Best TWAS P=7.01e-66 · Best GWAS P=1.11e-65 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 | ADAMTS7 | 0.08 | 0.04 | enet | 8 | 0.03 | 4.1e-04 | -5.71 | 5.7 | 1.0e-08 | 0.37 | 0.80 | 0.02 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | CHRNA5 | 0.51 | 0.68 | lasso | 6 | 0.68 | 7.1e-113 | -7.42 | -7.4 | 1.2e-13 | -0.57 | 1.00 | 0.00 | FALSE |
| 3 | CommonMind | Brain Pre-frontal Cortex | IREB2 | 0.16 | 0.17 | enet | 13 | 0.18 | 4.1e-21 | -6.44 | 7.5 | 5.0e-14 | 0.52 | 1.00 | 0.00 | FALSE |
| 4 | CommonMind | Brain Pre-frontal Cortex | WDR61 | 0.12 | 0.02 | blup | 404 | 0.06 | 7.4e-08 | 1.05 | -7.7 | 1.0e-14 | -0.49 | 0.56 | 0.34 | FALSE |
| 5 | GTEx | Adipose Subcutaneous | CHRNA5 | 0.16 | 0.20 | lasso | 6 | 0.19 | 1.1e-15 | -7.36 | -7.4 | 1.6e-13 | -0.58 | 1.00 | 0.00 | FALSE |
| 6 | GTEx | Adipose Subcutaneous | HYKK | 0.08 | 0.01 | lasso | 2 | 0.01 | 3.0e-02 | -6.64 | -13.2 | 1.4e-39 | -0.82 | 0.03 | 0.86 | TRUE |
| 7 | GTEx | Artery Aorta | CHRNA5 | 0.15 | 0.07 | lasso | 6 | 0.05 | 9.3e-04 | -7.42 | -8.1 | 4.9e-16 | -0.57 | 0.46 | 0.38 | FALSE |
| 8 | GTEx | Artery Coronary | CHRNA5 | 0.20 | 0.15 | lasso | 7 | 0.10 | 3.9e-04 | -6.28 | -6.6 | 3.7e-11 | -0.52 | 0.42 | 0.27 | FALSE |
| 9 | GTEx | Artery Tibial | ADAMTS7 | 0.13 | 0.07 | lasso | 4 | 0.06 | 9.2e-06 | 7.11 | 8.2 | 2.6e-16 | 0.38 | 0.94 | 0.02 | FALSE |
| 10 | GTEx | Artery Tibial | CHRNA5 | 0.19 | 0.23 | enet | 18 | 0.23 | 3.4e-18 | -7.28 | -7.7 | 1.8e-14 | -0.57 | 1.00 | 0.00 | TRUE |
| 11 | GTEx | Brain Caudate basal ganglia | CHRNA5 | 0.30 | 0.19 | lasso | 6 | 0.20 | 1.6e-06 | -6.28 | -7.1 | 1.5e-12 | -0.55 | 0.67 | 0.19 | FALSE |
| 12 | GTEx | Brain Cerebellar Hemisphere | CHRNA5 | 0.38 | 0.34 | lasso | 3 | 0.36 | 4.6e-10 | -7.28 | -7.3 | 2.5e-13 | -0.58 | 0.99 | 0.00 | FALSE |
| 13 | GTEx | Brain Cerebellum | CHRNA5 | 0.24 | 0.28 | lasso | 2 | 0.25 | 3.9e-08 | -7.40 | -7.4 | 1.4e-13 | -0.57 | 0.93 | 0.04 | FALSE |
| 14 | GTEx | Brain Cortex | ADAMTS7 | 0.57 | -0.01 | enet | 20 | 0.04 | 3.7e-02 | 0.38 | 5.2 | 1.6e-07 | 0.20 | 0.06 | 0.05 | TRUE |
| 15 | GTEx | Brain Cortex | CHRNA5 | 0.23 | 0.27 | lasso | 2 | 0.24 | 3.5e-07 | -7.28 | -7.3 | 3.3e-13 | -0.57 | 0.73 | 0.16 | FALSE |
| 16 | GTEx | Brain Frontal Cortex BA9 | CHRNA5 | 0.59 | 0.42 | enet | 13 | 0.35 | 5.1e-10 | -7.28 | -7.2 | 8.0e-13 | -0.56 | 0.99 | 0.00 | FALSE |
| 17 | GTEx | Brain Hippocampus | CHRNA5 | 0.36 | 0.32 | lasso | 3 | 0.26 | 1.0e-06 | -7.28 | -7.4 | 1.3e-13 | -0.57 | 0.62 | 0.10 | FALSE |
