Profiling transcription factor activity dynamics using intronic reads in time-series transcriptome data
Fig 4
Decoding global transcriptional regulation during the early activation of Jurkat T cells by profiling intron-based TF activities.
(A) Schematic of our experimental design. Time-series RNA-seq data were acquired during early Jurkat T cell activation. Each time point has two replicates. (B) Hierarchical clustering uncovered two functionally and dynamically distinct TF modules. Clustering was performed based on the Pearson correlation between intron-based TFAs. Two TF modules are indicated by dashed boxes. Three most enriched GO biological process terms for each module are shown. Intron-based TFA dynamics after z-score normalization of each TF are shown on the right. Note that only TFs with non-zero expression values were included in the analysis (Materials and Methods), and TF symbols are ordered from top to bottom, then left to right. See also S5 Fig for analogous analyses using exon-based and total reads-based methods.