Supplementary Figure 7: The effects of rs1354034 of LVs 44 and 133 are independent.
From: Pathway-level information extractor (PLIER) for gene expression data
We plot the relationship between LVs and minor allele counts of rs1354034 using raw LV estimates (first row) or corrected estimates, using residuals from the linear regression fit on the other LV (second row). We find that while the estimates for these two LVs are correlated, the eQTL effects are substantially improved when regressing one LV on the other and using the residuals for eQTL testing. Statistics were computed using Spearman rank correlation across 922 subjects with a two-sided test and uncorrected p-values are reported. Boxplots display the 25th, 50th and 75th percentiles, with whiskers extending to 1.5x the interquartile range or the range of the data whichever is smallest.
