Best TWAS P=1.11e-26 · Best GWAS P=1.46e-52 conditioned to NaN
| # | 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 | CCDC53 | 0.21 | 0.15 | blup | 448 | 0.19 | 2.4e-22 | 4.5 | -8.6 | 5.5e-18 | 0.15 | 1.00 | 0.00 | FALSE |
| 2 | GTEx | Adipose Subcutaneous | GNPTAB | 0.08 | 0.02 | enet | 13 | 0.03 | 8.2e-04 | 3.7 | -9.3 | 1.2e-20 | 0.15 | 0.19 | 0.08 | FALSE |
| 3 | GTEx | Adipose Subcutaneous | CCDC53 | 0.14 | 0.16 | lasso | 13 | 0.15 | 1.5e-12 | 8.8 | -7.9 | 2.6e-15 | 0.05 | 1.00 | 0.00 | FALSE |
| 4 | GTEx | Adipose Subcutaneous | DRAM1 | 0.12 | 0.01 | lasso | 3 | 0.00 | 3.5e-01 | -7.4 | 9.7 | 2.1e-22 | -0.06 | 0.05 | 0.07 | FALSE |
| 5 | GTEx | Adrenal Gland | CHPT1 | 0.30 | 0.09 | lasso | 14 | 0.10 | 2.1e-04 | 7.8 | -7.4 | 1.7e-13 | 0.08 | 0.50 | 0.07 | FALSE |
| 6 | GTEx | Adrenal Gland | UTP20 | 0.24 | 0.08 | lasso | 4 | 0.13 | 2.2e-05 | -4.7 | -5.1 | 2.7e-07 | 0.12 | 0.17 | 0.06 | TRUE |
| 7 | GTEx | Artery Aorta | GNPTAB | 0.26 | 0.11 | lasso | 5 | 0.09 | 1.6e-05 | 4.9 | -5.2 | 2.4e-07 | -0.07 | 0.36 | 0.03 | FALSE |
| 8 | GTEx | Artery Aorta | CCDC53 | 0.16 | 0.16 | enet | 12 | 0.17 | 7.0e-10 | 5.1 | -7.9 | 2.7e-15 | 0.09 | 1.00 | 0.00 | FALSE |
| 9 | GTEx | Artery Aorta | DRAM1 | 0.20 | 0.03 | lasso | 9 | 0.03 | 6.3e-03 | -8.1 | 7.5 | 4.5e-14 | -0.06 | 0.75 | 0.01 | FALSE |
| 10 | GTEx | Artery Tibial | GNPTAB | 0.25 | 0.15 | lasso | 5 | 0.21 | 4.1e-16 | 4.9 | -6.9 | 7.4e-12 | -0.01 | 1.00 | 0.00 | FALSE |
| 11 | GTEx | Artery Tibial | CCDC53 | 0.21 | 0.17 | lasso | 6 | 0.18 | 3.2e-14 | 5.1 | -6.3 | 3.3e-10 | 0.07 | 1.00 | 0.00 | FALSE |
| 12 | GTEx | Brain Caudate basal ganglia | CHPT1 | 0.19 | 0.01 | lasso | 5 | 0.03 | 5.6e-02 | 7.9 | -7.0 | 1.8e-12 | 0.12 | 0.12 | 0.06 | FALSE |
| 13 | GTEx | Brain Frontal Cortex BA9 | CHPT1 | 0.31 | 0.05 | lasso | 5 | 0.15 | 7.9e-05 | 7.8 | -6.2 | 7.0e-10 | 0.08 | 0.27 | 0.04 | FALSE |
| 14 | GTEx | Breast Mammary Tissue | CCDC53 | 0.10 | 0.14 | lasso | 7 | 0.13 | 4.2e-07 | 4.5 | -5.7 | 9.0e-09 | 0.07 | 0.98 | 0.00 | FALSE |
| 15 | GTEx | Cells Transformed fibroblasts | CCDC53 | 0.10 | 0.18 | lasso | 1 | 0.17 | 1.5e-12 | 8.7 | -8.7 | 2.2e-18 | 0.04 | 1.00 | 0.00 | FALSE |
| 16 | GTEx | Colon Transverse | CHPT1 | 0.25 | 0.04 | enet | 36 | 0.18 | 5.1e-09 | 7.8 | -6.7 | 2.1e-11 | 0.17 | 0.81 | 0.01 | TRUE |
