Best TWAS P=1.15e-15 · Best GWAS P=1.15e-19 conditioned to 4.28e-08
| # | 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 | SGTA | 0.13 | 0.05 | lasso | 5 | 0.07 | 4.6e-06 | 7.68 | -6.7 | 2.9e-11 | -0.01 | 0.03 | 0.97 | FALSE |
| 2 | GTEx | Adipose Subcutaneous | ZNF554 | 0.16 | 0.15 | lasso | 2 | 0.14 | 1.8e-11 | 7.73 | 7.7 | 1.0e-14 | -0.01 | 0.01 | 0.99 | FALSE |
| 3 | GTEx | Adipose Visceral Omentum | NFIC | 0.20 | 0.00 | lasso | 5 | 0.02 | 2.2e-02 | -5.13 | 5.9 | 3.3e-09 | -0.03 | 0.03 | 0.63 | TRUE |
| 4 | GTEx | Artery Aorta | AP3D1 | 0.27 | 0.12 | lasso | 3 | 0.13 | 1.3e-07 | 5.90 | -6.4 | 2.1e-10 | -0.02 | 0.96 | 0.00 | FALSE |
| 5 | GTEx | Artery Aorta | ZNF554 | 0.34 | 0.21 | lasso | 6 | 0.19 | 6.3e-11 | 7.73 | 7.8 | 6.7e-15 | -0.02 | 0.01 | 0.99 | FALSE |
| 6 | GTEx | Artery Tibial | AP3D1 | 0.17 | 0.16 | lasso | 3 | 0.16 | 2.1e-12 | 6.27 | -6.2 | 4.5e-10 | -0.02 | 1.00 | 0.00 | FALSE |
| 7 | GTEx | Artery Tibial | SGTA | 0.11 | 0.04 | enet | 24 | 0.06 | 1.0e-05 | 6.43 | -5.4 | 8.1e-08 | 0.00 | 0.44 | 0.53 | FALSE |
| 8 | GTEx | Artery Tibial | NFIC | 0.14 | 0.13 | enet | 11 | 0.12 | 7.6e-10 | -5.13 | 5.8 | 8.8e-09 | -0.02 | 0.95 | 0.05 | FALSE |
| 9 | GTEx | Artery Tibial | SCAMP4 | 0.09 | 0.00 | enet | 18 | 0.01 | 5.8e-02 | 0.99 | -5.3 | 1.4e-07 | -0.12 | 0.06 | 0.17 | FALSE |
| 10 | GTEx | Brain Cortex | AC006538.1 | 0.49 | 0.08 | lasso | 12 | 0.13 | 1.9e-04 | 6.04 | 6.3 | 3.6e-10 | -0.02 | 0.10 | 0.34 | FALSE |
| 11 | GTEx | Cells EBV-transformed lymphocytes | ZNF554 | 0.26 | 0.27 | lasso | 4 | 0.24 | 2.7e-08 | 7.54 | 7.6 | 3.8e-14 | -0.02 | 0.02 | 0.98 | FALSE |
| 12 | GTEx | Cells Transformed fibroblasts | ZNF554 | 0.25 | 0.24 | lasso | 3 | 0.23 | 1.9e-17 | 7.73 | 7.8 | 8.3e-15 | -0.01 | 0.01 | 0.99 | FALSE |
| 13 | GTEx | Colon Transverse | AP3D1 | 0.31 | 0.14 | lasso | 4 | 0.16 | 7.2e-08 | 4.96 | -5.8 | 4.9e-09 | -0.02 | 0.91 | 0.00 | FALSE |
| 14 | GTEx | Colon Transverse | ZNF554 | 0.27 | 0.27 | lasso | 4 | 0.25 | 2.0e-12 | 7.68 | 7.6 | 2.4e-14 | -0.02 | 0.01 | 0.99 | FALSE |
| 15 | GTEx | Colon Transverse | THOP1 | 0.19 | 0.13 | lasso | 4 | 0.15 | 1.7e-07 | 7.35 | 7.6 | 2.5e-14 | -0.02 | 0.04 | 0.96 | FALSE |
