Best TWAS P=1.68e-24 · Best GWAS P=1.36e-23 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 | GTEx | Adipose Subcutaneous | PIP4K2B | 0.15 | 0.07 | lasso | 5 | 0.07 | 2.2e-06 | -10.0 | -9.2 | 2.9e-20 | 0.95 | 0.00 | 1.00 | FALSE |
| 2 | GTEx | Adipose Subcutaneous | MSL1 | 0.15 | 0.12 | lasso | 2 | 0.12 | 3.9e-10 | 6.7 | -6.7 | 2.2e-11 | -0.03 | 1.00 | 0.00 | FALSE |
| 3 | GTEx | Adrenal Gland | SNORD124 | 0.22 | 0.01 | lasso | 6 | 0.02 | 4.8e-02 | -5.4 | 5.8 | 8.2e-09 | 0.01 | 0.04 | 0.17 | TRUE |
| 4 | GTEx | Artery Aorta | PSMB3 | 0.23 | 0.17 | enet | 26 | 0.22 | 2.1e-12 | -10.0 | -8.3 | 1.1e-16 | 0.84 | 0.00 | 1.00 | FALSE |
| 5 | GTEx | Artery Tibial | PSMB3 | 0.10 | 0.02 | enet | 12 | 0.03 | 1.2e-03 | -10.0 | -8.0 | 9.0e-16 | 0.73 | 0.00 | 1.00 | FALSE |
| 6 | GTEx | Artery Tibial | PIP4K2B | 0.37 | 0.16 | enet | 49 | 0.22 | 2.1e-17 | -10.0 | -8.9 | 7.6e-19 | 0.76 | 0.00 | 1.00 | FALSE |
| 7 | GTEx | Artery Tibial | MSL1 | 0.19 | 0.14 | lasso | 2 | 0.15 | 4.9e-12 | 6.7 | -7.3 | 2.8e-13 | -0.04 | 1.00 | 0.00 | TRUE |
| 8 | GTEx | Breast Mammary Tissue | MSL1 | 0.20 | 0.06 | lasso | 6 | 0.07 | 2.2e-04 | 6.7 | -6.4 | 1.9e-10 | -0.03 | 0.40 | 0.14 | FALSE |
| 9 | GTEx | Breast Mammary Tissue (Female) | MSL1 | 0.09 | 0.00 | enet | 9 | 0.03 | 5.8e-02 | 6.7 | -6.5 | 1.0e-10 | -0.07 | 0.03 | 0.08 | FALSE |
| 10 | GTEx | Colon Transverse | MSL1 | 0.18 | 0.11 | lasso | 3 | 0.05 | 2.1e-03 | 6.7 | -7.1 | 1.6e-12 | -0.03 | 0.23 | 0.04 | FALSE |
| 11 | GTEx | Esophagus Mucosa | CWC25 | 0.11 | 0.07 | enet | 7 | 0.05 | 1.5e-04 | -5.7 | -6.1 | 1.2e-09 | 0.47 | 0.32 | 0.55 | FALSE |
| 12 | GTEx | Esophagus Muscularis | MSL1 | 0.25 | 0.18 | lasso | 8 | 0.22 | 1.7e-13 | 6.1 | -6.5 | 6.1e-11 | -0.02 | 1.00 | 0.00 | FALSE |
| 13 | GTEx | Nerve Tibial | MSL1 | 0.33 | 0.25 | lasso | 4 | 0.24 | 6.3e-17 | 6.7 | -7.1 | 1.0e-12 | -0.03 | 1.00 | 0.00 | FALSE |
| 14 | GTEx | Pituitary | CWC25 | 0.30 | 0.00 | enet | 18 | 0.07 | 7.4e-03 | -6.1 | -6.6 | 3.4e-11 | 0.46 | 0.08 | 0.25 | FALSE |
| 15 | GTEx | Pituitary | MSL1 | 0.40 | 0.27 | lasso | 7 | 0.24 | 1.3e-06 | 6.1 | -6.4 | 1.6e-10 | -0.01 | 0.20 | 0.22 | FALSE |
| 16 | GTEx | Skin Not Sun Exposed Suprapubic | MSL1 | 0.18 | 0.15 | lasso | 4 | 0.15 | 2.1e-08 | 6.7 | -6.4 | 1.7e-10 | -0.01 | 0.90 | 0.02 | FALSE |
| 17 | GTEx | Skin Sun Exposed Lower leg | MSL1 | 0.08 | 0.04 | lasso | 2 | 0.05 | 8.1e-05 | 6.0 | -7.0 | 3.5e-12 | -0.05 | 0.52 | 0.03 | FALSE |
| 18 | GTEx | Testis | PSMB3 | 0.30 | 0.24 | lasso | 4 | 0.21 | 8.9e-10 | -10.0 | -10.2 | 1.7e-24 | 1.00 | 0.00 | 1.00 | TRUE |
| 19 | GTEx | Testis | PIP4K2B | 0.22 | 0.00 | enet | 19 | 0.03 | 1.9e-02 | -6.1 | 6.6 | 4.7e-11 | -0.40 | 0.04 | 0.39 | FALSE |
