Best TWAS P=4.34e-16 · Best GWAS P=1.49e-15 conditioned to 0.0163
# | Study | Tissue | Gene | h2 | eQTL R2 | model | # weights | model R2 | model R2 P | eQTL GWAS Z | TWAS Z | TWAS P | Top SNP corr | PP3 | PP4 | joint |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | CommonMind | Brain Pre-frontal Cortex | KIAA0146 | 0.06 | 0.07 | lasso | 5 | 0.07 | 3.0e-09 | 7.2 | -6.7 | 2.3e-11 | -0.51 | 0.25 | 0.75 | FALSE |
2 | CommonMind | Brain Pre-frontal Cortex | LOC100287846 | 0.02 | 0.00 | blup | 149 | 0.01 | 2.9e-02 | 4.9 | -5.8 | 6.6e-09 | -0.48 | 0.15 | 0.25 | FALSE |
3 | CommonMind | Brain Pre-frontal Cortex | MCM4 | 0.29 | 0.10 | enet | 36 | 0.17 | 1.7e-20 | 4.9 | -7.8 | 6.3e-15 | -0.64 | 0.01 | 0.99 | FALSE |
4 | GTEx | Adipose Visceral Omentum | RP11-697N18.3 | 0.10 | 0.12 | enet | 11 | 0.11 | 3.1e-06 | 6.3 | 7.4 | 1.5e-13 | 0.67 | 0.09 | 0.88 | FALSE |
5 | GTEx | Brain Frontal Cortex BA9 | SPIDR | 0.19 | 0.12 | lasso | 18 | 0.14 | 1.9e-04 | 7.3 | -8.1 | 4.3e-16 | -0.62 | 0.06 | 0.89 | TRUE |
6 | GTEx | Testis | MCM4 | 0.11 | 0.00 | enet | 31 | 0.01 | 1.1e-01 | 5.0 | -6.6 | 3.4e-11 | -0.59 | 0.01 | 0.93 | FALSE |
7 | METSIM | Adipose | MCM4 | 0.14 | 0.00 | enet | 33 | 0.06 | 1.6e-09 | 4.8 | -6.2 | 5.4e-10 | -0.60 | 0.06 | 0.71 | FALSE |
8 | ROSMAP | Brain Pre-frontal Cortex | MCM4 | 0.20 | 0.02 | bslmm | 184 | 0.08 | 2.8e-10 | 5.0 | -7.5 | 5.6e-14 | -0.68 | 0.01 | 0.99 | TRUE |
9 | ROSMAP | Brain Pre-frontal Cortex | SPIDR | 0.08 | 0.07 | enet | 14 | 0.07 | 1.3e-09 | 6.6 | -6.8 | 9.6e-12 | -0.59 | 0.26 | 0.74 | FALSE |
10 | ROSMAP | Brain Pre-frontal Cortex | RP11-1134I14.8 | 0.06 | 0.04 | blup | 125 | 0.05 | 1.9e-07 | 5.7 | -6.5 | 9.0e-11 | -0.49 | 0.12 | 0.88 | FALSE |
11 | The Cancer Genome Atlas | Brain Lower Grade Glioma | MCM4 | 0.05 | 0.04 | lasso | 2 | 0.04 | 5.1e-05 | 5.8 | -5.7 | 1.1e-08 | -0.33 | 0.00 | 0.98 | FALSE |
12 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | MCM4 | 0.19 | 0.10 | enet | 1 | 0.10 | 3.1e-05 | 5.8 | -5.8 | 5.7e-09 | -0.42 | 0.00 | 0.99 | FALSE |