| 18 | GTEx | Brain Hypothalamus | CHRNA5 | 0.24 | 0.19 | enet | 14 | 0.17 | 1.0e-04 | -7.28 | -7.4 | 1.4e-13 | -0.52 | 0.29 | 0.24 | FALSE |
| 19 | GTEx | Brain Nucleus accumbens basal ganglia | CHRNA5 | 0.36 | 0.32 | lasso | 5 | 0.32 | 3.0e-09 | -7.28 | -6.4 | 2.0e-10 | -0.52 | 0.88 | 0.02 | FALSE |
| 20 | GTEx | Brain Putamen basal ganglia | CHRNA5 | 0.42 | 0.40 | lasso | 5 | 0.38 | 5.7e-10 | -7.40 | -7.5 | 5.5e-14 | -0.57 | 0.94 | 0.03 | FALSE |
| 21 | GTEx | Brain Putamen basal ganglia | RP11-762H8.1 | 0.29 | 0.07 | lasso | 4 | 0.02 | 1.1e-01 | -5.30 | -5.3 | 9.0e-08 | -0.19 | 0.06 | 0.05 | FALSE |
| 22 | GTEx | Breast Mammary Tissue | CHRNA5 | 0.28 | 0.22 | lasso | 11 | 0.20 | 1.9e-10 | -7.45 | -8.8 | 1.2e-18 | -0.64 | 1.00 | 0.00 | FALSE |
| 23 | GTEx | Breast Mammary Tissue (Male) | CHRNA5 | 0.40 | 0.04 | lasso | 16 | 0.11 | 1.6e-03 | -6.22 | -7.7 | 2.1e-14 | -0.51 | 0.09 | 0.50 | FALSE |
| 24 | GTEx | Breast Mammary Tissue (Female) | CHRNA5 | 0.25 | 0.15 | lasso | 2 | 0.15 | 2.4e-05 | -7.24 | -7.3 | 3.6e-13 | -0.58 | 0.61 | 0.32 | FALSE |
| 25 | GTEx | Cells EBV-transformed lymphocytes | ADAMTS7 | 0.32 | 0.11 | lasso | 5 | 0.17 | 2.8e-06 | -5.13 | -5.8 | 8.1e-09 | -0.18 | 0.57 | 0.06 | FALSE |
| 26 | GTEx | Cells EBV-transformed lymphocytes | RP11-762H8.2 | 0.24 | 0.05 | enet | 18 | 0.11 | 1.8e-04 | -0.94 | -5.1 | 2.8e-07 | -0.32 | 0.11 | 0.21 | FALSE |
| 27 | GTEx | Cells Transformed fibroblasts | CHRNA5 | 0.31 | 0.41 | enet | 20 | 0.45 | 5.0e-37 | -7.45 | -7.5 | 9.5e-14 | -0.58 | 1.00 | 0.00 | FALSE |
| 28 | GTEx | Colon Sigmoid | CHRNA5 | 0.20 | -0.01 | enet | 14 | 0.03 | 2.9e-02 | 15.95 | -11.5 | 7.6e-31 | -0.52 | 0.03 | 0.64 | FALSE |
| 29 | GTEx | Colon Transverse | CHRNA5 | 0.18 | 0.14 | lasso | 4 | 0.13 | 9.4e-07 | 7.24 | -6.0 | 2.7e-09 | -0.50 | 0.26 | 0.52 | FALSE |
| 30 | GTEx | Esophagus Mucosa | CHRNA5 | 0.22 | 0.17 | lasso | 9 | 0.17 | 1.0e-11 | -7.36 | -7.0 | 3.3e-12 | -0.58 | 0.98 | 0.02 | FALSE |
| 31 | GTEx | Heart Left Ventricle | PSMA4 | 0.18 | 0.02 | enet | 21 | 0.06 | 4.4e-04 | -6.76 | 10.5 | 1.0e-25 | 0.72 | 0.04 | 0.92 | FALSE |
| 32 | GTEx | Heart Left Ventricle | CHRNA5 | 0.33 | 0.41 | lasso | 8 | 0.42 | 8.0e-24 | -7.40 | -6.1 | 8.5e-10 | -0.51 | 1.00 | 0.00 | FALSE |
| 33 | GTEx | Liver | PSMA4 | 0.18 | 0.14 | lasso | 1 | 0.11 | 6.5e-04 | 16.90 | 16.9 | 4.6e-64 | 0.96 | 0.01 | 0.94 | FALSE |
| 34 | GTEx | Lung | CHRNA5 | 0.12 | 0.11 | lasso | 2 | 0.09 | 2.0e-07 | -7.28 | -7.3 | 3.3e-13 | -0.57 | 0.99 | 0.00 | FALSE |
