Figure 1.

Properties of emSeqs in the MPRA

(A) Histogram distribution of emSeq regulatory activity (log₂(FC)) in six EBV B cell replicates compared with four plasmid controls. Positive values represent increased regulatory activity and negative values represent decreased activity in EBV B cells relative to plasmid controls. Oligo count is plotted on the y axis.

(B) Volcano plot of emSeq effect sizes (−log₁₀(p_adj) from DESeq2) in EBV B cells relative to controls. Horizontal red line represents p_adj ≤ 0.05; vertical red lines (log₂(FC) ± 0.58) represent a 1.5 FC difference between the EBV B replicates and plasmid controls.

(C) Proportion of emSeqs within each variant type. Significant differences between the proportion of emSeqs within hQTLs and the other variant types are shown: ∗∗∗∗chi-square p < 0.0001.

(D) Boxplots of emSeq effect sizes (log₂(FC)) for each variant type. The x axis is sorted in descending order by mean log₂(FC) of the variant types. Significant differences in the means of hQTL effect sizes compared with the other variant types are shown: ∗t test p < 0.05; ∗∗p < 0.01, ∗∗∗p < 0.001, ∗∗∗∗p <0.0001.

(E and F) Significant TFs enriched in all emSeqs (E) and hQTL emSeqs (F). TF rank and HOMER −log₁₀(p) are plotted. FDR≤0.05 effects are highlighted in red. Top TFs are indicated.