Table 2.
Complete fold change gene expression data for moderately and severely degenerated cells stimulated with TGFβ3+Dex, CTGF, and Link-N. The gene expression was normalized to 18s, GAPDH and β-actin, and Day 0 cells. Red indicates a significant decrease in gene expression and blue indicates a significant increase in gene expression, p<0.05. ∼ indicates the gene was not expressed by that group. Of particular note was the large number of genes that were not expressed in the severely degenerated cells following stimulation by either of the matricellular proteins.
| Moderate Degeneration (n=3) | Severe Degeneration (n=3) | |||||
|---|---|---|---|---|---|---|
| TGF(β3+Dex | CTGF | Link-N | TGF(β3+Dex | CTGF | Link-N | |
| ADAMTS4 | 1.25 | 3.49 | ∼ | −1.21 | ∼ | ∼ |
| ADAMTS5 | −15.41 | −1.66 | −2.43 | −6.21 | ∼ | ∼ |
| ACAN | 18.48 | −9.34 | −3.99 | 3.78 | 1.98 | −1.28 |
| BDNF | 2.13 | 5.58 | 19.45 | 2.55 | ∼ | 4.15 |
| BGN | 9.63 | −1.15 | −2.52 | 10.75 | 8.22 | 6.48 |
| CASP3 | 1.96 | 4.39 | 9.56 | 1.71 | ∼ | ∼ |
| COL1A1 | −83.56 | −6.68 | −36.04 | −27.04 | 1.29 | −5.60 |
| COL10A1 | 26.64 | 114.70 | 59.94 | 13.95 | 382.38 | 413.02 |
| COL2A1 | 237.92 | −2.17 | 2.44 | 6.88 | ∼ | ∼ |
| COL3A1 | −1.65 | 1.00 | −1.24 | −2.01 | ∼ | −1.74 |
| CTGF | −2.92 | −10.23 | −10.53 | −4.26 | −1.10 | −9.50 |
| EGF | 8.80 | 38.86 | 17.20 | 6.90 | 218.02 | 32.84 |
| eln | 10.67 | 1.41 | −1.54 | 6.34 | ∼ | ∼ |
| FGF1 | −2.54 | −1.18 | 3.69 | −1.17 | 3.19 | ∼ |
| GPC1 | 2.34 | 2.82 | 2.78 | 1.39 | 1.58 | 1.28 |
| HAS1 | 9.31 | 13.42 | 67.22 | 3.77 | ∼ | ∼ |
| IGF1 | ∼ | 4.20 | 1.45 | 1.30 | ∼ | ∼ |
| IL1B | −1.08 | 37.85 | 23.89 | 2.01 | 1826.45 | 1467.56 |
| KRT19 | −5.28 | 1.07 | −1.13 | −2.92 | ∼ | ∼ |
| LAMB1 | 5.49 | 2.57 | 3.53 | 1.85 | −1.15 | −1.06 |
| MMP1 | 11.64 | 150.51 | 850.20 | 2.28 | 10.57 | 17.83 |
| MMP13 | 4.26 | 5.95 | 13.77 | 1.47 | 3.63 | ∼ |
| MMP14 | 2.05 | 1.65 | 5.48 | −1.89 | −1.52 | −2.23 |
| MMP2 | 2.44 | 6.80 | 5.02 | 1.54 | 1.59 | 1.42 |
| MMP3 | 138.53 | 209.03 | 653.21 | 22.82 | −1.32 | 1.19 |
| MMP9 | 1.23 | 70.46 | 44.54 | 1.96 | 7868.17 | 3831.99 |
| NGF | −2.02 | 3.79 | 8.25 | −3.72 | ∼ | 1.10 |
| BGLAP | 3.02 | 4.27 | 13.13 | 1.82 | 3.85 | 3.76 |
| PDGFA | 2.96 | 2.93 | 10.98 | 2.65 | ∼ | ∼ |
| PPARG | 5.78 | 3.81 | 16.53 | 4.74 | 14.24 | 4.19 |
| SOX9 | 8.31 | 4.33 | 19.88 | 15.51 | 75.65 | 28.61 |
| TAC4 | 14.29 | 16.69 | 18.59 | 14.27 | ∼ | ∼ |
| TGFB1 | 3.56 | 2.85 | 4.37 | 1.59 | 7.11 | 12.06 |
| TGFB2 | −4.30 | −1.70 | −1.45 | 1.40 | −1.80 | ∼ |
| TGFB3 | −3.49 | 2.50 | 1.93 | −2.51 | ∼ | 2.80 |
| TGFBR1 | 9.81 | 8.77 | 22.49 | 1.41 | ∼ | ∼ |
| TGFBR2 | 1.96 | 1.32 | 2.60 | 1.44 | ∼ | ∼ |
| TIMP1 | −1.18 | 2.30 | 4.37 | −1.07 | 4.69 | 6.43 |
| TIMP2 | 1.95 | 2.12 | 2.52 | 1.32 | 28.54 | 10.62 |
| TIMP3 | ∼ | ∼ | ∼ | ∼ | ∼ | ∼ |
| TNFα | 1.95 | 10.82 | 7.07 | 2.06 | ∼ | ∼ |
| WISP1 | 1.15 | 1.86 | 1.99 | 1.29 | −1.56 | ~ |