| 35 | GTEx | Muscle Skeletal | CHRNA5 | 0.43 | 0.58 | lasso | 7 | 0.59 | 1.4e-71 | -7.28 | -7.3 | 2.0e-13 | -0.58 | 1.00 | 0.00 | FALSE |
| 36 | GTEx | Nerve Tibial | PSMA4 | 0.09 | 0.05 | lasso | 2 | 0.03 | 3.8e-03 | -7.24 | 6.6 | 3.4e-11 | 0.55 | 0.52 | 0.10 | FALSE |
| 37 | GTEx | Nerve Tibial | CHRNA5 | 0.32 | 0.48 | lasso | 5 | 0.47 | 4.2e-37 | -7.36 | -7.7 | 2.1e-14 | -0.59 | 1.00 | 0.00 | FALSE |
| 38 | GTEx | Ovary | ADAMTS7 | 0.31 | 0.01 | enet | 1 | -0.01 | 7.8e-01 | -5.41 | 5.4 | 6.4e-08 | 0.47 | 0.06 | 0.10 | FALSE |
| 39 | GTEx | Skin Not Sun Exposed Suprapubic | CHRNA5 | 0.15 | 0.12 | lasso | 5 | 0.11 | 7.9e-07 | -7.28 | -7.3 | 2.8e-13 | -0.59 | 0.95 | 0.03 | FALSE |
| 40 | GTEx | Skin Sun Exposed Lower leg | DNAJA4 | 0.14 | 0.02 | enet | 17 | 0.05 | 5.3e-05 | -1.13 | 7.3 | 2.4e-13 | 0.34 | 0.39 | 0.46 | FALSE |
| 41 | GTEx | Skin Sun Exposed Lower leg | CHRNA5 | 0.19 | 0.11 | lasso | 4 | 0.12 | 7.1e-10 | -7.36 | -7.4 | 1.5e-13 | -0.58 | 1.00 | 0.00 | FALSE |
| 42 | GTEx | Skin Sun Exposed Lower leg | RP11-762H8.4 | 0.13 | 0.03 | enet | 36 | 0.03 | 2.2e-03 | -1.13 | 7.9 | 3.7e-15 | 0.39 | 0.10 | 0.62 | FALSE |
| 43 | GTEx | Spleen | ADAMTS7 | 0.34 | 0.01 | enet | 12 | 0.08 | 3.7e-03 | -11.01 | -7.3 | 3.6e-13 | -0.31 | 0.06 | 0.06 | FALSE |
| 44 | GTEx | Testis | CHRNA5 | 0.16 | 0.07 | enet | 11 | 0.11 | 1.4e-05 | 16.90 | 14.5 | 7.9e-48 | 0.82 | 0.03 | 0.96 | FALSE |
| 45 | METSIM | Adipose | CHRNA5 | 0.13 | 0.19 | enet | 21 | 0.20 | 1.0e-28 | -7.42 | -5.4 | 6.5e-08 | -0.48 | 1.00 | 0.00 | FALSE |
| 46 | METSIM | Adipose | DNAJA4 | 0.08 | 0.00 | enet | 33 | 0.04 | 3.5e-06 | 1.51 | 5.9 | 4.7e-09 | 0.23 | 0.33 | 0.14 | FALSE |
| 47 | YFS | Blood | IREB2 | 0.18 | 0.20 | enet | 28 | 0.24 | 4.0e-78 | 15.27 | -14.3 | 4.3e-46 | -0.76 | 1.00 | 0.00 | FALSE |
| 48 | YFS | Blood | PSMA4 | 0.08 | 0.08 | lasso | 10 | 0.11 | 8.3e-35 | 17.11 | 17.1 | 2.1e-65 | 0.86 | 0.00 | 1.00 | TRUE |
| 49 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | CHRNA5 | 0.03 | 0.02 | enet | 6 | 0.01 | 2.4e-02 | -7.25 | -7.3 | 2.3e-13 | -0.59 | 0.08 | 0.34 | FALSE |
| 50 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | MORF4L1 | 0.04 | 0.03 | lasso | 2 | 0.03 | 5.8e-04 | 7.11 | 6.1 | 1.3e-09 | 0.22 | 0.00 | 0.96 | FALSE |
| 51 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CHRNA3 | 0.02 | 0.02 | blup | 44 | 0.02 | 4.8e-05 | -6.64 | -9.7 | 3.4e-22 | -0.69 | 0.31 | 0.49 | FALSE |