| 17 | GTEx | Colon Transverse | GNPTAB | 0.24 | 0.18 | lasso | 4 | 0.19 | 2.6e-09 | 5.5 | -5.4 | 7.7e-08 | 0.04 | 0.99 | 0.00 | FALSE |
| 18 | GTEx | Colon Transverse | CCDC53 | 0.21 | 0.02 | enet | 38 | 0.03 | 1.3e-02 | 4.5 | -7.2 | 6.1e-13 | 0.08 | 0.66 | 0.02 | FALSE |
| 19 | GTEx | Esophagus Gastroesophageal Junction | CHPT1 | 0.17 | 0.16 | enet | 24 | 0.15 | 5.7e-06 | 7.8 | -7.9 | 4.1e-15 | 0.09 | 0.37 | 0.03 | FALSE |
| 20 | GTEx | Esophagus Mucosa | GNPTAB | 0.22 | 0.00 | enet | 28 | 0.00 | 2.0e-01 | -2.2 | -7.6 | 4.2e-14 | 0.01 | 0.22 | 0.03 | FALSE |
| 21 | GTEx | Esophagus Mucosa | CCDC53 | 0.31 | 0.41 | enet | 17 | 0.43 | 1.0e-30 | 4.9 | -7.3 | 3.6e-13 | 0.05 | 1.00 | 0.00 | FALSE |
| 22 | GTEx | Esophagus Muscularis | GNPTAB | 0.27 | 0.22 | lasso | 4 | 0.20 | 4.7e-12 | 5.5 | -5.4 | 7.5e-08 | 0.01 | 1.00 | 0.00 | FALSE |
| 23 | GTEx | Esophagus Muscularis | CCDC53 | 0.15 | 0.11 | lasso | 5 | 0.14 | 1.1e-08 | 4.5 | -5.9 | 2.8e-09 | 0.07 | 0.99 | 0.00 | FALSE |
| 24 | GTEx | Heart Left Ventricle | CHPT1 | 0.21 | 0.09 | lasso | 7 | 0.07 | 1.0e-04 | 4.7 | -5.5 | 3.7e-08 | 0.11 | 0.64 | 0.03 | FALSE |
| 25 | GTEx | Heart Left Ventricle | CCDC53 | 0.14 | 0.20 | lasso | 4 | 0.18 | 9.6e-10 | 8.7 | -8.0 | 1.1e-15 | 0.04 | 1.00 | 0.00 | FALSE |
| 26 | GTEx | Lung | CCDC53 | 0.12 | 0.10 | lasso | 3 | 0.11 | 6.8e-09 | 8.7 | -9.4 | 5.0e-21 | 0.07 | 1.00 | 0.00 | TRUE |
| 27 | GTEx | Lung | DRAM1 | 0.13 | 0.08 | lasso | 3 | 0.09 | 2.3e-07 | -7.4 | 8.4 | 3.2e-17 | -0.07 | 0.95 | 0.00 | FALSE |
| 28 | GTEx | Muscle Skeletal | CCDC53 | 0.14 | 0.17 | enet | 23 | 0.18 | 2.9e-17 | 5.1 | -6.8 | 7.9e-12 | 0.05 | 1.00 | 0.00 | FALSE |
| 29 | GTEx | Nerve Tibial | CCDC53 | 0.23 | 0.21 | lasso | 4 | 0.22 | 9.0e-16 | 5.1 | -5.6 | 2.7e-08 | 0.05 | 1.00 | 0.00 | FALSE |
| 30 | GTEx | Nerve Tibial | MYBPC1 | 0.24 | 0.02 | lasso | 7 | 0.02 | 1.1e-02 | -8.2 | -6.8 | 1.3e-11 | 0.05 | 0.88 | 0.01 | FALSE |
| 31 | GTEx | Pancreas | CCDC53 | 0.14 | 0.16 | lasso | 8 | 0.14 | 1.0e-06 | 4.9 | -5.8 | 5.0e-09 | 0.05 | 0.99 | 0.00 | FALSE |
| 32 | GTEx | Prostate | DRAM1 | 0.57 | 0.08 | lasso | 20 | 0.00 | 2.7e-01 | 2.3 | 8.3 | 1.1e-16 | 0.03 | 0.06 | 0.05 | FALSE |
| 33 | GTEx | Skin Sun Exposed Lower leg | CCDC53 | 0.24 | 0.20 | lasso | 7 | 0.20 | 4.9e-16 | 5.1 | -5.6 | 2.1e-08 | 0.05 | 1.00 | 0.00 | FALSE |