| 16 | GTEx | Esophagus Mucosa | AP3D1 | 0.18 | 0.21 | lasso | 3 | 0.21 | 2.4e-14 | 5.90 | -6.3 | 2.9e-10 | -0.02 | 1.00 | 0.00 | FALSE |
| 17 | GTEx | Esophagus Mucosa | ZNF554 | 0.25 | 0.24 | enet | 15 | 0.25 | 9.2e-17 | 7.68 | 8.0 | 1.1e-15 | 0.00 | 0.02 | 0.98 | TRUE |
| 18 | GTEx | Esophagus Muscularis | AP3D1 | 0.32 | 0.24 | lasso | 3 | 0.24 | 5.7e-15 | 6.27 | -6.2 | 4.1e-10 | -0.02 | 1.00 | 0.00 | FALSE |
| 19 | GTEx | Esophagus Muscularis | NFIC | 0.21 | 0.03 | enet | 35 | 0.07 | 4.9e-05 | -2.91 | 5.3 | 1.0e-07 | 0.04 | 0.09 | 0.13 | FALSE |
| 20 | GTEx | Heart Atrial Appendage | THOP1 | 0.21 | 0.01 | lasso | 6 | 0.02 | 6.4e-02 | 6.55 | 5.9 | 4.0e-09 | -0.02 | 0.03 | 0.82 | FALSE |
| 21 | GTEx | Heart Left Ventricle | THOP1 | 0.17 | 0.09 | lasso | 2 | 0.02 | 2.2e-02 | 7.35 | 7.2 | 4.6e-13 | -0.03 | 0.07 | 0.90 | FALSE |
| 22 | GTEx | Lung | AP3D1 | 0.14 | 0.11 | lasso | 3 | 0.12 | 1.6e-09 | 6.27 | -6.4 | 1.9e-10 | -0.02 | 1.00 | 0.00 | FALSE |
| 23 | GTEx | Lung | ZNF554 | 0.27 | 0.10 | lasso | 7 | 0.09 | 1.8e-07 | 7.68 | 7.0 | 2.6e-12 | -0.02 | 0.01 | 0.99 | FALSE |
| 24 | GTEx | Muscle Skeletal | AP3D1 | 0.11 | 0.07 | lasso | 5 | 0.07 | 2.9e-07 | 6.27 | -6.0 | 2.0e-09 | -0.02 | 0.96 | 0.00 | FALSE |
| 25 | GTEx | Nerve Tibial | IZUMO4 | 0.23 | 0.07 | lasso | 6 | 0.14 | 1.9e-10 | 4.96 | 5.9 | 2.9e-09 | -0.02 | 0.98 | 0.00 | FALSE |
| 26 | GTEx | Nerve Tibial | BTBD2 | 0.26 | 0.23 | lasso | 4 | 0.28 | 8.1e-20 | 6.25 | -6.9 | 7.0e-12 | -0.46 | 1.00 | 0.00 | TRUE |
| 27 | GTEx | Nerve Tibial | AC005306.3 | 0.16 | 0.05 | lasso | 4 | 0.07 | 6.5e-06 | 6.25 | -6.0 | 2.4e-09 | -0.38 | 0.20 | 0.32 | FALSE |
| 28 | GTEx | Pancreas | ZNF554 | 0.23 | 0.06 | lasso | 2 | 0.06 | 2.3e-03 | 7.35 | 7.5 | 5.5e-14 | -0.02 | 0.03 | 0.91 | FALSE |
| 29 | GTEx | Prostate | PLIN4 | 0.42 | 0.18 | lasso | 7 | 0.01 | 2.1e-01 | -5.39 | -5.6 | 2.4e-08 | -0.01 | 0.02 | 0.82 | TRUE |
| 30 | GTEx | Skin Not Sun Exposed Suprapubic | ZNF554 | 0.32 | 0.22 | lasso | 4 | 0.23 | 6.8e-13 | 7.80 | 7.8 | 5.0e-15 | -0.02 | 0.01 | 0.99 | FALSE |
| 31 | GTEx | Skin Sun Exposed Lower leg | ZNF554 | 0.35 | 0.33 | lasso | 5 | 0.32 | 6.9e-27 | 7.68 | 7.8 | 5.3e-15 | -0.01 | 0.02 | 0.98 | FALSE |
