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. Author manuscript; available in PMC: 2013 Nov 21.
Published in final edited form as: Cell. 2012 Nov 21;151(5):981–993. doi: 10.1016/j.cell.2012.09.044

Figure 4. STAT4 and STAT1, but not T-bet, Are Critical for Active Enhancers of Th1 Cells.

Figure 4

(A) STAT1 and STAT4, but not T-bet, play major roles in generating the active enhancer landscape of Th1 cells. Globally, 60% of Th1-specific enhancers were STAT-dependent whereas 17% were T-bet-dependent. Each column represents the pattern of p300 binding in wild-type, Stat4−/−, Stat1−/−, or T-bet−/− cells centered on the Th1-specific p300-bound sites. Color-map corresponds to binding intensities where “black” represents no binding.

(B) STAT4-positively regulated genes are enriched with STAT4-dependent p300 binding sites. Using RNA-seq data in wildtype Th1 and Stat4-deficient cells, positively regulated genes by STAT4 were identified (>2-fold change). Accumulation of p300 binding at these genes in wildtype and STAT4-deficient cells was computed (+/− 20kbp). Boxplots show normalized gene expression levels in RPKM (left) and p300 binding in tag-per-million (right) at STAT4-dependent genes in wildtype and STAT4-deficient cells (wilcoxon rank-sum test).

(C) p300 binding at the extended loci of positively regulated genes by T-bet is not T-bet dependent. Using RNA-seq data in wildtype Th1 and T-bet-deficient cells, we selected positively regulated genes by T-bet (>2 fold-change). Boxplots show normalized gene expression levels in RPKM (left) and p300 binding in tag-per-million (right) at T-bet-dependent genes in wildtype and T-bet-deficient cells.