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. 2010 Jun 4;44(4):465–473. doi: 10.1165/rcmb.2009-0453OC

Figure 3.

Figure 3.

Expression of the gene ontology categories cell cycle, cell proliferation, cytoskeleton organization, and humoral immune response genes in large airway epithelium ALI compared with brushed large airway epithelia. (A, C, E, and G) Ordinate indicates relative gene expression in ALI, whereas abscissa indicates relative gene expression in brushed cells, plotted on a logarithmic scale. Triangles represent each gene present in at least 20% of samples. When multiple probe sets represented a gene, the probe set with the highest expression values was used. Gray rectangle indicates twofold change. (B, D, F, and H) Ordinate indicates relative gene expression in ALI and brushed cells. Abscissa indicates examples of genes from each category. Dark gray bars, ALI; light gray bars, brushed cells. Each bar represents relative mean expression with standard error. P values are represented in brackets above bars. (A) Correlation of cell cycle genes (Spearman rank correlation coefficient, 0.86; P < 0.001). Overall, 72% of genes were similarly expressed. (B) Expression of cell cycle genes. Cyclin B2 (CCNB2) and anillin were more highly expressed in ALI relative to brushed cells, whereas tumor-suppressor genes ERF and ING1 were more highly expressed in brushed cells relative to ALI. (C) Correlation of cell proliferation genes. Overall, 66% of genes were similarly expressed within twofold (Spearman rank correlation coefficient, 0.83; P < 0.001). (D) Expression of cell proliferation genes. Amphiregulin (AREG), EMP1, fibroblast growth factor BP1 (FGFBP1), and PTH-like hormone (PTHLH) were more highly expressed in ALI relative to brushed large airway epithelial cells. (E) Correlation of cytoskeleton organization and biogenesis (Spearman rank correlation coefficient, 0.84; P < 0.001). Overall, 61% of genes were similarly expressed within twofold. (F) Expression of cytoskeleton organization genes. Tetkin 3 (TEKT3), dynein heavy chain 9 (DNAH9), and supervillin (SVIL) were more highly expressed in brushed cells relative to ALI. In addition to other keratins and tubulins within this category, keratin 6A was more highly expressed in ALI relative to brushed cells. (G) Correlation of humoral immune response genes (Spearman rank correlation coefficient, 0.84; P < 0.001). Overall, 56% of genes were similarly expressed within twofold. (H) Expression of humoral immune response genes. CD53, B-cell CLL/lymphoma 2 (BCL2), complement factor 5 (C5), and chemokine (C-C motif) ligand 14 (CCL14) were more highly expressed in brushed cells relative to ALI. (B, D, F, and H) C, large airway epithelium ALI cultures; B, large airway epithelium brushed cells.