Table 1.
Quantitative PCR Validates Gene Expression Changes Revealed by Microarray
| Entrez Gene ID |
gene Symbol |
microarray assay | quantitative PCR | |||
|---|---|---|---|---|---|---|
| folds changed in astrocytes | folds changed in astrocyte culture |
folds changed in rat spinal cord |
||||
| 3 days | 4 days | 6 days | ||||
| 114592 | Aurkb | 4.8 | 6.1 | 9.7 | 6 | 4 |
| 24825 | Tf | 3.6 | 2.5 | 2.0 | 4 | 3 |
| 312707 | Lrrc23 | 3.1 | 3.0 | 2.4 | 3 | 2 |
| 266803 | Sostdc1 | 2.2 | 2.0 | 1.2 | 4 | 3 |
| 24231 | C2 | 2.1 | 2.3 | 2.5 | 3 | 8 |
| 25742 | S100b | 2.1 | 1.5 | 1.6 | 2 | 5 |
| 170496 | Lcn2 | 2.1 | 3.0 | 2.1 | 5 | 12 |
| 245920 | Cxcl10 | 1.8 | 2.3 | 1.9 | 2 | 6 |
| 89824 | Chi3l1 | 1.8 | 1.5 | 1.2 | 2 | 9 |
| 282583 | Fbln2 | 2.4 | 3.0 | 3.3 | 3 | 4 |
| 59107 | Ltbp1 | 2.5 | 2.2 | 3.7 | 3 | 3 |
| 25118 | Itga1 | 4.2 | 3.2 | 3.6 | 4 | 3 |
| 24484 | Igfbp3 | 5.7 | 4.0 | 4.8 | 5 | 6 |
Notes: For quantitative PCR, mRNA was extracted from astrocyte culture or rat spinal cord and reverse-transcribed into cDNA pools. Genes except Chi3L1 were selected for PCR verification based on their fold change > 2 at any of the three induction times (3, 4, or 6 days after Dox withdrawal). Chi3L1 is reported to be upregulated in neurodegenerative diseases and thus its expression in rat tissue was further analyzed by PCR. Quantitative PCR amplified cDNA of interested genes and also amplified the cDNA of L17. The levels of each mRNA in TDP-43M337V expressing cells or tissues were normalized to those in GFAP-tTA single transgenic cells or tissues and were expressed as the folds changed. Numbers in red indicate the increase in the folds of gene expression and numbers in blue indicate the decrease in the folds of gene expression.