Table 2.
Genes and SNPs of immune checkpoints
| rs number | MAFa | Base change | Location | Function | Primer sequence |
|---|---|---|---|---|---|
| CCL2 | |||||
| rs4586 | 39% | A > G | Exon 2 | Protein coding, splicing regulation and post translation | F: 5′-TCAATGCCCCAGTCACCT-3′ R: 5′-TCACATCACAGCTTCTTTGGG-3′ |
| LAG3 | |||||
| rs3782735 | 42% | A > G | Intronic | Tag | F: 5′-GGACTCCCCTGCTCTCAATT-3′ R: TCACTCCTCCCAAATCCAGG-3′ |
| NT5E | |||||
| rs6922 | 33% | G > T | 3′-UTR | Transcriptional regulation | F: 5′-TTGTTGCAGCAAAATAATAGCC-3′ R: 5′-CCCTATTTTACTGGCCAAGTGT-3′ |
| PDCD1 | |||||
| rs10204525 | 12% | C > T | 3′-UTR | Tag | F: 5′-GGTGTTGGGAGGGCAGAA-3′ R: 5′-GTGTGGATGTGAGGAGTGGA-3′ |
| CCR2 | |||||
| rs3092964 | 22% | T > C | Near 5′-UTR | Transcriptional regulation | F: 5′-CCTGTATCTCCGCCTTCACT-3′ R: 5′-AATGCCTACAACTCACCAGC-3′ |
| IDO1 | |||||
| rs9657182 | 45% | A > G | Upstream | NA | F: 5′-GGTCATAAAAGGAGAAAATGACC-3′ R: 5′-TTGCAAAGAGCTTTCAGAAAAA-3′ |
| rs3739319 | 40% | G > A | Intronic | Transcriptional regulation | F: 5′-GACCTTGACCTCAGTGAATGC-3′ R: 5′-ATGTCCTGGAGGAACTGAGC-3′ |
| CD274 | |||||
| rs2297137 | 27% | G > A | Intronic | Transcriptional regulation | F: 5′-ATTCTCCTGCCCCTCACC-3′ R: 5′-AAGGGGTGAGAATTGGATCA-3′ |
| CTLA4 | |||||
| rs231777 | 15% | C > T | Intronic | Transcriptional regulation | F: 5′-TGACACCAGGTTTGTTACACG-3′ R: 5′-TCTTCTCCAGTAAAAATTAAATCATCA-3′ |
| CD24 | |||||
| rs8734 | 32% | G > A | Exon 1 | Protein coding, splicing regulation and post translation | F: 5′-TGGAGGTAGCTGTGATGTGG-3′ R: 5′-ACCACGAAGAGACTGGCTGT-3′ |
Abbreviations: A, adenine; C, cytosine; G, guanine; MAF, minor allele frequency; NA, not available; rs, reference SNP number; T, thymine; 3′-UTR, 3′-untranslated region; 5′-UTR, 5′-untranslated region.
a
According to the Ensembl database (phase 1 of the 1000 Genomes Project) for Europeans.