Figure 2.

(A) Principal component analysis of RNA-sequencing data for samples representing 0 and 7 days of differentiation of COPD HBEC and normal HBEC repopulated on COPD bronchial scaffolds or normal bronchial scaffolds (n = 9 repopulated scaffolds per combination and time point) or grown at the ALI (n = 3 HBEC donors). Day 0 was defined as the day of differentiation induction, which was 4 days after the seeding of cells. (B) Number and (C) overlap of differentially expressed genes in COPD HBEC compared with normal HBEC when grown on COPD scaffolds, normal scaffolds, or at the ALI on Day 0 and Day 7. A gene was considered to be differentially expressed if the comparison resulted in a false discovery rate (FDR) < 0.05 using DESeq2 (see the data supplement) and the Benjamini-Hochberg method for multiple testing correction.