Best TWAS P=1.32e-10 · Best GWAS P=1.01e-10 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 | KCNH6 | 0.04 | 0.02 | enet | 9 | 0.04 | 1.4e-05 | -6.3 | -6.0 | 2.4e-09 | 0.79 | 0.05 | 0.94 | FALSE |
| 2 | GTEx | Adipose Subcutaneous | CD79B | 0.15 | 0.16 | enet | 9 | 0.17 | 3.5e-14 | 5.3 | -5.7 | 1.2e-08 | 0.49 | 0.90 | 0.10 | FALSE |
| 3 | GTEx | Adipose Subcutaneous | MAP3K3 | 0.09 | 0.07 | lasso | 6 | 0.07 | 3.5e-06 | -6.3 | -6.2 | 4.5e-10 | 0.99 | 0.03 | 0.97 | FALSE |
| 4 | GTEx | Adipose Visceral Omentum | MAP3K3 | 0.10 | 0.04 | enet | 12 | 0.05 | 9.0e-04 | -6.3 | -6.0 | 1.7e-09 | 0.84 | 0.03 | 0.92 | TRUE |
| 5 | GTEx | Artery Tibial | MAP3K3 | 0.05 | 0.07 | lasso | 5 | 0.07 | 2.9e-06 | -5.4 | -5.6 | 2.0e-08 | 0.92 | 0.05 | 0.94 | FALSE |
| 6 | GTEx | Brain Nucleus accumbens basal ganglia | DDX42 | 0.23 | 0.04 | lasso | 12 | 0.07 | 8.1e-03 | -6.3 | 5.8 | 5.9e-09 | -0.82 | 0.04 | 0.84 | FALSE |
| 7 | GTEx | Breast Mammary Tissue | MAP3K3 | 0.10 | 0.11 | lasso | 8 | 0.08 | 8.9e-05 | -6.3 | -6.4 | 1.5e-10 | 0.98 | 0.03 | 0.97 | FALSE |
| 8 | GTEx | Breast Mammary Tissue (Male) | MAP3K3 | 0.12 | 0.14 | lasso | 2 | 0.07 | 1.2e-02 | -6.4 | -5.6 | 2.2e-08 | 0.93 | 0.03 | 0.80 | FALSE |
| 9 | GTEx | Breast Mammary Tissue (Female) | CD79B | 0.04 | 0.07 | lasso | 2 | 0.03 | 4.2e-02 | 6.0 | -5.8 | 5.8e-09 | 0.39 | 0.04 | 0.20 | FALSE |
| 10 | GTEx | Breast Mammary Tissue (Female) | DCAF7 | 0.10 | 0.02 | lasso | 3 | 0.00 | 4.4e-01 | -5.7 | -5.8 | 5.5e-09 | 0.93 | 0.04 | 0.53 | FALSE |
| 11 | GTEx | Breast Mammary Tissue (Female) | MAP3K3 | 0.07 | 0.01 | lasso | 1 | 0.00 | 4.1e-01 | -6.2 | -6.2 | 5.0e-10 | 0.99 | 0.03 | 0.51 | FALSE |
| 12 | GTEx | Cells EBV-transformed lymphocytes | DDX42 | 0.11 | 0.14 | lasso | 2 | 0.12 | 1.3e-04 | -6.3 | 6.3 | 3.6e-10 | -0.99 | 0.03 | 0.90 | FALSE |
| 13 | GTEx | Cells Transformed fibroblasts | PSMC5 | 0.19 | 0.09 | lasso | 5 | 0.10 | 7.1e-08 | 5.7 | 6.0 | 1.5e-09 | -0.40 | 0.43 | 0.55 | TRUE |
| 14 | GTEx | Esophagus Mucosa | DDX42 | 0.08 | 0.06 | lasso | 3 | 0.09 | 1.3e-06 | -6.3 | 5.2 | 1.8e-07 | -0.95 | 0.03 | 0.97 | FALSE |
| 15 | GTEx | Esophagus Mucosa | STRADA | 0.05 | 0.07 | lasso | 2 | 0.05 | 1.9e-04 | 5.5 | 5.5 | 3.7e-08 | -0.41 | 0.26 | 0.19 | FALSE |
| 16 | GTEx | Esophagus Muscularis | DCAF7 | 0.08 | 0.06 | lasso | 7 | 0.05 | 6.7e-04 | -6.2 | -6.3 | 3.6e-10 | 0.98 | 0.03 | 0.95 | FALSE |
| 17 | GTEx | Lung | MAP3K3 | 0.07 | 0.07 | lasso | 2 | 0.06 | 2.8e-05 | -6.4 | -6.4 | 1.3e-10 | 0.97 | 0.03 | 0.97 | TRUE |
| 18 | GTEx | Nerve Tibial | MAP3K3 | 0.07 | 0.10 | lasso | 2 | 0.08 | 4.1e-06 | -6.3 | -6.3 | 2.8e-10 | 0.98 | 0.03 | 0.97 | FALSE |
