Table 3 The association of SNPs in hub genes with breast cancer (BC) adjusted for BMI and menopause status
From: Using machine learning to identify gene interaction networks associated with breast cancer
SNP IDs | Gene | CHR | Alleles | OR | 95% CI | p value | Functional consequence |
|---|---|---|---|---|---|---|---|
rs2167270 | LEP | 7 | G > A | 1.007 | 0.851–1.191 | 0.937 | 5_prime_UTR_variant |
rs4731426 | LEP | 7 | C > G | 0.991 | 0.846–1.161 | 0.911 | intron_variant |
rs10487506 | LEP | 7 | A > G | 0.970 | 0.829–1.135 | 0.702 | upstream_transcript_variant,2KB_upstream_variant |
rs10954173 | LEP | 7 | G > A | 0.998 | 0.846–1.178 | 0.981 | intron_variant |
rs3828942 | LEP | 7 | A > G | 0.985 | 0.843–1.151 | 0.854 | intron_variant |
rs4655555 | LEPR | 1 | A > T | 0.825 | 0.706–0.934 | 0.015 | intron_variant |
rs10244329 | LEPR | 1 | A > T | 0.971 | 0.830–1.136 | 0.715 | intron_variant |
rs1137101 | LEPR | 1 | G > A | 0.728 | 0.598–0.885 | 0.002 | missense_variant, coding_sequence_variant |
rs1137100 | LEPR | 1 | G > A | 0.956 | 0.810–1.128 | 0.595 | missense_variant, coding_sequence_variant |
rs3745369 | RETN | 19 | G > C | 1.085 | 0.945–1.247 | 0.246 | 500B_downstream_variant |
rs34861192 | RETN | 19 | G > A | 0.975 | 0.813–1.170 | 0.789 | 2KB_upstream_variant, upstream_transcript_variant |
rs3219175 | RETN | 19 | G > A | 0.964 | 0.728–1.273 | 0.794 | 2KB_upstream_variant, upstream_transcript_variant |
rs3219177 | RETN | 19 | C > T | 1.011 | 0.716–1.428 | 0.949 | intron_variant |
rs34124816 | RETN | 19 | A > C | 1.168 | 0.926–1.476 | 0.190 | 2KB_upstream_variant, upstream_transcript_variant |
rs1862513 | RETN | 19 | C > G | 1.083 | 0.941–1.247 | 0.265 | 2KB_upstream_variant, upstream_transcript_variant |
rs3745367 | RETN | 19 | G > A | 0.969 | 0.844–1.113 | 0.657 | intron_variant |
rs2267437 | XRCC6 | 22 | C > G | 0.985 | 0.843–1.151 | 0.851 | intron_variant, upstream_transcript_variant,2KB_upstream_variant |
rs2284082 | XRCC6 | 22 | T > C | 0.973 | 0.852–1.111 | 0.683 | intron_variant |
rs5751129 | XRCC6 | 22 | T > C | 0.903 | 0.726–1.120 | 0.353 | intron_variant, upstream_transcript_variant,2KB_upstream_variant |
rs5751131 | XRCC6 | 22 | A > G | 0.995 | 0.871–1.136 | 0.938 | intron_variant |