Table 3 The hub SNPs/genes identified in the top-ranked 1000 SNP pairs
Hub SNPs from analyses of complete SNP set | ||
|---|---|---|
Disease | Hub SNPs (Genomic position) | # Interacting SNPs |
BD | rs1553460 (Chr4:17804959) | 1000 |
CAD | rs3785579 (Chr17:62472963) | 1000 |
CD | rs1553460 (Chr4:17804959) | 978 |
| Â | rs4471699 (Chr16:30227808) | 22 |
HT | rs10843660 (Chr12:30259724) | 999 |
RA | rs3785579 (Chr17:62472963) | 1000 |
T1D | rs9273363 (Chr6:32734250) | 1000 |
T2D | rs7077039 (Chr10:114779067) | 833 |
| Â | rs10787472 (Chr10:114771287) | 54 |
| Â | rs11196208 (Chr10:114801306) | 39 |
| Â | rs11196205 (Chr10:114797037) | 30 |
| Â | rs10885409 (Chr10:114798062) | 22 |
| Â | rs4074720 (Chr10:114738487) | 17 |
Hub genes from gene-only SNP analyses | ||
Disease | Hub genes | # Interacting genes |
BD | CENPN: centromere protein N | 653 |
CAD | CACNG1: calcium channel, voltage-dependent, gamma subunit 1 | 709 |
CD | ATG16L1: ATG16 autophagy related 16-like 1 (S. cerevisiae)*** | 256 |
| Â | IL23R: interleukin 23 receptor *** | 20 |
HT | tcag7.23: similar to ribosomal protein L18; 60S ribosomal protein L18 | 170 |
| Â | BCAT1: branched chain aminotransferase 1, cytosolic *** | 57 |
| Â | SAMD4A: sterile alpha motif domain containing 4A * | 27 |
| Â | GAB1: GRB2-associated binding protein 1 * | 25 |
| Â | RHOJ: ras homolog gene family, member J | 20 |
| Â | LYPD5: LY6/PLAUR domain containing 5 * | 12 |
RA | CACNG1: calcium channel, voltage-dependent, gamma subunit 1 | 676 |
T1D | HLA-DQB1: major histocompatibility complex, class II, DQ beta 1** | 686 |
T2D | TCF7L2: transcription factor 7-like 2 (T-cell specific, HMG-box)*** | 481 |