Gene Regulatory Network of Human GM-CSF-Secreting T Helper Cells

Figure 4

Expression profile and DNA accessibility signatures of human GM-CSF-positive CD4 T cells. (a) Differentially accessible DNA regions (DARs) in GM-CSF-positive versus GM-CSF-negative CD4 T cells are plotted as a heat map showing their accessibility in all the five cell populations studied. CQN normalized is represented by the color scale, indicating accessibility (blue: low, red: high). Data were row scaled and clustered (Euclidean distance, complete linkage clustering). (b) Differentially expressed genes (DEGs) in GM-CSF-positive versus GM-CSF-negative CD4 T cells are plotted as a heat map showing their expression in all the five cell populations studied. Gene expression is displayed as with blue indicating low and red indicating high expression according to the color scale. Data were row scaled and clustered (Euclidean distance, complete linkage clustering). (c) The mean of of GM-CSF+/GM-CSF− cell populations using the median intensity values from CyTOF measurements are shown, using CD4 T cell-gated PBMC data from Wong et al. [64] and designated as “CyTOF” (grey bars). For the genes corresponding to the proteins measured in CyTOF, the of GM-CSF+/GM-CSF− cell populations from the RNA-seq data of this study is plotted and labeled as “RNA” (red).

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