Best TWAS P=1.95e-25 · Best GWAS P=4.57e-24 conditioned to 0.00231
| # | 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 | Adipose Subcutaneous | RP3-467L1.6 | 0.08 | 0.00 | enet | 3 | 0.01 | 8.3e-02 | -7.95 | -7.9 | 2.3e-15 | -0.33 | 0.09 | 0.36 | FALSE |
| 2 | GTEx | Artery Aorta | VAMP3 | 0.26 | 0.17 | lasso | 6 | 0.13 | 1.8e-07 | 10.06 | 8.8 | 1.5e-18 | 0.96 | 0.00 | 1.00 | FALSE |
| 3 | GTEx | Artery Coronary | VAMP3 | 0.40 | 0.17 | lasso | 6 | 0.19 | 4.0e-07 | 10.06 | 9.2 | 2.6e-20 | 0.97 | 0.00 | 1.00 | FALSE |
| 4 | GTEx | Artery Tibial | VAMP3 | 0.20 | 0.05 | enet | 22 | 0.11 | 5.8e-09 | 7.42 | 6.6 | 5.7e-11 | 0.69 | 0.01 | 0.99 | FALSE |
| 5 | GTEx | Cells Transformed fibroblasts | VAMP3 | 0.19 | 0.13 | lasso | 4 | 0.12 | 1.7e-09 | 10.06 | 9.5 | 2.7e-21 | 0.98 | 0.00 | 1.00 | FALSE |
| 6 | GTEx | Esophagus Mucosa | VAMP3 | 0.23 | 0.10 | lasso | 5 | 0.10 | 6.6e-07 | 10.06 | 10.3 | 5.8e-25 | 0.99 | 0.00 | 1.00 | FALSE |
| 7 | GTEx | Esophagus Muscularis | VAMP3 | 0.22 | 0.14 | lasso | 3 | 0.11 | 3.5e-07 | 10.06 | 10.1 | 7.9e-24 | 1.00 | 0.00 | 1.00 | FALSE |
| 8 | GTEx | Prostate | RP3-467L1.6 | 0.50 | 0.01 | enet | 31 | 0.08 | 4.2e-03 | -7.95 | -6.5 | 6.2e-11 | -0.32 | 0.04 | 0.29 | FALSE |
| 9 | GTEx | Whole Blood | VAMP3 | 0.08 | 0.00 | lasso | 4 | 0.00 | 1.7e-01 | 10.06 | 6.3 | 3.7e-10 | 0.88 | 0.01 | 0.90 | FALSE |
| 10 | NTR | Blood | TNFRSF9 | 0.02 | 0.00 | enet | 18 | 0.00 | 8.1e-03 | 9.06 | 8.9 | 4.2e-19 | 0.43 | 0.04 | 0.60 | TRUE |
| 11 | NTR | Blood | VAMP3 | 0.03 | 0.02 | lasso | 2 | 0.02 | 2.2e-07 | 10.06 | 10.1 | 5.6e-24 | 0.98 | 0.00 | 1.00 | FALSE |
| 12 | ROSMAP | Brain Pre-frontal Cortex | VAMP3 | 0.16 | 0.12 | enet | 41 | 0.11 | 1.7e-14 | 9.99 | 6.3 | 3.0e-10 | 0.77 | 0.00 | 1.00 | FALSE |
| 13 | YFS | Blood | VAMP3 | 0.12 | 0.11 | enet | 20 | 0.12 | 1.7e-38 | 10.12 | 7.8 | 8.2e-15 | 0.91 | 0.00 | 1.00 | FALSE |
| 14 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | VAMP3 | 0.07 | 0.04 | lasso | 3 | 0.06 | 3.7e-06 | -0.93 | 6.6 | 4.5e-11 | 0.76 | 0.02 | 0.97 | FALSE |
| 15 | The Cancer Genome Atlas | Breast Invasive Carcinoma | VAMP3 | 0.08 | 0.05 | enet | 15 | 0.06 | 4.3e-12 | 7.42 | 8.8 | 1.3e-18 | 0.89 | 0.01 | 0.99 | FALSE |
| 16 | The Cancer Genome Atlas | Colon Adenocarcinoma | VAMP3 | 0.12 | 0.02 | blup | 58 | 0.06 | 3.0e-04 | 10.06 | 5.5 | 3.8e-08 | 0.72 | 0.00 | 0.89 | FALSE |
| 17 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | VAMP3 | 0.07 | 0.01 | blup | 58 | 0.04 | 4.4e-05 | 10.05 | 6.3 | 3.4e-10 | 0.81 | 0.00 | 0.95 | FALSE |
| 18 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | VAMP3 | 0.06 | 0.00 | blup | 58 | 0.02 | 1.6e-03 | 10.06 | 10.4 | 1.9e-25 | 0.80 | 0.01 | 0.89 | TRUE |
| 19 | The Cancer Genome Atlas | Brain Lower Grade Glioma | VAMP3 | 0.05 | 0.03 | enet | 11 | 0.03 | 9.1e-05 | 10.12 | 8.2 | 2.3e-16 | 0.83 | 0.00 | 0.98 | FALSE |
| 20 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | VAMP3 | 0.08 | 0.03 | blup | 58 | 0.04 | 2.7e-05 | -2.57 | 7.5 | 5.9e-14 | 0.78 | 0.01 | 0.99 | FALSE |
| 21 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | VAMP3 | 0.08 | 0.07 | lasso | 1 | 0.06 | 1.2e-04 | 10.12 | 10.1 | 4.6e-24 | 1.00 | 0.00 | 0.99 | FALSE |
| 22 | The Cancer Genome Atlas | Prostate Adenocarcinoma | VAMP3 | 0.11 | 0.10 | lasso | 4 | 0.08 | 3.3e-09 | 10.05 | 9.8 | 7.1e-23 | 0.99 | 0.00 | 1.00 | FALSE |
| 23 | The Cancer Genome Atlas | Thyroid Carcinoma | VAMP3 | 0.25 | 0.21 | enet | 18 | 0.20 | 4.0e-19 | 10.06 | 9.8 | 8.8e-23 | 0.93 | 0.00 | 1.00 | FALSE |