Table 6.
Genes found differentially expressed in all SCCHN samples versus normal oral epithelium
| Gene Title | Gene Symbol | Pooled variance t- Test fold change | SAM- Test fold change |
|---|---|---|---|
| Up-regulated genes | |||
| Cell Adhesion | |||
| matrix metalloproteinase 3 (stromelysin 1, progelatinase) | MMP3 | 5.02 | 2.55 |
| periostin, osteoblast specific factor | POSTN | 5.47 | 10.09 |
| transforming growth factor, beta-induced, 68kDa | TGFBI | 2.76 | 2.05 |
| Cell Proliferation | |||
| hepatoma-derived growth factor, related protein 3 | HDGFRP3 | 6.32 | 2.87 |
| keratin 16 (focal non-epidermolytic palmoplantar keratoderma) | KRT16 | 2.78 | 3.51 |
| Development | |||
| chondroitin sulfate proteoglycan 2 (versican) | CSPG2 | 2.85 | 3.59 |
| collagen, type I, alpha 1 | COL1A1 | 2.23 | 3.39 |
| keratin 14 (epidermolysis bullosa simplex) | KRT14 | 6.93 | 3.12 |
| DNA Replication | |||
| CDC6 cell division cycle 6 homolog (S. cerevisiae) | CDC6 | 3.75 | 2.07 |
| Immune Response | |||
| Fc fragment of IgG, low affinity IIIb, receptor (CD16b) | FCGR3B | 2.63 | 3.29 |
| interferon, alpha-inducible protein 27 | IFI27 | 2.21 | 2.68 |
| interferon-induced protein 44 | IFI44 | 2.88 | 2.51 |
| Miscellaneous | |||
| cathepsin L2 | CTSL2 | 2.20 | 6.18 |
| plasminogen activator, urokinase | PLAU | 4.01 | 3.33 |
| secreted phosphoprotein 1 (osteopontin, bone sialoprotein I) | SPP1 | 7.00 | 18.90 |
| serine (or cysteine) proteinase inhibitor, clade H | SERPINH1 | 5.74 | 2.43 |
| Signal Transduction | |||
| CD14 antigen | CD14 | 2.15 | 2.23 |
| insulin-like growth factor 2 receptor | IGF2R | 4.72 | 2.52 |
| secreted protein, acidic, cysteine-rich (osteonectin) | SPARC | 6.22 | 4.18 |
| Transcription Regulation | |||
| signal transducer and activator of transcription 1, 91kDa | STAT1 | 5.01 | 2.94 |
|
| |||
| Down-regulated genes | |||
| Apoptosis | |||
| clusterin | CLU | −3.20 | −4.54 |
| growth arrest and DNA-damage-inducible, beta | GADD45B | −3.10 | −2.55 |
| mal, T-cell differentiation protein | MAL | −2.14 | −2.50 |
| Cell adhesion | |||
| annexin A9 | ANXA9 | −2.54 | −2.17 |
| multimerin 1 | MMRN1 | −3.70 | −4.51 |
| Cellular Metabolism | |||
| amylase, alpha 1A; salivary / 1B / 1C / 2A/ 2B | AMY1 | −5.15 | −7.67 |
| glycerol-3-phosphate dehydrogenase 1-like | GPD1L | −3.25 | −3.43 |
| Development | |||
| keratin 4 | KRT4 | −2.72 | −2.82 |
| sciellin | SCEL | −2.28 | −2.55 |
| Immune response | |||
| cysteine-rich protein 1 (intestinal) | CRIP1 | −7.21 | −5.16 |
| cysteine-rich secretory protein 3 | CRISP3 | −5.75 | −69.68 |
| interleukin 2 | IL2 | −2.97 | −3.16 |
| prostate stem cell antigen | PSCA | −4.63 | −8.65 |
| Miscellaneous | |||
| ATP-binding cassette, sub-family A (ABC1), member 8 | ABCA8 | −2.54 | −3.05 |
| dual specificity phosphatase 5 | DUSP5 | −2.54 | −2.97 |
| nucleobindin 2 | NUCB2 | −3.50 | −3.12 |
| Protein Modification | |||
| ubiquitin-like 3 | UBL3 | −2.28 | −2.67 |
| Signal Transduction | |||
| proline-rich protein HaeIII subfamily 1-2 | PRH1-2 | −3.17 | −20.84 |
| Transcription Regulation | |||
| p300/CBP-associated factor | PCAF | −2.51 | −2.43 |
| paternally expressed 3 | PEG3 | −6.73 | −6.01 |