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Fig. 4 | BMC Biology

Fig. 4

From: Time-resolved transcriptome and proteome landscape of human regulatory T cell (Treg) differentiation reveals novel regulators of FOXP3

Fig. 4

Clusters of genes show the functional dynamics of gene expression during iTreg differentiation. Model-based cluster analysis of gene expression reveals that the transcriptional profiles are functionally super-organized in concordant modules with functional similarity and show the molecular footprint of T cell activation and iTreg polarization. All DEGs in iTreg + TGF-β or iTreg + TGF-β + ATRA + Rapa compared to Mock-stimulated cells were considered. In (a), the average gene expression of the 42 clusters is shown after rlog transformation (x-axis: time; y-axis: average rlog-transformed RNA-Seq counts), with a colored line corresponding to the treatment group as shown in the legend. Each cluster is connected with a line to the clusters correlated positively (red) or negatively (blue), after permutation analysis (Spearman, p < 0.01). In (b), a functional category is assigned to the same clusters after gene ontology and pathway enrichment analysis. Bottom: the corresponding color legend and representative genes are given

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