| 32 | GTEx | Skin Sun Exposed Lower leg | AC004490.1 | 0.09 | 0.07 | enet | 11 | 0.10 | 2.3e-08 | 4.69 | -5.5 | 4.4e-08 | 0.04 | 0.93 | 0.00 | FALSE |
| 33 | GTEx | Skin Sun Exposed Lower leg | AC004623.2 | 0.14 | 0.01 | enet | 14 | 0.00 | 2.5e-01 | -3.27 | -5.2 | 2.2e-07 | 0.06 | 0.04 | 0.08 | FALSE |
| 34 | GTEx | Small Intestine Terminal Ileum | ZNF554 | 0.37 | 0.54 | lasso | 2 | 0.50 | 7.1e-13 | 7.71 | 7.7 | 9.6e-15 | -0.02 | 0.01 | 0.99 | FALSE |
| 35 | GTEx | Testis | MFSD12 | 0.23 | 0.11 | enet | 13 | 0.15 | 2.9e-07 | -3.31 | 5.2 | 1.5e-07 | -0.02 | 0.47 | 0.41 | FALSE |
| 36 | GTEx | Testis | ZNF554 | 0.19 | 0.11 | lasso | 3 | 0.07 | 5.9e-04 | 7.68 | 7.7 | 1.9e-14 | -0.02 | 0.02 | 0.96 | FALSE |
| 37 | GTEx | Testis | AC005786.7 | 0.36 | 0.19 | enet | 30 | 0.27 | 1.7e-12 | -3.60 | 5.4 | 5.9e-08 | -0.02 | 0.97 | 0.02 | FALSE |
| 38 | GTEx | Thyroid | ZNF554 | 0.14 | 0.07 | lasso | 3 | 0.05 | 4.8e-05 | 7.68 | 7.6 | 2.9e-14 | -0.02 | 0.02 | 0.98 | FALSE |
| 39 | GTEx | Thyroid | THOP1 | 0.34 | 0.24 | lasso | 5 | 0.32 | 5.9e-25 | 7.54 | 7.7 | 1.8e-14 | -0.02 | 0.02 | 0.98 | FALSE |
| 40 | GTEx | Vagina | ZNF554 | 0.48 | 0.08 | enet | 36 | 0.10 | 3.4e-03 | 6.41 | 6.4 | 1.4e-10 | -0.03 | 0.02 | 0.82 | FALSE |
| 41 | GTEx | Whole Blood | ZNF554 | 0.11 | 0.09 | lasso | 5 | 0.08 | 7.4e-08 | 7.68 | 7.5 | 5.5e-14 | -0.02 | 0.02 | 0.98 | FALSE |
| 42 | NTR | Blood | GPX4 | 0.03 | 0.02 | enet | 7 | 0.03 | 2.3e-09 | -4.96 | -7.0 | 1.9e-12 | 0.12 | 0.99 | 0.00 | TRUE |
| 43 | ROSMAP | Brain Pre-frontal Cortex | AP3D1 | 0.39 | 0.40 | enet | 12 | 0.43 | 8.8e-60 | 6.27 | -5.9 | 4.1e-09 | 0.00 | 1.00 | 0.00 | FALSE |
| 44 | ROSMAP | Brain Pre-frontal Cortex | SGTA | 0.10 | 0.08 | bslmm | 435 | 0.07 | 1.0e-09 | 6.49 | -6.2 | 5.8e-10 | 0.01 | 0.99 | 0.01 | FALSE |
| 45 | ROSMAP | Brain Pre-frontal Cortex | HDGFRP2 | 0.03 | 0.02 | lasso | 3 | 0.02 | 1.2e-03 | 5.28 | -5.3 | 1.3e-07 | -0.08 | 0.25 | 0.30 | FALSE |
| 46 | YFS | Blood | ABCA7 | 0.20 | 0.04 | bslmm | 340 | 0.14 | 6.3e-44 | 3.27 | -6.0 | 1.9e-09 | 0.02 | 1.00 | 0.00 | FALSE |
| 47 | YFS | Blood | SLC39A3 | 0.13 | 0.12 | lasso | 7 | 0.16 | 3.2e-48 | 4.00 | 5.2 | 1.5e-07 | -0.04 | 1.00 | 0.00 | FALSE |
