Table 4 Results by colocalization analysis of eQTL data for Brain nucleus accumbens basal ganglia and GWAS data for AD
Gene | SNP | Location | Proximity | eQTL pval |
|---|---|---|---|---|
PVRIG | rs1061230 | chr7:99645201 | cis | 1.82e−08 |
KAT8 | rs10871454 | chr16:30955580 | cis | 3.75e−06 |
PRSS36 | rs1060506 | chr16:31040950 | cis | 8.60e−14 |
STAG3 | rs1138417 | chr7:99645082 | cis | 1.24e−11 |
SIGLEC11 | rs10405621 | chr19:55147163 | cis | 3.19e−06 |
CEBPZ-AS1 | rs11124575 | chr2:37353939 | cis | 6.36e−06 |
NUDT2 | rs10814087 | chr9:34255763 | cis | 6.32e−12 |
AP4M1 | rs10281368 | chr7:99493833 | cis | 8.68e−07 |
CYP2D7P | rs1033460 | chr22:40949252 | cis | 9.91e−11 |
GWAS pval | LBF | Nearby genes | Nearby TF | p-value |
|---|---|---|---|---|
3.50e−06 | 7.39 | STAG3, GPC2, more… | No | 5.72E−06 |
1.46e−06 | 7.27 | STX1B, PRSS53, more… | Yes | 5.72E−06 |
1.18e−05 | 7.13 | KAT8, PRSS53, more… | Yes | 5.72E−06 |
3.38e−06 | 6.73 | STAG3, GPC2, more… | No | 1.14E−05 |
9.35e−05 | 5.76 | MIR4751, NUP62, more… | Yes | 5.72E−05 |
8.37e−05 | 4.89 | CEBPZ, NDUFAF7, more… | Yes | 1.37E−04 |
6.47e−04 | 3.54 | KIF24, UBAP1 | No | 6.63E−04 |
3.94e−04 | 3.53 | MCM7, ZNF3, TAF6, more… | Yes | 6.75E−04 |
7.34e−04 | 3.33 | TCF20, OGFRP1 | Yes | 7.89E−04 |