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

Figure 7

Identification of key TFs with global regulatory effect. (a, b) Rank-based enrichment analysis of TF binding motifs in footprints within peaks that were ranked based on differential accessibility using the function. The analysis was performed separately for the GM-CSF+/GM-CSF− and memory/naïve cell comparison ((a) and (b), respectively). NES: normalized enrichment score. (c, d) Average expression levels of identified key TFs for both cell comparisons are shown as . To indicate the relative expression level of these TFs (bars) in view of the spectrum of lowly and highly expressed genes, the scaled kernel density estimate is shown based on the distribution of the average expression of all genes. (e, f) Volcano plots show the differential expression (effect size vs. significance) of the TFs identified as key regulators in each of the cell type comparisons (GM-CSF+/GM-CSF− and memory/naïve cell comparison; (e) and (f)). Key TFs are indicated as black dots, and those which are DEGs are labeled with their gene symbol.

(a)

(b)

(c)

(d)

(e)

(f)