Table 7 Small Airway Epithelium Expressed Genes Most Affected by Smoking1
From: RNA-Seq quantification of the human small airway epithelium transcriptome
| Â | Â | Â | RNA-Seq | Micorarray | ||||
|---|---|---|---|---|---|---|---|---|
Category | Gene symbol | Gene title | Nonsmoker median | Smoker median | Absolute difference2 | Fold- change3 | Fold- change3 | p value4 |
Largest absolute increase | Â | Â | Â | Â | Â | Â | ||
Ubiquitous | FTL | ferritin, light polypeptide | 371.1 | 843.4 | 472.2 | 2.3 | 1.6 | 0.1784 |
| Â | PRDX1 | peroxiredoxin 1 | 187 | 398.6 | 211.6 | 2.1 | 1.6 | 0.1083 |
| Â | FTH1 | ferritin, heavy polypeptide 1 | 349.2 | 551.5 | 202.3 | 1.6 | 1.8 | 0.0602 |
| Â | TUBB2C | tubulin, beta 2C | 1161.3 | 1331.9 | 170.5 | 1.1 | 1.1 | 0.8995 |
| Â | CLU | clusterin | 498 | 665.2 | 167.3 | 1.3 | 1.5 | 0.2157 |
| Â | NQO1 | NAD(P)H dehydrogenase, quinone 1 | 38.3 | 198.7 | 160.4 | 5.2 | 4.8 | < 0.0001 |
| Â | UBB | ubiquitin B | 615.1 | 711.1 | 96 | 1.2 | -1.0 | 0.9760 |
| Â | GSN | gelsolin | 93.1 | 174.9 | 81.8 | 1.9 | 1.4 | 0.4772 |
| Â | TUBA1A | tubulin, alpha 1a | 341.7 | 423.2 | 81.5 | 1.2 | 1.1 | 0.7340 |
| Â | ALDOA | aldolase A, fructose-bisphosphate | 182.9 | 263.4 | 80.5 | 1.4 | 1.5 | 0.1670 |
SAE-enriched | MSMB | microseminoprotein, beta- | 333.1 | 3112.7 | 2779.6 | 9.3 | 2.0 | 0.0820 |
| Â | C20orf114 | chromosome 20 open reading frame 114 | 1484.3 | 4102.7 | 2618.5 | 2.8 | 1.1 | 0.6685 |
| Â | ALDH3A1 | aldehyde dehydrogenase 3 family, member A1 | 226.9 | 2077.9 | 1851 | 9.2 | 9.8 | < 0.0001 |
| Â | TFF3 | trefoil factor 3 (intestinal) | 149.4 | 697.9 | 548.5 | 4.7 | 2.8 | 0.1771 |
| Â | WFDC2 | WAP four-disulfide core domain 2 | 840.3 | 1327 | 486.7 | 1.6 | 1.3 | 0.5735 |
| Â | TPPP3 | tubulin polymerization-promoting protein family member 3 | 1301.7 | 1604.9 | 303.2 | 1.2 | -1.0 | 0.9493 |
| Â | TSPAN1 | tetraspanin 1 | 663.9 | 960.2 | 296.3 | 1.4 | 1.1 | 0.8884 |
| Â | S100P | S100 calcium binding protein P | 79.6 | 291.2 | 211.5 | 3.7 | 1.8 | 0.4832 |
| Â | GSTA2 | glutathione S-transferase alpha 2 | 143.9 | 337.5 | 193.6 | 2.3 | Â | Not in U133 |
| Â | PLUNC | palate, lung and nasal epithelium associated | 5.4 | 186 | 180.6 | 34.5 | 1.6 | 0.8375 |
Largest absolute decrease | Â | Â | Â | Â | Â | Â | ||
Ubiquitous | CRIP1 | cysteine-rich protein 1 (intestinal) | 1014.1 | 587.7 | -426.3 | -1.7 | -1.4 | 0.4842 |
| Â | RPLP1 | ribosomal protein, large, P1 | 916.1 | 516 | -400.1 | -1.8 | -1.2 | 0.3845 |
| Â | CAPS | calcyphosine | 2197.4 | 1994.7 | -202.8 | -1.1 | -1.5 | 0.1733 |
| Â | PRDX5 | peroxiredoxin 5 | 1022.4 | 823.3 | -199.1 | -1.2 | -1.2 | 0.3653 |
| Â | RPS11 | ribosomal protein S11 | 537.2 | 357.5 | -179.7 | -1.5 | -1.3 | 0.3209 |
| Â | RPLP2 | ribosomal protein, large, P2 | 347.5 | 181.2 | -166.4 | -1.9 | -1.2 | 0.6557 |
| Â | RPL8 | ribosomal protein L8 | 631.5 | 468.9 | -162.6 | -1.3 | -1.2 | 0.5028 |
| Â | TPT1 | tumor protein, translationally-controlled 1 | 655.2 | 500.7 | -154.5 | -1.3 | -1.1 | 0.6701 |
| Â | S100A6 | S100 calcium binding protein A6 | 758.3 | 617.2 | -141 | -1.2 | -1.1 | 0.9250 |
| Â | CD81 | CD81 molecule | 248.3 | 120.5 | -127.8 | -2.1 | -1.3 | 0.3499 |
