Best TWAS P=4.46e-19 · Best GWAS P=7.06e-19 conditioned to 1
| # | 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 | RAVER1 | 0.06 | 0.03 | bslmm | 388 | 0.04 | 2.5e-05 | -2.0 | -5.7 | 1.0e-08 | -0.48 | 0.21 | 0.34 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | S1PR2 | 0.07 | 0.02 | bslmm | 369 | 0.03 | 5.3e-05 | -5.3 | 6.3 | 2.7e-10 | 0.31 | 0.32 | 0.14 | FALSE |
| 3 | CommonMind | Brain Pre-frontal Cortex | ZNF788 | 0.08 | 0.05 | lasso | 6 | 0.04 | 5.9e-06 | 5.6 | 5.5 | 3.4e-08 | -0.09 | 0.01 | 0.99 | TRUE |
| 4 | GTEx | Adipose Subcutaneous | EPOR | 0.11 | 0.04 | lasso | 7 | 0.04 | 3.8e-04 | 4.8 | 5.5 | 5.1e-08 | 0.39 | 0.01 | 0.98 | FALSE |
| 5 | GTEx | Esophagus Mucosa | SLC44A2 | 0.13 | 0.00 | lasso | 6 | 0.02 | 1.4e-02 | 5.1 | -6.3 | 2.2e-10 | -0.46 | 0.06 | 0.62 | FALSE |
| 6 | GTEx | Esophagus Mucosa | ILF3-AS1 | 0.11 | 0.00 | lasso | 4 | 0.00 | 2.5e-01 | 8.9 | -7.6 | 4.1e-14 | -0.77 | 0.02 | 0.89 | FALSE |
| 7 | GTEx | Muscle Skeletal | SLC44A2 | 0.19 | 0.18 | lasso | 5 | 0.19 | 5.1e-18 | 7.1 | 7.7 | 1.6e-14 | 0.79 | 0.82 | 0.18 | FALSE |
| 8 | GTEx | Nerve Tibial | ILF3-AS1 | 0.14 | 0.04 | lasso | 3 | 0.08 | 3.8e-06 | 8.8 | -7.7 | 2.0e-14 | -0.77 | 0.01 | 0.98 | FALSE |
| 9 | GTEx | Skin Sun Exposed Lower leg | SMARCA4 | 0.15 | 0.10 | enet | 25 | 0.15 | 1.4e-12 | 3.4 | -6.1 | 1.0e-09 | -0.61 | 1.00 | 0.00 | FALSE |
| 10 | GTEx | Testis | PDE4A | 0.20 | 0.02 | enet | 39 | 0.04 | 6.4e-03 | 5.2 | 6.2 | 5.5e-10 | 0.06 | 0.06 | 0.04 | TRUE |
| 11 | GTEx | Vagina | CTD-2369P2.2 | 0.50 | -0.01 | lasso | 9 | 0.01 | 2.0e-01 | 5.6 | 5.6 | 1.8e-08 | 0.01 | 0.22 | 0.11 | TRUE |
| 12 | GTEx | Whole Blood | SLC44A2 | 0.11 | 0.01 | enet | 30 | 0.02 | 5.2e-03 | 7.0 | -5.2 | 2.4e-07 | -0.60 | 0.03 | 0.89 | FALSE |
| 13 | GTEx | Whole Blood | CTD-2369P2.8 | 0.12 | 0.11 | lasso | 3 | 0.10 | 9.2e-10 | 5.9 | 6.4 | 1.6e-10 | 0.06 | 1.00 | 0.00 | TRUE |
| 14 | NTR | Blood | SMARCA4 | 0.07 | 0.06 | lasso | 11 | 0.06 | 9.0e-18 | 5.5 | -6.0 | 1.5e-09 | -0.43 | 1.00 | 0.00 | FALSE |
| 15 | ROSMAP | Brain Pre-frontal Cortex | AP1M2 | 0.09 | 0.01 | lasso | 5 | 0.03 | 3.3e-05 | 5.1 | 5.3 | 1.0e-07 | 0.37 | 0.13 | 0.19 | FALSE |
| 16 | ROSMAP | Brain Pre-frontal Cortex | ILF3-AS1 | 0.15 | 0.04 | bslmm | 354 | 0.18 | 7.1e-22 | -1.3 | -6.0 | 2.5e-09 | -0.61 | 0.05 | 0.95 | FALSE |
| 17 | The Cancer Genome Atlas | Breast Invasive Carcinoma | S1PR2 | 0.02 | 0.00 | blup | 32 | 0.01 | 1.5e-02 | -6.1 | 6.3 | 3.7e-10 | 0.04 | 0.00 | 0.65 | TRUE |
| 18 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | FDX1L | 0.06 | 0.02 | lasso | 3 | 0.04 | 2.4e-05 | -4.4 | -5.8 | 6.5e-09 | -0.04 | 0.23 | 0.08 | TRUE |
| 19 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | LOC147727 | 0.13 | 0.02 | blup | 28 | 0.04 | 7.2e-05 | 8.8 | -7.0 | 3.2e-12 | -0.76 | 0.01 | 0.90 | FALSE |
| 20 | The Cancer Genome Atlas | Brain Lower Grade Glioma | FDX1L | 0.06 | 0.00 | blup | 53 | 0.02 | 5.1e-03 | -4.4 | -5.7 | 1.5e-08 | 0.05 | 0.01 | 0.04 | FALSE |
| 21 | The Cancer Genome Atlas | Brain Lower Grade Glioma | LOC147727 | 0.07 | 0.02 | lasso | 2 | 0.02 | 5.4e-03 | 8.9 | -8.9 | 4.5e-19 | -0.99 | 0.01 | 0.87 | TRUE |
| 22 | The Cancer Genome Atlas | Thyroid Carcinoma | SLC44A2 | 0.32 | 0.22 | enet | 14 | 0.25 | 3.8e-24 | 8.2 | 6.6 | 5.2e-11 | 0.85 | 0.64 | 0.36 | FALSE |