| 48 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | AP3D1 | 0.05 | 0.00 | blup | 49 | 0.02 | 1.7e-02 | 6.27 | -7.0 | 2.1e-12 | 0.02 | 0.02 | 0.25 | FALSE |
| 49 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | ZNF554 | 0.11 | 0.16 | lasso | 3 | 0.16 | 1.9e-13 | 7.43 | 7.6 | 2.5e-14 | -0.03 | 0.01 | 0.99 | FALSE |
| 50 | The Cancer Genome Atlas | Breast Invasive Carcinoma | AP3D1 | 0.01 | 0.01 | blup | 52 | 0.01 | 5.4e-03 | 6.27 | -7.3 | 2.8e-13 | 0.04 | 0.05 | 0.19 | TRUE |
| 51 | The Cancer Genome Atlas | Breast Invasive Carcinoma | MKNK2 | 0.03 | 0.01 | enet | 10 | 0.02 | 2.0e-05 | 6.62 | -7.5 | 4.9e-14 | -0.38 | 0.05 | 0.39 | TRUE |
| 52 | The Cancer Genome Atlas | Breast Invasive Carcinoma | ZNF554 | 0.02 | 0.02 | lasso | 1 | 0.02 | 1.8e-05 | 7.66 | 7.7 | 1.8e-14 | -0.02 | 0.01 | 0.99 | FALSE |
| 53 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | ZNF554 | 0.12 | 0.12 | lasso | 3 | 0.13 | 4.5e-07 | 7.68 | 7.6 | 2.3e-14 | -0.01 | 0.01 | 0.99 | FALSE |
| 54 | The Cancer Genome Atlas | Colon Adenocarcinoma | ZNF554 | 0.16 | 0.18 | lasso | 5 | 0.18 | 6.8e-11 | 7.43 | 7.6 | 4.0e-14 | -0.03 | 0.01 | 0.99 | FALSE |
| 55 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | UBXN6 | 0.05 | 0.01 | blup | 57 | 0.04 | 6.6e-05 | 0.71 | -5.2 | 1.5e-07 | 0.02 | 0.03 | 0.92 | FALSE |
| 56 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | ZNF554 | 0.15 | 0.20 | lasso | 7 | 0.20 | 5.0e-22 | 7.80 | 7.8 | 4.6e-15 | -0.02 | 0.01 | 0.99 | FALSE |
| 57 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | AP3D1 | 0.04 | 0.04 | lasso | 2 | 0.04 | 6.1e-05 | 6.27 | -6.3 | 3.7e-10 | -0.01 | 0.26 | 0.36 | FALSE |
| 58 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | THOP1 | 0.04 | 0.05 | blup | 65 | 0.04 | 2.3e-05 | 7.73 | 7.4 | 1.9e-13 | -0.03 | 0.01 | 0.99 | FALSE |
| 59 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | ZNF554 | 0.05 | 0.06 | lasso | 5 | 0.06 | 2.8e-07 | 7.78 | 7.7 | 1.2e-14 | -0.02 | 0.01 | 0.99 | FALSE |
| 60 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | ZNF554 | 0.10 | 0.11 | lasso | 8 | 0.10 | 2.9e-05 | 7.68 | 7.8 | 5.8e-15 | -0.02 | 0.01 | 0.98 | FALSE |
