Fig. 3

Gene expression signatures differ based on CF disease and its phenotypes. a & b MA-plot of total RNA-Seq data with Log2-transformed fold change values (y-axis) plotted against Log2-transformed mean gene expression values (x-axis). Upregulated genes are represented in red, downregulated in blue, and those not meeting the threshold (P < 0.05, FDR < 0.1, > ± 2 FC) in grey (NS). One hundred and fifty-one genes were differentially expressed when comparing CF and HC (a). There were 285 genes differentially expressed based on CF phenotype (b). c & d PCA graph of differentially expressed genes. Each dot represents a study sample assigned to one of the experimental groups, which are highlighted in either blue or red. The three principal components (X, Y, and Z) explain 69% of the expression variance plotted for the 12 samples in CF compared to HC group (c), and 82% of the expression variance due to CF phenotype (d), respectively