| 34 | GTEx | Spleen | CCDC53 | 0.25 | 0.19 | lasso | 11 | 0.16 | 5.8e-05 | 8.7 | -8.9 | 3.6e-19 | 0.04 | 0.52 | 0.03 | FALSE |
| 35 | GTEx | Testis | CHPT1 | 0.17 | 0.03 | lasso | 3 | 0.04 | 5.8e-03 | 7.8 | -8.4 | 5.4e-17 | 0.08 | 0.40 | 0.03 | FALSE |
| 36 | GTEx | Thyroid | CHPT1 | 0.29 | 0.17 | lasso | 9 | 0.26 | 9.9e-20 | -7.2 | 5.5 | 3.1e-08 | -0.03 | 1.00 | 0.00 | FALSE |
| 37 | GTEx | Thyroid | CCDC53 | 0.15 | 0.12 | lasso | 6 | 0.12 | 4.3e-09 | 8.7 | -8.3 | 1.2e-16 | 0.05 | 1.00 | 0.00 | FALSE |
| 38 | GTEx | Vagina | CCDC53 | 0.31 | 0.15 | lasso | 7 | 0.13 | 6.7e-04 | 8.7 | -6.3 | 2.6e-10 | 0.03 | 0.28 | 0.04 | FALSE |
| 39 | GTEx | Whole Blood | CCDC53 | 0.11 | 0.13 | enet | 15 | 0.13 | 2.9e-12 | 8.7 | -6.4 | 1.5e-10 | 0.11 | 1.00 | 0.00 | TRUE |
| 40 | METSIM | Adipose | DRAM1 | 0.12 | 0.03 | enet | 24 | 0.08 | 1.1e-12 | 7.7 | 10.2 | 1.7e-24 | -0.02 | 1.00 | 0.00 | FALSE |
| 41 | YFS | Blood | CCDC53 | 0.17 | 0.34 | lasso | 9 | 0.36 | 2.0e-124 | 5.1 | -6.7 | 2.2e-11 | 0.05 | 1.00 | 0.00 | FALSE |
| 42 | YFS | Blood | DRAM1 | 0.33 | 0.13 | enet | 101 | 0.19 | 1.6e-58 | 7.9 | 10.7 | 1.1e-26 | -0.01 | 1.00 | 0.00 | TRUE |
| 43 | YFS | Blood | GNPTAB | 0.03 | 0.02 | lasso | 2 | 0.02 | 2.5e-06 | 4.9 | -6.0 | 2.1e-09 | -0.06 | 0.82 | 0.00 | FALSE |
| 44 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CCDC53 | 0.03 | 0.05 | enet | 5 | 0.05 | 4.3e-10 | 5.1 | -6.4 | 1.1e-10 | 0.05 | 1.00 | 0.00 | FALSE |
| 45 | The Cancer Genome Atlas | Breast Invasive Carcinoma | DRAM1 | 0.06 | 0.02 | lasso | 4 | 0.03 | 1.8e-07 | -8.0 | 6.4 | 1.9e-10 | -0.08 | 0.96 | 0.00 | FALSE |
| 46 | The Cancer Genome Atlas | Colon Adenocarcinoma | CCDC53 | 0.07 | 0.07 | blup | 55 | 0.06 | 1.3e-04 | 5.9 | -8.0 | 1.5e-15 | 0.02 | 0.93 | 0.00 | TRUE |
| 47 | The Cancer Genome Atlas | Esophageal Carcinoma | CCDC53 | 0.14 | 0.08 | blup | 50 | 0.08 | 1.8e-03 | 8.7 | -7.0 | 2.8e-12 | 0.09 | 0.14 | 0.04 | FALSE |
| 48 | The Cancer Genome Atlas | Esophageal Carcinoma | GNPTAB | 0.13 | 0.00 | blup | 68 | 0.02 | 6.9e-02 | 7.8 | -6.5 | 9.4e-11 | 0.04 | 0.01 | 0.44 | FALSE |
| 49 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | CCDC53 | 0.06 | 0.10 | lasso | 3 | 0.10 | 7.3e-11 | 8.7 | -7.8 | 8.2e-15 | 0.04 | 1.00 | 0.00 | FALSE |
| 50 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CCDC53 | 0.08 | 0.09 | lasso | 3 | 0.09 | 4.9e-10 | 8.7 | -7.4 | 1.2e-13 | 0.01 | 1.00 | 0.00 | FALSE |
