On the identification of differentially-active transcription factors from ATAC-seq data
Fig 5
Characterizing the impacts of a TRAFTAC against NFkB after TNF-α activation in HEK cells.
A. Results of the ‘chromVAR(z)>limma’ analysis, highlighting the motifs with strongest changes between conditions and high absolute deviations. The two overlapping yellow circles highlight NFKB1 and NFKB2. B. Comparison of the per-motif p-values assigned by monaLisa (Simes p-value) and chromVAR, showing an agreement only on the strongest differences. C. Representative examples of motifs called as differentially-accessible by some method, showing side by side monaLisa’s enrichment scores across logFC bins, as well as the per-sample chromVAR z-scores and z-scores of the MLM t-values.