Fig 2: Validation of high confidence targets. Pyrosequencing versus array percent methylation for CpGs identified in regional CpG methylation analyses for a TWIST1, b HLX and c SKAP2. QPCR generated gene expression in the paired samples for d TWIST1, e HLX, f SKAP2 (*Wilcoxon signed-rank test p < 0.05). g Densitometry and h associated western blot for TWIST1 whole cell protein expression (#p < 0.05 by two-sample t test, n = 7 airway, n = 7 parenchymal)

Fig 3: Validation of differential methylation between airway and parenchymal fibroblasts and associated gene expression. a Plot of 240 CpG probes used in the analysis. Red/Blue = Bonferroni adjusted p value < 0.05. Red = greater expression in parenchymal fibroblasts, blue = greater expression in airway fibroblasts. b Summary of regional DNA methylation differences within the 240 CpG probes used in the analysis, between DNA isolated from airway versus parenchymal fibroblasts. c Regional beta value plots for TWIST1 in paired samples. d Regional beta value plot for HLX in paired samples. e Regional beta value plot for SKAP2 in paired samples. Microarray generated gene expression in paired airway and parenchymal fibroblasts for f TWIST1, g HLX and h SKAP2 (**limma moderated t test p < 0.01)