| 52 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CHRNA5 | 0.08 | 0.13 | enet | 13 | 0.14 | 1.6e-26 | -6.76 | -8.2 | 1.6e-16 | -0.63 | 1.00 | 0.00 | FALSE |
| 53 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CHRNB4 | 0.02 | 0.00 | enet | 3 | 0.01 | 1.3e-02 | -6.31 | -6.5 | 8.3e-11 | -0.47 | 0.19 | 0.03 | FALSE |
| 54 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | CHRNA5 | 0.16 | 0.14 | lasso | 1 | 0.12 | 1.9e-06 | -7.45 | -7.5 | 9.3e-14 | -0.58 | 0.80 | 0.14 | FALSE |
| 55 | The Cancer Genome Atlas | Esophageal Carcinoma | CHRNA3 | 0.24 | 0.15 | enet | 5 | 0.16 | 6.5e-06 | 16.90 | -16.1 | 2.0e-58 | -0.91 | 0.01 | 0.97 | FALSE |
| 56 | The Cancer Genome Atlas | Esophageal Carcinoma | CHRNA5 | 0.17 | 0.15 | lasso | 4 | 0.14 | 3.1e-05 | 16.90 | -17.1 | 7.0e-66 | -0.95 | 0.01 | 0.98 | FALSE |
| 57 | The Cancer Genome Atlas | Glioblastoma Multiforme | CHRNA5 | 0.28 | 0.19 | lasso | 7 | 0.18 | 3.5e-06 | -7.40 | -7.4 | 1.3e-13 | -0.58 | 0.58 | 0.30 | FALSE |
| 58 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | CHRNA3 | 0.02 | 0.02 | lasso | 2 | 0.02 | 3.1e-03 | -5.75 | -6.2 | 7.3e-10 | -0.52 | 0.05 | 0.07 | FALSE |
| 59 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | CHRNA5 | 0.20 | 0.13 | lasso | 3 | 0.14 | 7.0e-15 | -7.24 | -7.8 | 7.7e-15 | -0.62 | 1.00 | 0.00 | FALSE |
| 60 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CHRNA3 | 0.03 | 0.03 | blup | 44 | 0.03 | 1.4e-04 | -6.76 | -7.8 | 7.8e-15 | -0.60 | 0.56 | 0.24 | FALSE |
| 61 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CHRNA5 | 0.22 | 0.33 | lasso | 7 | 0.33 | 3.7e-38 | -7.28 | -7.6 | 3.1e-14 | -0.59 | 1.00 | 0.00 | FALSE |
| 62 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | ADAMTS7 | 0.08 | 0.07 | lasso | 3 | 0.06 | 4.2e-04 | 10.81 | 10.8 | 2.9e-27 | 0.60 | 0.00 | 0.93 | FALSE |
| 63 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | CHRNA5 | 0.12 | 0.15 | blup | 50 | 0.14 | 1.4e-08 | -7.28 | -9.4 | 5.7e-21 | -0.68 | 0.94 | 0.06 | FALSE |
| 64 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ADAMTS7 | 0.08 | 0.07 | lasso | 3 | 0.07 | 4.9e-08 | 11.03 | 10.9 | 8.2e-28 | 0.60 | 0.00 | 1.00 | FALSE |
| 65 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CHRNA5 | 0.39 | 0.62 | enet | 16 | 0.62 | 9.4e-90 | -7.45 | -8.4 | 5.8e-17 | -0.63 | 1.00 | 0.00 | FALSE |
| 66 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | CHRNA5 | 0.29 | 0.25 | enet | 16 | 0.25 | 6.8e-12 | -7.24 | -8.7 | 3.7e-18 | -0.60 | 1.00 | 0.00 | FALSE |
