Table 2.
Basal gene expression of genes involved in DNA damage signaling pathway in non-irradiated isogenic radioresistant FaDu-RR and radiosensitive 2A3 cells compared to non-irradiated parental FaDu cells
| Genea | FaDu-RRb | P valuec | 2A3d | P valuec | DNA damage signaling pathways |
|---|---|---|---|---|---|
| APEX1 | 2.11 | 0.002 | BER | ||
| ATM | 2.08 | 0.003 | ATM/ATR signaling, DSB repair, apoptosis, cell cycle | ||
| BARD1 | 1.66 | 0.004 | ATM/ATR signaling, other DNA repair genes, apoptosis | ||
| BBC3 | −1.99 | 0.03 | apoptosis | ||
| BLM | − 2.60 | 0.0003 | −3.35 | 0.00003 | DSB repair |
| CHEK1 | 1.96 | 0.001 | ATM/ATR signaling, DSB repair, cell cycle | ||
| CIB1 | −3.69 | 0.00003 | other DNA repair genes, apoptosis | ||
| DDB2 | 1.78 | 0.02 | NER | ||
| ERCC2 | −2.35 | 0.005 | NER | ||
| FANCD2 | −1.74 | 0.05 | 1.78 | 0.0010 | ATM/ATR signaling, other DNA repair genes |
| FEN1 | 1.79 | 0.001 | BER | ||
| GADD45A | −2.19 | 0.04 | 3.30 | 0.02 | other DNA repair genes |
| H2AFX | −1.92 | 0.009 | 1.61 | 0.03 | ATM/ATR signaling, DSB repair |
| HUS1 | −2.10 | 0.03 | ATM/ATR signaling, DSB repair | ||
| MBD4 | −1.54 | 0.0008 | BER | ||
| MLH1 | 2.13 | 0.01 | DSB repair, mismatch repair | ||
| MSH3 | 1.77 | 0.0006 | mismatch repair | ||
| OGG1 | 1.70 | 0.005 | NER, BER | ||
| PCNA | −1.57 | 0.04 | NER, BER, mismatch repair | ||
| PMS1 | 1.90 | 0.003 | mismatch repair | ||
| PNKP | −1.60 | 0.009 | NER | ||
| PPM1D | 1.82 | 0.04 | cell cycle | ||
| PRKDC | 1.89 | 0.02 | DSB repair, apoptosis | ||
| RAD1 | 2.10 | 0.0004 | ATM/ATR signaling, other DNA repair genes | ||
| RAD17 | 1.96 | 0.003 | ATM/ATR signaling, other DNA repair genes | ||
| RAD18 | 1.82 | 0.004 | other DNA repair genes | ||
| RBBP8 | 2.27 | 0.001 | ATM/ATR signaling, other DNA repair genes | ||
| REV1 | 1.61 | 0.0007 | other DNA repair genes | ||
| RNF168 | −1.69 | 0.04 | −2.13 | 0.0001 | ATM/ATR signaling, other DNA repair genes |
| SUMO1 | −2.60 | 0.00002 | other DNA repair genes | ||
| TOPBP1 | −1.68 | 0.01 | ATM/ATR signaling, other DNA repair genes | ||
| UNG | 2.20 | 0.005 | BER | ||
| XRCC2 | −2.47 | 0.04 | 2.01 | 0.03 | DSB repair |
| XRCC3 | −1.96 | 0.02 | other DNA repair genes |
a Gene symbol according to HUGO Gene Nomenclature Committee; b Fold regulation in gene expression in radioresistant FaDu cells in comparison to parental FaDu cells. Positive fold regulation values indicate gene over-expression, negative fold regulation values indicate gene under-expression; c The P values are calculated based on a Student’s t-test of the replicate 2(− ΔΔ CT) values for each gene in the parental FaDu cells and radioresistant FaDu-RR or radiosensitive 2A3 cells, and differences in gene expression were considered significant for P values less than 0.05; d Fold regulation in gene expression in radiosensitive 2A3 cells in comparison to parental FaDu cells. BER base excision repair, DSB double-strand break, NER nucleotide excision repair