Figure 6.
Increased HDL levels correlate with decreased CETP predicted expression
Direction of effect of the CETP gene on HDL levels. Using models trained in the MESA ALL cohort, we predicted gene expression in MESA (n = 3,856) genotype data comprising individuals not used in the model training with HDL phenotype data. Each point in the plot represents an individual. The linear regression fit is shown by the red line in each plot. The blue contour lines from two-dimensional kernel density estimation help visualize where the points are concentrated. Although KNN is shown here, the CETP gene HDL TWAS with KNN was not genome-wide significant (p = 0.016). The EN (p = 4.1 × 10−11), RF (p = 2.1 × 10−13), and SVR (3.9 × 10−8) models were genome-wide significant.