Table 1.
Summary on gene validation by RT-PCR in comparison with gene array results
| Gene | Primer sequence | PCR product size (bp) | Location on rat chromosome | GenBank Access # | Fold changes (NDC/PDC) by | |
|---|---|---|---|---|---|---|
| gene array | RT-PCR | |||||
| Lysyl oxidase | RV:AGTCTCTGACA | 129 | 18q11 | NM_017061 | 2.8 | 2.86 |
| (LOX) | TCCGCCCTA C | |||||
| FW:ACCTGGTACCC | ||||||
| GATCCCTA | ||||||
| Glycoprotein-4- | FW:AGATAAAGATG | 186 | 5q22 | NM_053287 | -1.7 | -1.04 |
| Beta-galactosyltrans | GGCGGCCGTTACT | |||||
| ferase 2 (GGBT2; | RV:ACATGGTGTCT | |||||
| UDP-Gal) | CCAGCCTGATTGA | |||||
| Nerve growth factor | FW:AATGATGGGTT | 175 | Xq35 | NM_053401 | 1.6 | 1.03 |
| receptor associated | GGGTGGAGATGGA | |||||
| protein 1 (Ngfrap1; | RV:ACCGAAGTCAA | |||||
| Bex3; Nade) | GGCATAAGGCAGA | |||||
| Protein disulfide | FW:ATATGACCGAG | 185 | 11q22 | NM_001014125 | 1.8 | 1.86 |
| isomerase- | CTGTGACGCTGAA | |||||
| associated 5 (Pdia5) | RV:ACATCTTTGGC | |||||
| TCCAGGGTCTTCT | ||||||
| Protein disulfide | FW:ACCTTCTTTCT | 182 | Chromo- | NM_001004442 | 1.8 | 1.04 |
| isomerase- | AGCGGTCAGTGCT | some 6 | ||||
| associated 6 (Pdia6) | RV:AGTGCACTTGC | |||||
| TGCTTTCTTCCAC | ||||||
| Myeloid ecotropic | FW:TAGCCACCAAT | 99 | 14q22 | XM_223643 | 1.6 | 1.33 |
| viral integration site 1 | ATCATGAGGGCGT | |||||
| homolog (Meis1) | RV:TGAGTCCCGTA | |||||
| TCTTGTGCCAACT | ||||||
| CD83 antigen | FW:ATGTGCCTGAA | 193 | 17p12 | NM_001108410 | 1.7 | 1.6 |
| TACCACCTGGACA | ||||||
| RV:AGCCGCATGAA | ||||||
| ACATGAAGCTGAC | ||||||
| Lysozyme (Lyz) | FW:TATGAACGCTG | 95 | 7q22 | NM_012771 | 1.7 | 1.37 |
| TGAGTTCGCCAGA | ||||||
| RV:TGCTGAGCTAA | ||||||
| ACACACCCAGTCT | ||||||
| Trinucleotide repeat | FW:TGAAGTACCTC | 176 | 1q36 | NM_001107549 | 1.7 | 1.03 |
| containing 6 (Tnrc6) | CACGATTTCGCCA | |||||
| RV:TGCTGTTCTGC | ||||||
| ACCTCTCCGTTAT | ||||||
| Interleukin 13 | FW:AAGTGAGAAGC | 155 | Xq12 | NM_145789 | 1.4 | 1.16 |
| receptor alpha 1 | CTAGCCCTTTGGT | |||||
| (Il13ra1) | RV:AGTTGGTGTCC | |||||
| GGGCTTGTATTCT | ||||||
| 18S rRNA | FW:CGCGGTTCTAT | 219 | Chromo- | M11188 | Housekeeping | |
| TTTGTTGGT | some 3 | |||||
| RV:AGTCGGCATCG | ||||||
| TTTATGGTC | ||||||