SAE-enriched | SCGB1A1 | secretoglobin, family 1A, member 1 (uteroglobin) | 38675.4 | 17244 | -21431.5 | -2.2 | -1.1 | 0.4670 |
| Â | SCGB3A1 | secretoglobin, family 3A, member 1 | 7838.2 | 2947.3 | -4890.8 | -2.7 | -1.3 | 0.1509 |
| Â | CD74 | CD74 molecule, major histocompatibility complex, class II invariant chain | 947.2 | 723.7 | -223.5 | -1.3 | -2.1 | 0.2881 |
| Â | C9orf24 | chromosome 9 open reading frame 24 | 628.7 | 488 | -140.7 | -1.3 | -1.3 | 0.2256 |
| Â | CYP4B1 | cytochrome P450, family 4, subfamily B, polypeptide 1 | 373.5 | 259.3 | -114.2 | -1.4 | -1.6 | 0.1826 |
| Â | C20orf85 | chromosome 20 open reading frame 85 | 738.1 | 625.3 | -112.8 | -1.2 | -1.2 | 0.4756 |
| Â | KRT19 | keratin 19 | 493.4 | 396.8 | -96.6 | -1.2 | -1.1 | 0.7722 |
| Â | RPS18 | ribosomal protein S18 | 285 | 207.8 | -77.3 | -1.4 | -1.2 | 0.3731 |
| Â | ALDH3B1 | aldehyde dehydrogenase 3 family, member B1 | 341.9 | 265.1 | -76.7 | -1.3 | -1.5 | 0.3595 |
| Â | TMEM190 | transmembrane protein 190 | 945.4 | 868.8 | -76.6 | -1.1 | -1.2 | 0.5710 |
Novel genes up-regulated by smoking | Â | Â | Â | Â | Â | Â | ||
Ubiquitous | AHRR | aryl-hydrocarbon receptor repressor | 0.1 | 1.3 | 1.2 | 20.8 | 3.7 | 0.0054 |
SAE-enriched | AKR1B10 | aldo-keto reductase family 1, member B10 (aldose reductase) | 0.3 | 28.5 | 28.2 | 94.8 | 56.6 | < 0.0001 |
| Â | CABYR | calcium binding tyrosine-(Y)-phosphorylation regulated | 1 | 12.5 | 11.6 | 12.7 | 9.4 | < 0.0001 |
| Â | SPP1 | secreted phosphoprotein 1 | 0.8 | 10.6 | 9.8 | 12.9 | 8.5 | 0.0021 |
| Â | CYP1B1 | cytochrome P450, family 1, subfamily B, polypeptide 1 | 0.2 | 9.2 | 9 | 43.3 | 55.0 | < 0.0001 |
| Â | AKR1B15 | aldo-keto reductase family 1, member B15 | 0.1 | 6.5 | 6.3 | 50 | Â | Not in U133 |
| Â | B3GNT6 | UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 (core 3 synthase) | 0.3 | 4.4 | 4.1 | 16 | 4.5 | 0.0525 |
| Â | NOS3 | nitric oxide synthase 3 (endothelial cell) | 0.6 | 4 | 3.4 | 6.5 | Â | "P" < 25% |
| Â | TPRXL | tetra-peptide repeat homeobox-like | 0.3 | 3.2 | 2.9 | 10.2 | 3.8 | 0.0761 |
| Â | SFRP2 | secreted frizzled-related protein 2 | 0.3 | 2.7 | 2.4 | 9.8 | 9.7 | 0.0071 |
| Â | FAM177B | family with sequence similarity 177, member B | 0.2 | 2.5 | 2.3 | 11 | Â | Not in U133 |
Low level expressed genes suppressed by smoking | Â | Â | Â | Â | Â | Â | ||
Ubiquitous | PANK1 | pantothenate kinase 1 | 1.4 | 0.7 | -0.7 | -2.1 | -1.9 | 0.0391 |
SAE-enriched | LYPD2 | LY6/PLAUR domain containing 2 | 23.9 | 1.7 | -22.3 | -14.5 | Â | Not in U133 |
| Â | LYNX1 | Ly6/neurotoxin 1 | 8.6 | 2 | -6.6 | -4.3 | -1.8 | 0.3058 |
| Â | AZU1 | azurocidin 1 | 6.1 | 1.9 | -4.3 | -3.3 | -2.1 | 0.2405 |
| Â | ITM2A | integral membrane protein 2A | 5.2 | 1.3 | -4 | -4.2 | -2.6 | 0.0071 |
| Â | ITM2A | integral membrane protein 2A | 5.2 | 1.3 | -4 | -4.2 | -2.6 | 0.0071 |
| Â | SAA4 | serum amyloid A4, constitutive | 4.8 | 1.4 | -3.4 | -3.4 | -3.4 | 0.0147 |
| Â | GAL3ST2 | galactose-3-O-sulfotransferase 2 | 4.7 | 1.6 | -3.1 | -2.9 | Â | "P" < 25% |
| Â | NEU4 | sialidase 4 | 3.7 | 0.7 | -3 | -5.4 | -1.2 | 0.6483 |
| Â | PAX1 | paired box 1 | 3.6 | 1 | -2.6 | -3.5 | -1.9 | 0.3312 |
| Â | ERP27 | endoplasmic reticulum protein 27 | 2.4 | 0.5 | -2 | -5.2 | -4.4 | 0.0016 |