Best TWAS P=2.18e-10 · Best GWAS P=3.93e-09 conditioned to 0.92
| # | 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 | SHISA4 | 0.30 | 0.22 | lasso | 3 | 0.21 | 3.1e-25 | -5.7 | 5.7 | 1.2e-08 | -0.97 | 0.01 | 0.99 | FALSE |
| 2 | GTEx | Brain Caudate basal ganglia | SHISA4 | 0.31 | 0.20 | lasso | 6 | 0.16 | 2.6e-05 | -5.7 | 5.7 | 9.8e-09 | -0.95 | 0.01 | 0.99 | FALSE |
| 3 | GTEx | Esophagus Muscularis | LMOD1 | 0.16 | 0.09 | enet | 9 | 0.08 | 7.8e-06 | 5.0 | -5.7 | 1.6e-08 | 0.50 | 0.22 | 0.77 | FALSE |
| 4 | GTEx | Esophagus Muscularis | RP11-307B6.3 | 0.20 | 0.12 | lasso | 3 | 0.12 | 5.6e-08 | 5.0 | -5.8 | 7.6e-09 | 0.54 | 0.25 | 0.75 | FALSE |
| 5 | GTEx | Thyroid | SHISA4 | 0.47 | 0.45 | lasso | 4 | 0.47 | 1.3e-39 | -5.6 | 5.8 | 8.0e-09 | -0.97 | 0.01 | 0.99 | FALSE |
| 6 | METSIM | Adipose | LMOD1 | 0.09 | 0.07 | bslmm | 496 | 0.07 | 4.8e-10 | 5.1 | -5.3 | 1.2e-07 | 0.39 | 0.31 | 0.69 | FALSE |
| 7 | YFS | Blood | IPO9 | 0.05 | 0.04 | lasso | 9 | 0.04 | 5.5e-14 | -5.7 | -6.3 | 2.2e-10 | 0.92 | 0.01 | 0.99 | TRUE |
| 8 | The Cancer Genome Atlas | Breast Invasive Carcinoma | SHISA4 | 0.02 | 0.02 | lasso | 3 | 0.02 | 3.4e-05 | -5.7 | 5.6 | 2.0e-08 | -0.98 | 0.01 | 0.98 | FALSE |
| 9 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | SHISA4 | 0.12 | 0.10 | lasso | 3 | 0.10 | 1.9e-11 | -5.9 | 5.2 | 1.8e-07 | -0.98 | 0.00 | 1.00 | FALSE |
| 10 | The Cancer Genome Atlas | Skin Cutaneous Melanoma | SHISA4 | 0.22 | 0.14 | lasso | 5 | 0.10 | 1.4e-03 | -5.7 | 5.7 | 1.4e-08 | -0.97 | 0.00 | 0.88 | FALSE |
| 11 | The Cancer Genome Atlas | Thyroid Carcinoma | SHISA4 | 0.30 | 0.35 | lasso | 2 | 0.35 | 4.8e-35 | -5.7 | 5.8 | 9.1e-09 | -0.98 | 0.01 | 0.99 | FALSE |