| 19 | GTEx | Pancreas | DDX42 | 0.17 | 0.18 | lasso | 3 | 0.16 | 3.6e-07 | -6.2 | 5.2 | 1.7e-07 | -0.96 | 0.04 | 0.96 | FALSE |
| 20 | GTEx | Pancreas | MAP3K3 | 0.10 | 0.08 | lasso | 4 | 0.07 | 9.0e-04 | -6.3 | -5.2 | 2.1e-07 | 0.89 | 0.03 | 0.81 | TRUE |
| 21 | GTEx | Pituitary | MAP3K3 | 0.11 | 0.07 | lasso | 6 | 0.04 | 3.5e-02 | -6.2 | -5.9 | 4.3e-09 | 0.97 | 0.05 | 0.66 | FALSE |
| 22 | GTEx | Skin Not Sun Exposed Suprapubic | MAP3K3 | 0.12 | 0.13 | enet | 10 | 0.15 | 1.8e-08 | -6.3 | -6.3 | 3.0e-10 | 0.99 | 0.03 | 0.97 | FALSE |
| 23 | GTEx | Skin Sun Exposed Lower leg | DDX42 | 0.07 | 0.04 | lasso | 4 | 0.05 | 2.5e-05 | -6.5 | 5.5 | 4.8e-08 | -0.98 | 0.02 | 0.98 | FALSE |
| 24 | GTEx | Skin Sun Exposed Lower leg | MAP3K3 | 0.08 | 0.08 | lasso | 3 | 0.08 | 6.8e-07 | -6.3 | -6.1 | 1.1e-09 | 0.98 | 0.03 | 0.97 | FALSE |
| 25 | GTEx | Spleen | MAP3K3 | 0.21 | 0.14 | lasso | 10 | 0.10 | 1.4e-03 | -6.3 | -6.2 | 4.6e-10 | 0.97 | 0.03 | 0.93 | FALSE |
| 26 | GTEx | Stomach | DCAF7 | 0.24 | 0.00 | enet | 33 | 0.08 | 1.2e-04 | -1.6 | -6.2 | 5.4e-10 | 0.40 | 0.04 | 0.48 | TRUE |
| 27 | GTEx | Testis | PSMC5 | 0.14 | 0.13 | lasso | 6 | 0.14 | 6.0e-07 | -6.5 | 6.4 | 1.6e-10 | -0.99 | 0.03 | 0.97 | FALSE |
| 28 | NTR | Blood | MAP3K3 | 0.02 | 0.01 | lasso | 2 | 0.01 | 2.0e-04 | -5.3 | 5.9 | 3.2e-09 | -0.84 | 0.30 | 0.70 | TRUE |
| 29 | YFS | Blood | LIMD2 | 0.03 | 0.03 | enet | 11 | 0.03 | 3.6e-11 | -5.7 | 5.9 | 4.0e-09 | -0.84 | 0.24 | 0.76 | FALSE |
| 30 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CD79B | 0.02 | 0.02 | lasso | 2 | 0.01 | 3.0e-03 | 5.2 | -5.1 | 2.8e-07 | 0.34 | 0.02 | 0.38 | TRUE |
| 31 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | STRADA | 0.05 | 0.03 | lasso | 1 | 0.02 | 1.7e-03 | 5.7 | 5.7 | 9.9e-09 | -0.42 | 0.04 | 0.12 | FALSE |
| 32 | The Cancer Genome Atlas | Brain Lower Grade Glioma | SMARCD2 | 0.08 | 0.04 | blup | 28 | 0.04 | 5.1e-05 | -6.5 | -5.6 | 2.1e-08 | 0.98 | 0.00 | 1.00 | FALSE |
| 33 | The Cancer Genome Atlas | Brain Lower Grade Glioma | STRADA | 0.03 | 0.00 | blup | 57 | 0.01 | 5.2e-02 | 5.7 | -5.3 | 1.2e-07 | 0.24 | 0.03 | 0.06 | FALSE |
| 34 | The Cancer Genome Atlas | Lung Adenocarcinoma | SMARCD2 | 0.04 | 0.02 | blup | 28 | 0.01 | 1.6e-02 | -6.3 | -5.3 | 1.1e-07 | 0.97 | 0.00 | 0.78 | FALSE |
| 35 | The Cancer Genome Atlas | Prostate Adenocarcinoma | PSMC5 | 0.04 | 0.03 | lasso | 1 | 0.03 | 5.6e-04 | 5.7 | 5.7 | 9.5e-09 | -0.42 | 0.06 | 0.65 | FALSE |
| 36 | The Cancer Genome Atlas | Thyroid Carcinoma | MAP3K3 | 0.02 | 0.02 | blup | 52 | 0.01 | 1.4e-02 | -6.4 | -5.8 | 4.9e-09 | 0.98 | 0.02 | 0.75 | FALSE |