| 61 | The Cancer Genome Atlas | Lung Adenocarcinoma | AP3D1 | 0.03 | 0.04 | lasso | 1 | 0.03 | 1.4e-04 | 6.16 | -6.2 | 7.4e-10 | 0.01 | 0.21 | 0.23 | FALSE |
| 62 | The Cancer Genome Atlas | Lung Adenocarcinoma | ZNF554 | 0.04 | 0.04 | blup | 55 | 0.03 | 4.4e-04 | 7.68 | 7.1 | 1.0e-12 | -0.03 | 0.01 | 0.99 | FALSE |
| 63 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | ZNF554 | 0.04 | 0.05 | lasso | 2 | 0.05 | 7.9e-07 | 7.43 | 7.4 | 1.0e-13 | -0.03 | 0.02 | 0.98 | FALSE |
| 64 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | ZNF554 | 0.07 | 0.09 | lasso | 15 | 0.10 | 3.7e-05 | 7.43 | 7.5 | 5.5e-14 | -0.03 | 0.01 | 0.97 | FALSE |
| 65 | The Cancer Genome Atlas | Prostate Adenocarcinoma | AP3D1 | 0.06 | 0.05 | enet | 7 | 0.04 | 5.7e-05 | 6.27 | -6.7 | 1.8e-11 | -0.01 | 0.80 | 0.10 | FALSE |
| 66 | The Cancer Genome Atlas | Prostate Adenocarcinoma | BTBD2 | 0.04 | 0.02 | blup | 53 | 0.03 | 5.5e-04 | -3.05 | -5.2 | 2.3e-07 | -0.06 | 0.37 | 0.02 | FALSE |
| 67 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ZNF554 | 0.04 | 0.04 | lasso | 2 | 0.03 | 4.9e-04 | 7.66 | 7.7 | 1.1e-14 | -0.02 | 0.01 | 0.99 | FALSE |
| 68 | The Cancer Genome Atlas | Rectum Adenocarcinoma | ZNF554 | 0.19 | 0.00 | blup | 55 | 0.03 | 8.0e-02 | 7.43 | 6.5 | 6.8e-11 | -0.04 | 0.01 | 0.75 | FALSE |
| 69 | The Cancer Genome Atlas | Stomach Adenocarcinoma | AP3D1 | 0.09 | 0.07 | lasso | 5 | 0.08 | 3.2e-06 | 6.27 | -6.5 | 1.0e-10 | -0.01 | 0.62 | 0.37 | FALSE |
| 70 | The Cancer Genome Atlas | Stomach Adenocarcinoma | ZNF554 | 0.11 | 0.15 | lasso | 4 | 0.14 | 1.5e-10 | 7.68 | 7.7 | 1.6e-14 | -0.02 | 0.01 | 0.99 | FALSE |
| 71 | The Cancer Genome Atlas | Thyroid Carcinoma | AP3D1 | 0.05 | 0.05 | lasso | 3 | 0.04 | 1.0e-04 | 6.27 | -6.3 | 3.7e-10 | -0.01 | 0.52 | 0.05 | FALSE |
| 72 | The Cancer Genome Atlas | Thyroid Carcinoma | SGTA | 0.09 | 0.06 | lasso | 4 | 0.06 | 2.6e-06 | 4.10 | 5.8 | 6.0e-09 | -0.01 | 0.02 | 0.97 | FALSE |
| 73 | The Cancer Genome Atlas | Thyroid Carcinoma | THOP1 | 0.16 | 0.25 | lasso | 2 | 0.25 | 1.6e-24 | 7.79 | 7.8 | 8.0e-15 | -0.02 | 0.01 | 0.99 | FALSE |
| 74 | The Cancer Genome Atlas | Thyroid Carcinoma | ZNF554 | 0.12 | 0.08 | enet | 15 | 0.09 | 3.7e-09 | 7.73 | 6.7 | 2.5e-11 | 0.00 | 0.01 | 0.99 | FALSE |