Table 5.
SNPs selected in the study. Candidate SNPs were selected in oncogenes and tumour suppressor genes, DNA repair (either BER, NER and DSB), inflammatory, apoptotic and carcinogen metabolism genes, as described in Material and Methods.
| FUNCTION | GENE | RS | ID | Change |
|---|---|---|---|---|
| Oncogenes and tumour suppressor genes | TP53 | 1042522 | C_2403545_10 | Pro72Arg |
| MDM2 | 2279744 | PCR-RFLP | -410T>G | |
| KRAS-LC6 | 61764370 | PCR-custom probe | 3’-UTR | |
| EGFR | 2227983 | C_16170352_20 | Lys521Arg | |
| Base excision repair (BER) | XRCC1 | 25487 | C_622564_10 | Gln399Arg |
| 1799782 | C_11463404_10 | Arg194Trp | ||
| APEX | 1130409 | C_8921503_10 | Asp148Glu | |
| Nucleotide excision repair (NER) | ERCC2(XPD) | 13181 | C_3145033_10 | Lys751Gln |
| ERCC1 | 11615 | C_2532959_10 | Asn118Asn | |
| XPC | 2228000 | C_16018061_10 | Ala499Val | |
| Double-strand break repair genes (DSB) | XRCC3 | 861539 | C_8901525_10 | Thr241Met |
| 1799794 | C_2983904_10 | -316A>G | ||
| KU70 | 2267437 | C_15872242_20 | -731C>G | |
| Inflammatory genes | IL1B | 16944 | C_1839943_10 | -511T>C |
| IL2 | 2069762 | C_15859930_10 | -330T>G | |
| IL6 | 1800795 | C_1839697_20 | -174C>G | |
| IL10 | 1800872 | C_1747363_10 | -592C>A | |
| TNFA | 361525 | C_2215707_10 | -238A>C | |
| Apoptotic genes | NOD2 | 2066844 | C_11717468_20 | Arg702Trp |
| 2066845 | C_11717466_20 | Arg908Gly | ||
| BAX | 4645878 | C_27848291_10 | -248G>A | |
| BCL2 | 2279115 | C_3044428_30 | -938C>A | |
| Carcinogen metabolism/antioxidative genes | CYP3A5 | 776746 | C_26201809_30 | 6986A>G |
| GSTP1 | 1695 | C_3237198_20 | Ile105Val | |
| GSTT1 | N/A | PCR | Null/present | |
| GSTM1 | N/A | PCR | Null/present | |
|
NFE2L2
(NRF2) |
13035806 | C_11745134_10 | 3’-UTR | |
| 2706110 | C_11745133_10 | 3’-UTR | ||
| KEAP1 | 1048290 | C_9323035_10 | Leu471Leu |