TABLE 3.
COMMON CATEGORIES OF GENES DIFFERENTIALLY EXPRESSED IN LARGE AIRWAY EPITHELIUM CELLS CULTURED AT AIR–LIQUID INTERFACE VERSUS CELLS BRUSHED FROM LARGE AIRWAY EPITHELIA*
| Expression Relatively Increased in Air–Liquid Interface Relative to Brushed Epithelia |
Expression Relatively Increased in Brushed Epithelia Relative to Air–Liquid Interface |
||||
|---|---|---|---|---|---|
| GO Biologic Function | Score† | P Value‡ | GO Biologic Function | Score† | P Value‡ |
| Mitotic cell cycle | 4.22 | 1.02 × 10−14 | Cytoskeleton-dependent intracellular transport | 3.12 | 5.19 × 10−12 |
| M phase of mitotic cell cycle | 3.17 | 4.17 × 10−12 | Microtubule-based movement | 3.12 | 5.19 × 10−12 |
| Mitosis | 3.08 | 1.35 × 10−11 | Microtubule-based process | 3.73 | 2.59 × 10−9 |
| Cell cycle | 9.98 | 1.38 × 10−10 | Cytoskeleton organization and biogenesis | 6.55 | 4.22 × 10−6 |
| Regulation of progression through cell cycle | 7.25 | 1.99 × 10−10 | Antigen presentation, exogenous antigen | 0.91 | 1.00 × 10−5 |
| M phase | 3.43 | 2.24 × 10−9 | Antigen processing, exogenous antigen via major histocompatibility antigen Class II | 0.91 | 1.22 × 10−5 |
| Cell division | 3.03 | 4.71 × 10−9 | Fibril organization and biogenesis | 0.30 | 3.70 × 10−5 |
| Cell cycle checkpoint | 1.32 | 4.91 × 10−9 | Response to cold | 0.40 | 7.73 × 10−5 |
| Development of epidermis | 1.50 | 7.31 × 10−9 | Humoral immune response | 2.62 | 8.11 × 10−5 |
| Development of ectoderm | 1.67 | 1.76 × 10−8 | Detection of biotic stimulus | 0.71 | 8.98 × 10−5 |
| Cell proliferation | 7.17 | 4.97 × 10−8 | Neutral amino-acid transport | 0.50 | 3.21 × 10−4 |
| Monosaccharide metabolism | 2.37 | 2.39 × 10−7 | Oligosaccharide metabolism | 0.71 | 3.20 × 10−4 |
| Glucose catabolism | 1.45 | 1.15 × 10−7 | Cytoskeletal anchoring | 0.71 | 1.93 × 10−4 |
| Glucose metabolism | 1.85 | 1.25 × 10−7 | Nitric oxide transport | 0.30 | 1.44 × 10−4 |
| Hexose metabolism | 2.37 | 1.46 × 10−7 | Detection of pest, pathogen, or parasite | 0.60 | 1.09 × 10−4 |
Gene ontology analysis (GO) was performed, using Genespring software, on all differentially expressed genes (magnitude of fold-change ALI cells compared with brushed cells, > 2; P < 0.01 after Benjamini-Hochberg multiple test correction). Biologic functional categories were selected on the basis of significance. Top 15 categories (based on P values) in each group are shown.
Score refers to the percentage of differentially expressed genes belonging to each GO category.
P value represents the probability that the group of genes falls within a given GO category by chance, ranked in descending order of P values.