyte genes [57], used in Fig. 3C to classify immune infiltration (low, medium, and high) in TCGA RNA-seq breast cancer patient dataset [58]. (D) Hierarchical supervised clustering of expression of IFN-γ genes against TCGA RNA-seq breast cancer patient dataset. Bars above identify different tumor subtypes (PAM50) and inflammatory cell content (immune, low–high) identified in (C). (E) One-way ANOVA showed significant difference across one or more groups (#1 low, #2 medium, #3 high immune cells) and post-hoc pairwise Student t test revealed statistically significant differences across all groups (p < 0.05). (F) IFN-γ score correlation with immune infiltration. *p < 0.05, **p < 0.01, ***p < 0.001. (PPTX 538 kb)