Fig. 3

Differential transcriptome analysis reveals regulation of a core subset of genes relevant to airway biology. Statistical tests were performed comparing to scrambled D-siRNA control: all significantly deregulated genes had FDR < 0.05. a Venn diagrams of significantly deregulated genes at 48 h in the indicated conditions. 46 reproducibly deregulated genes plus 21 out of 61 genes deregulated in all three comparisons but in opposite direction in INTS12 knockdown conditions when compared to un-transfected vs. scrambled D-siRNA analysis were shortlisted from 48 h dataset (total 67). b Venn diagrams of significantly deregulated genes at 120 h. 1660 reproducibly deregulated genes plus 279 out of 1333 genes deregulated in all three comparisons but in opposite direction in INTS12 knockdown conditions when compared to un-transfected vs. scrambled D-siRNA analysis were shortlisted from 120 h dataset (total 1939). c Comparison of 48 h and 120 h transcriptomic responses to INTS12 knockdown. The two gene sets contain 39 common with overrepresentation of genes of relevance to airway biology. d Box plot of log₂ fold changes in gene expression observed in 48 h and 120 h transcriptomic responses to gene knockdown using D-siRNA A. Sustained depletion resulted in greater fold changes of gene expression. e Log₂ fold changes of 39 common genes significantly deregulated at 48 h and 120 h using D-siRNA A. Genes have greater effect sizes in 120 h response for all except one