Best TWAS P=6.41e-15 · Best GWAS P=1.27e-11 conditioned to 0.0514
| # | 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 | GTEx | Artery Tibial | EIF4E2 | 0.09 | 0.06 | lasso | 1 | 0.05 | 1.7e-04 | 5.3 | -5.3 | 1.2e-07 | 0.00 | 0.76 | 0.04 | FALSE |
| 2 | GTEx | Brain Cerebellar Hemisphere | PTMA | 0.28 | 0.12 | enet | 19 | 0.06 | 1.5e-02 | -5.2 | 5.1 | 2.6e-07 | -0.52 | 0.05 | 0.53 | FALSE |
| 3 | GTEx | Brain Frontal Cortex BA9 | C2orf82 | 0.24 | 0.16 | lasso | 10 | 0.12 | 3.9e-04 | -4.5 | 5.2 | 1.6e-07 | 0.01 | 0.04 | 0.93 | FALSE |
| 4 | GTEx | Brain Putamen basal ganglia | C2orf82 | 0.28 | 0.22 | lasso | 3 | 0.18 | 5.3e-05 | -4.5 | 5.4 | 7.9e-08 | 0.00 | 0.04 | 0.78 | FALSE |
| 5 | GTEx | Heart Atrial Appendage | COPS7B | 0.22 | 0.01 | lasso | 6 | 0.01 | 1.3e-01 | -5.2 | -5.8 | 6.0e-09 | 0.74 | 0.04 | 0.28 | FALSE |
| 6 | GTEx | Liver | PDE6D | 0.21 | 0.10 | lasso | 4 | 0.09 | 1.8e-03 | -6.7 | -6.9 | 7.2e-12 | 0.71 | 0.02 | 0.89 | TRUE |
| 7 | ROSMAP | Brain Pre-frontal Cortex | NCL | 0.16 | 0.05 | lasso | 6 | 0.08 | 6.1e-10 | 3.5 | 5.3 | 1.2e-07 | 0.05 | 0.08 | 0.91 | FALSE |
| 8 | YFS | Blood | EIF4E2 | 0.06 | 0.04 | enet | 27 | 0.04 | 2.8e-13 | 5.3 | 5.9 | 3.9e-09 | -0.02 | 0.96 | 0.04 | FALSE |
| 9 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | C2orf52 | 0.28 | 0.12 | lasso | 6 | 0.12 | 2.0e-06 | -5.4 | 5.5 | 4.9e-08 | -0.01 | 0.01 | 0.99 | FALSE |
| 10 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | EFHD1 | 0.11 | 0.01 | blup | 70 | 0.03 | 1.0e-02 | 5.3 | 7.8 | 6.4e-15 | -0.02 | 0.01 | 0.79 | TRUE |
| 11 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | KCNJ13 | 0.07 | 0.06 | enet | 13 | 0.05 | 4.7e-04 | -6.1 | 5.1 | 2.7e-07 | -0.02 | 0.02 | 0.92 | FALSE |
| 12 | The Cancer Genome Atlas | Brain Lower Grade Glioma | GIGYF2 | 0.02 | 0.01 | lasso | 3 | 0.01 | 5.3e-02 | -6.1 | -6.2 | 7.3e-10 | 0.00 | 0.03 | 0.88 | FALSE |
| 13 | The Cancer Genome Atlas | Brain Lower Grade Glioma | NGEF | 0.03 | 0.01 | blup | 130 | 0.01 | 2.0e-02 | -6.0 | 5.1 | 2.7e-07 | -0.01 | 0.02 | 0.90 | FALSE |
| 14 | The Cancer Genome Atlas | Lung Adenocarcinoma | CHRNG | 0.04 | 0.00 | blup | 58 | 0.00 | 1.3e-01 | 2.9 | -5.9 | 4.7e-09 | 0.11 | 0.01 | 0.31 | TRUE |
| 15 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | C2orf52 | 0.28 | 0.18 | lasso | 4 | 0.20 | 3.7e-22 | -5.4 | 5.1 | 2.6e-07 | -0.02 | 0.00 | 1.00 | FALSE |
| 16 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | KCNJ13 | 0.07 | 0.07 | blup | 36 | 0.06 | 2.4e-03 | -6.1 | 5.9 | 4.0e-09 | 0.00 | 0.01 | 0.87 | FALSE |
| 17 | The Cancer Genome Atlas | Prostate Adenocarcinoma | GIGYF2 | 0.04 | 0.00 | blup | 103 | 0.02 | 2.1e-03 | -4.6 | -5.6 | 2.0e-08 | 0.02 | 0.04 | 0.81 | FALSE |
| 18 | The Cancer Genome Atlas | Skin Cutaneous Melanoma | C2orf52 | 0.21 | 0.20 | lasso | 1 | 0.18 | 1.4e-05 | -5.4 | 5.4 | 5.5e-08 | 0.00 | 0.00 | 0.94 | TRUE |
| 19 | The Cancer Genome Atlas | Stomach Adenocarcinoma | KCNJ13 | 0.09 | 0.06 | blup | 36 | 0.08 | 3.8e-06 | -6.1 | 5.2 | 2.5e-07 | 0.00 | 0.01 | 0.98 | FALSE |
| 20 | The Cancer Genome Atlas | Thyroid Carcinoma | KCNJ13 | 0.03 | 0.00 | blup | 35 | 0.01 | 4.3e-02 | 5.3 | -6.8 | 1.1e-11 | 0.00 | 0.01 | 0.56 | FALSE |
| 21 | The Cancer Genome Atlas | Thyroid Carcinoma | NGEF | 0.04 | 0.03 | enet | 7 | 0.03 | 5.6e-04 | 5.4 | -6.4 | 1.6e-10 | 0.01 | 0.04 | 0.94 | FALSE |