Fig. 2

Validation of the proposed DAR-ChIPEA approach to predict TF-driven MoAs of in vitro chemical perturbation. a Schematic diagram for TF enrichment analyses using in vitro chemical perturbation data sets. DEGs or DARs upon chemical perturbation were detected using data from RNA-Seq or ATAC-Seq, respectively, followed by enrichment analyses to profile TF binding. Methods used for TF enrichment analysis are shown in blue; the proposed method (DAR-ChIPEA) is highlighted in bold. b Ranking plot of maximum enrichment scores (–log₁₀Q value) for each dosing condition obtained using the DAR-ChIPEA and DEG-ChIPEA methods. c, d Distribution of AUROC (c) and AUPR (d) scores for each chemical–TF–disorder triadic association predicted using DEG-MotifEA, DAR-MotifEA, DEG-ChIPEA, and DAR-ChIPEA. Orange dots represent mean scores; global scores are noted below the plots. Differences between the methods are presented as Q values (two-tailed Wilcoxon rank-sum test) above the bee swarm plots