Table 2.
Genomic risk loci and corresponding top variants identified by FUMA using SNPs with Pmtag < 5 × 10−8 in MTAGLBD
| Top SNP | Genomic risk loci | Chromosome loci | n.sig | Pgwas | Pmtag | Passet | Trait subset | Variant annotion | nearestGene |
|---|---|---|---|---|---|---|---|---|---|
| rs35603727 | 1:155024309–156300731 | 1q22 | 11 | 4.06 × 10−7 | 2.25 × 10−21 | 1.67 × 10−20 | LBD, PD | Intronic | UBQLN4 |
| rs6733839 | 2:127839474–127894851 | 2q14.3 | 41 | 4.16 × 10−9 | 1.64 × 10−31 | 5.20 × 10−37 | LBD, AD | Intergenic | BIN1 |
| rs1474055 | 2:169091942–169166282 | 2q24.3 | 7 | 6.32 × 10−1 | 2.97 × 10−10 | 7.96 × 10−12 | PD | Intergenic | STK39 |
| rs10513789 | 3:182704808–182833363 | 3q27.1 | 27 | 9.88 × 10−1 | 1.44 × 10−12 | 2.15 × 10−12 | PD | Intronic | MCCC1 |
| rs34311866 | 4:819789–1030779 | 4p16.3 | 83 | 1.40 × 10−6 | 1.35 × 10−27 | 1.18 × 10−25 | LBD, PD | Exonic | TMEM175 |
| rs4389574 | 4:15706502–15743332 | 4p15.32 | 6 | 9.02 × 10−1 | 1.37 × 10−8 | 1.04 × 10−12 | PD | Intronic | BST1 |
| rs1372518 | 4:90513519–91127134 | 4q22.1 | 215 | 1.01 × 10−7 | 2.66 × 10−26 | 1.17 × 10−32 | LBD, PD | UTR5 | SNCA |
| rs1867598 | 5:60011636–60489094 | 5q12.1 | 16 | 1.21 × 10−1 | 4.34 × 10−9 | 1.87 × 10−12 | LBD, PD | Intronic | ELOVL7 |
| rs9790947 | 5:156506352–156568510 | 5q33.3 | 4 | 3.60 × 10−1 | 1.98 × 10−8 | 3.37 × 10−9 | LBD, AD, PD | Intronic | HAVCR2 |
| rs13216201 | 6:41140984–41166310 | 6p21.1 | 6 | 7.14 × 10−2 | 9.18 × 10−10 | 1.41 × 10−10 | LBD, AD, PD | Intronic | TREML2 |
| rs4731 | 8:11666337–11674897 | 8p23.1 | 1 | 2.04 × 10−2 | 3.09 × 10−8 | 6.25 × 10−8 | LBD, AD, PD | Exonic | FDFT1 |
| rs620490 | 8:16695418–16739127 | 8p22 | 15 | 5.56 × 10−1 | 3.41 × 10−9 | 4.29 × 10−9 | PD | ncRNA_intronic | RP11-13N12.1 |
| rs1532278 | 8:27456253–27468862 | 8p21.1 | 12 | 9.05 × 10−3 | 6.35 × 10−14 | 2.24 × 10−21 | LBD, AD, PD | Intronic | CLU |
| rs11257240 | 10:11707563–11720620 | 10p14 | 3 | 9.92 × 10−2 | 3.60 × 10−8 | 6.48 × 10−11 | LBD, AD, PD | Intergenic | RP11-138I18.2 |
| rs117896735 | 10:121372328–121710488 | 10q26.1 | 4 | 9.63 × 10−1 | 8.46 × 10−9 | 1.94 × 10−9 | PD | Intronic | INPP5F |
| rs12453 | 11:59856028–60041296 | 11q12.2 | 1 | 2.16 × 10−1 | 9.52 × 10−9 | 2.72 × 10−27 | LBD, AD | Exonic | MS4A6A |
| rs7185007 | 16:30571910–31155458 | 16p11.2 | 145 | 6.65 × 10−3 | 6.10 × 10−14 | 1.05 × 10−11 | LBD, AD, PD | Intergenic | FBXL19-AS1 |
| rs6502490 | 17:15868291–16240507 | 17p12 | 1 | 4.13 × 10−2 | 4.46 × 10−8 | 6.19 × 10−8 | LBD, PD | Intronic | NCOR1 |
| rs2532307 | 17:43460181–44865603 | 17q21.31 | 1605 | 4.83 × 10−2 | 3.84 × 10−26 | 3.68 × 10−21 | LBD, PD | Intronic | KANSL1 |
| rs157595 | 19:45192348–45734751 | 19q13.32 | 185 | 1.58 × 10−19 | 4.24 × 10−145 | 1.39 × 10−205 | LBD, AD | Intergenic | APOC1 |
Genomic risk loci are identified by FUMA merging the LD blocks of independent significant SNPs that are closely located to each other (< 250 kb); chromosome loci represent the chromosomal regions containing genomic risk loci; n.sig represents the number of SNPs with Pmtag < 5 × 10−8 in the locus; trait subset is the optimal trait subset of top SNP identified by ASSET