Cross-analysis of STAT5 ChIP-seq and RNA-seq data on IL-7-stimulated TAIL7 cells. IL-7-deprived TAIL7 cells were cultured with or without IL-7 for 24 hours, and then collected for STAT5 ChIP-seq or RNA-seq enriched for mRNA. (A) Relative STAT5 peak enrichment/depletion in IL-7-stimulated cells. The relative enrichment of each STAT5 peak interval was calculated as described in “Methods.” Value of 0 equals random binding, negative values indicate STAT5 depletion, and positive values indicate STAT5 enrichment. (B) De novo motif discovery and identification on STAT5 ChiP-seq peaks from IL-7-stimulated cells. Enrichment cutoff at 1.5. The “Presence” column denotes the relative presence of the motif on all peaks. “Average motif/peak” denotes the number of times a motif appears on the peak. (C) Graph showing the distance, in base pairs (bp), of RUNX motifs to the STAT motif (horizontal axis) within each peak found in panel B, plotted against the frequency of each occurrence (vertical axis). (D) Venn diagram showing the overlap of genes found in the RNA-seq analysis (purple and yellow sets) and ChIP-seq analysis (green and red sets). Analysis was performed with genes with a STAT5a peak within 20 kb from the transcription start site. The genes with an IL-7-induced STAT5 peak whose expression was up- or downregulated by IL-7 are indicated on the left and right lists, respectively. (E) qPCR validation of ChIP-seq and RNA-seq data. IL-7-deprived TAIL7 cells cultured in medium, IL-7, or IL-7 plus S5i were collected for mRNA extraction and qPCR analysis at 24 hours (HRH2, CISH, OSM, and PIM1) or 48 hours (BCL6 and IL10). Fold change is normalized for the medium condition. Validation results are representative of at least 3 independent experiments. Results represent average of triplicates ± SEM.