Fig. 4: Detecting regulatory variant-set veQTL. | Nature Communications

Fig. 4: Detecting regulatory variant-set veQTL.

From: Using regulatory variants to detect gene–gene interactions identifies networks of genes linked to cell immortalisation

Fig. 4

An example regulatory variant-set-based veQTL identified at the SLFN5 locus is shown. a SLFN5 shows a strong correlation between its predicted and observed expression levels in the Lothian Birth Cohort suggesting this gene is under the strong control of nearby regulatory variants. b Plotting the residual after regressing out this cis-eQTL effect against predicted expression levels suggests that this gene also shows set-dependent variance in expression. c Correlating the gene’s predicted expression level to the square of the residuals from b confirms the presence of a veQTL at this locus. d–f the same as a–c but resulting from analysis of the 1000 Genomes data. P-values derived from Spearman’s rho test.

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