| 67 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | PSMA4 | 0.08 | 0.02 | blup | 40 | 0.03 | 1.1e-02 | -10.68 | -12.5 | 1.1e-35 | -0.54 | 0.04 | 0.22 | FALSE |
| 68 | The Cancer Genome Atlas | Lung Adenocarcinoma | CHRNA3 | 0.16 | 0.00 | enet | 22 | 0.02 | 2.2e-03 | -6.22 | -10.1 | 4.5e-24 | -0.53 | 0.02 | 0.75 | FALSE |
| 69 | The Cancer Genome Atlas | Lung Adenocarcinoma | CHRNA5 | 0.02 | 0.01 | blup | 50 | 0.02 | 2.6e-03 | -7.48 | -13.4 | 1.0e-40 | -0.84 | 0.02 | 0.70 | FALSE |
| 70 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | PSMA4 | 0.03 | 0.02 | blup | 40 | 0.02 | 3.1e-03 | -7.45 | 12.4 | 2.2e-35 | 0.80 | 0.02 | 0.60 | FALSE |
| 71 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | CHRNA5 | 0.15 | 0.07 | blup | 50 | 0.09 | 2.5e-04 | -11.38 | -14.9 | 1.9e-50 | -0.64 | 0.16 | 0.58 | FALSE |
| 72 | The Cancer Genome Atlas | Prostate Adenocarcinoma | AGPHD1 | 0.12 | 0.01 | enet | 11 | 0.06 | 6.5e-07 | -6.81 | -9.0 | 2.7e-19 | -0.45 | 0.03 | 0.48 | FALSE |
| 73 | The Cancer Genome Atlas | Prostate Adenocarcinoma | CHRNA3 | 0.04 | 0.04 | blup | 44 | 0.06 | 1.4e-06 | 15.78 | -13.6 | 6.7e-42 | -0.82 | 0.02 | 0.98 | FALSE |
| 74 | The Cancer Genome Atlas | Prostate Adenocarcinoma | CHRNA5 | 0.04 | 0.01 | enet | 10 | 0.03 | 6.0e-04 | 16.90 | -13.6 | 3.5e-42 | -0.75 | 0.01 | 0.80 | FALSE |
| 75 | The Cancer Genome Atlas | Soft Tissue Sarcoma | CHRNA5 | 0.11 | 0.13 | enet | 9 | 0.16 | 1.4e-09 | -6.81 | -8.5 | 2.7e-17 | -0.64 | 0.98 | 0.02 | FALSE |
| 76 | The Cancer Genome Atlas | Stomach Adenocarcinoma | CHRNA3 | 0.05 | 0.02 | blup | 44 | 0.02 | 7.6e-03 | 16.90 | -14.4 | 9.5e-47 | -0.87 | 0.01 | 0.95 | FALSE |
| 77 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | AGPHD1 | 0.13 | 0.07 | enet | 11 | 0.05 | 9.3e-03 | -6.76 | 7.3 | 2.8e-13 | 0.50 | 0.04 | 0.23 | FALSE |
| 78 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | PSMA4 | 0.11 | 0.01 | blup | 40 | 0.03 | 3.0e-02 | -7.45 | 10.7 | 1.3e-26 | 0.74 | 0.05 | 0.49 | FALSE |
| 79 | The Cancer Genome Atlas | Thyroid Carcinoma | CHRNA5 | 0.16 | 0.25 | lasso | 6 | 0.25 | 2.7e-24 | -7.24 | -10.6 | 3.1e-26 | -0.73 | 1.00 | 0.00 | FALSE |
| 80 | The Cancer Genome Atlas | Thyroid Carcinoma | CHRNB4 | 0.06 | 0.03 | lasso | 2 | 0.06 | 4.4e-06 | 10.63 | 10.1 | 5.1e-24 | 0.60 | 0.28 | 0.66 | FALSE |
| 81 | The Cancer Genome Atlas | Uterine Corpus Endometrial Carcinoma | CHRNA5 | 0.15 | 0.11 | lasso | 4 | 0.08 | 2.7e-03 | -5.75 | -6.6 | 4.0e-11 | -0.55 | 0.13 | 0.18 | FALSE |