| 20 | METSIM | Adipose | LINC00672 | 0.07 | 0.01 | bslmm | 351 | 0.01 | 9.1e-03 | 1.8 | 5.3 | 1.3e-07 | -0.42 | 0.04 | 0.55 | FALSE |
| 21 | METSIM | Adipose | MSL1 | 0.12 | 0.06 | lasso | 10 | 0.06 | 1.8e-09 | 6.7 | -7.0 | 3.2e-12 | -0.04 | 0.99 | 0.00 | FALSE |
| 22 | METSIM | Adipose | PIP4K2B | 0.06 | 0.01 | blup | 360 | 0.02 | 7.0e-04 | -2.5 | -5.5 | 4.5e-08 | 0.50 | 0.01 | 0.98 | FALSE |
| 23 | METSIM | Adipose | PSMB3 | 0.04 | 0.02 | lasso | 5 | 0.01 | 2.3e-03 | -7.2 | -7.5 | 7.8e-14 | 0.51 | 0.14 | 0.31 | FALSE |
| 24 | NTR | Blood | PIP4K2B | 0.02 | 0.01 | lasso | 3 | 0.01 | 6.4e-04 | -10.0 | 9.6 | 7.8e-22 | -0.97 | 0.00 | 1.00 | FALSE |
| 25 | YFS | Blood | PSMB3 | 0.14 | 0.11 | enet | 31 | 0.16 | 7.2e-49 | -9.7 | -6.5 | 1.0e-10 | 0.81 | 0.00 | 1.00 | FALSE |
| 26 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | PSMB3 | 0.04 | 0.00 | blup | 37 | 0.02 | 6.7e-03 | -2.5 | -5.8 | 5.9e-09 | 0.72 | 0.01 | 0.63 | FALSE |
| 27 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | PIP4K2B | 0.04 | 0.01 | blup | 56 | 0.03 | 6.3e-04 | -9.7 | -7.2 | 4.8e-13 | 0.83 | 0.00 | 0.92 | FALSE |
| 28 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | PIP4K2B | 0.07 | 0.01 | enet | 12 | 0.02 | 4.3e-03 | -6.1 | -6.3 | 2.1e-10 | 0.52 | 0.03 | 0.29 | FALSE |
| 29 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | PSMB3 | 0.14 | 0.05 | blup | 42 | 0.05 | 8.9e-07 | -9.7 | -7.5 | 4.5e-14 | 0.70 | 0.00 | 1.00 | FALSE |
| 30 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | PSMB3 | 0.12 | 0.02 | enet | 14 | 0.05 | 1.3e-03 | -7.6 | -7.0 | 3.3e-12 | 0.63 | 0.01 | 0.74 | FALSE |
| 31 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | RAPGEFL1 | 0.13 | 0.02 | enet | 9 | 0.06 | 4.3e-04 | 5.9 | -6.6 | 3.8e-11 | -0.01 | 0.00 | 0.89 | FALSE |
| 32 | The Cancer Genome Atlas | Brain Lower Grade Glioma | IGFBP4 | 0.04 | 0.02 | blup | 38 | 0.03 | 5.9e-04 | -9.5 | -6.0 | 2.1e-09 | 0.12 | 0.00 | 0.97 | TRUE |
| 33 | The Cancer Genome Atlas | Prostate Adenocarcinoma | PIP4K2B | 0.05 | 0.04 | blup | 56 | 0.05 | 5.3e-06 | -7.6 | -8.9 | 5.6e-19 | 0.86 | 0.00 | 0.99 | FALSE |
| 34 | The Cancer Genome Atlas | Prostate Adenocarcinoma | PSMB3 | 0.11 | 0.07 | blup | 42 | 0.07 | 9.4e-08 | -10.0 | -6.6 | 3.7e-11 | 0.77 | 0.00 | 1.00 | FALSE |
| 35 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | PSMB3 | 0.12 | 0.09 | lasso | 3 | 0.06 | 3.0e-03 | -9.7 | -9.8 | 7.1e-23 | 0.97 | 0.00 | 0.93 | FALSE |
| 36 | The Cancer Genome Atlas | Thyroid Carcinoma | PSMB3 | 0.05 | 0.06 | lasso | 1 | 0.05 | 2.4e-05 | -10.0 | -10.0 | 1.4e-23 | 1.00 | 0.00 | 1.00 | FALSE |