| 51 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | CCDC53 | 0.04 | 0.05 | blup | 55 | 0.04 | 1.6e-03 | 8.8 | -5.5 | 4.6e-08 | 0.04 | 0.25 | 0.03 | FALSE |
| 52 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CCDC53 | 0.05 | 0.05 | lasso | 3 | 0.05 | 2.3e-06 | 8.8 | -7.1 | 1.5e-12 | 0.05 | 0.96 | 0.00 | FALSE |
| 53 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | C12orf48 | 0.09 | 0.08 | lasso | 4 | 0.07 | 3.5e-04 | 5.9 | 6.0 | 1.5e-09 | 0.02 | 0.22 | 0.08 | TRUE |
| 54 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | CCDC53 | 0.04 | 0.05 | lasso | 2 | 0.05 | 2.1e-03 | 5.1 | -5.1 | 3.0e-07 | 0.05 | 0.10 | 0.03 | TRUE |
| 55 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | CCDC53 | 0.07 | 0.11 | lasso | 5 | 0.12 | 2.1e-13 | 2.1 | -5.2 | 2.0e-07 | 0.05 | 1.00 | 0.00 | FALSE |
| 56 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | C12orf48 | 0.05 | 0.05 | blup | 62 | 0.04 | 7.0e-04 | 8.7 | 6.6 | 4.0e-11 | -0.06 | 0.62 | 0.01 | FALSE |
| 57 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | CCDC53 | 0.06 | 0.07 | lasso | 4 | 0.06 | 3.0e-03 | 5.1 | -6.9 | 7.0e-12 | 0.05 | 0.10 | 0.05 | FALSE |
| 58 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | DRAM1 | 0.15 | -0.01 | blup | 70 | 0.06 | 2.2e-03 | 1.4 | 7.1 | 9.9e-13 | -0.17 | 0.01 | 0.05 | TRUE |
| 59 | The Cancer Genome Atlas | Prostate Adenocarcinoma | CCDC53 | 0.10 | 0.18 | lasso | 4 | 0.18 | 1.6e-18 | 8.7 | -7.2 | 5.9e-13 | 0.05 | 1.00 | 0.00 | FALSE |
| 60 | The Cancer Genome Atlas | Prostate Adenocarcinoma | GNPTAB | 0.04 | 0.03 | blup | 62 | 0.04 | 9.7e-05 | 4.7 | -7.6 | 3.0e-14 | 0.04 | 0.06 | 0.77 | FALSE |
| 61 | The Cancer Genome Atlas | Prostate Adenocarcinoma | PMCH | 0.02 | 0.02 | blup | 36 | 0.02 | 2.4e-03 | 8.8 | 5.5 | 3.5e-08 | -0.02 | 0.05 | 0.12 | FALSE |
| 62 | The Cancer Genome Atlas | Stomach Adenocarcinoma | CCDC53 | 0.04 | 0.07 | lasso | 4 | 0.06 | 2.1e-05 | 8.7 | -8.7 | 4.2e-18 | 0.03 | 0.83 | 0.01 | FALSE |
| 63 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | C12orf48 | 0.11 | 0.06 | blup | 62 | 0.08 | 8.5e-04 | 1.5 | 5.8 | 8.7e-09 | -0.01 | 0.08 | 0.04 | FALSE |
| 64 | The Cancer Genome Atlas | Thyroid Carcinoma | CCDC53 | 0.31 | 0.16 | enet | 21 | 0.18 | 6.2e-17 | 8.8 | -8.5 | 1.4e-17 | 0.16 | 1.00 | 0.00 | FALSE |