Best TWAS P=1.34e-17 · Best GWAS P=2.21e-17 conditioned to 0.0696
| # | 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 | AMIGO1 | 0.36 | 0.31 | enet | 31 | 0.32 | 8.5e-27 | -5.7 | -5.6 | 1.8e-08 | 0.39 | 1.00 | 0.00 | FALSE |
| 2 | GTEx | Adipose Visceral Omentum | AMIGO1 | 0.25 | 0.21 | lasso | 3 | 0.19 | 5.7e-10 | -5.7 | -5.7 | 1.4e-08 | 0.38 | 1.00 | 0.00 | FALSE |
| 3 | GTEx | Artery Coronary | AMIGO1 | 0.20 | 0.20 | lasso | 6 | 0.16 | 6.3e-06 | -5.7 | -5.8 | 7.7e-09 | 0.39 | 0.63 | 0.04 | FALSE |
| 4 | GTEx | Artery Tibial | SYPL2 | 0.30 | 0.22 | lasso | 6 | 0.30 | 3.7e-24 | 1.9 | -5.1 | 2.8e-07 | 0.64 | 0.95 | 0.05 | FALSE |
| 5 | GTEx | Artery Tibial | ATXN7L2 | 0.23 | 0.03 | enet | 12 | 0.11 | 9.1e-09 | 1.9 | -5.4 | 6.8e-08 | 0.48 | 0.56 | 0.23 | FALSE |
| 6 | GTEx | Artery Tibial | AMIGO1 | 0.13 | 0.09 | lasso | 2 | 0.08 | 5.1e-07 | -5.7 | -5.6 | 1.8e-08 | 0.35 | 0.98 | 0.00 | FALSE |
| 7 | GTEx | Brain Caudate basal ganglia | AMIGO1 | 0.17 | 0.00 | enet | 10 | 0.00 | 4.4e-01 | 6.9 | -5.9 | 2.8e-09 | 0.57 | 0.08 | 0.17 | FALSE |
| 8 | GTEx | Brain Cerebellar Hemisphere | SYPL2 | 0.28 | 0.04 | lasso | 5 | 0.09 | 2.7e-03 | -8.1 | -7.5 | 7.4e-14 | 0.91 | 0.06 | 0.89 | FALSE |
| 9 | GTEx | Brain Cerebellar Hemisphere | ATXN7L2 | 0.24 | -0.01 | enet | 9 | -0.01 | 5.3e-01 | -4.2 | -8.1 | 8.3e-16 | 0.64 | 0.04 | 0.33 | FALSE |
| 10 | GTEx | Brain Cerebellum | SYPL2 | 0.16 | 0.02 | enet | 9 | 0.03 | 5.1e-02 | -8.0 | -8.2 | 3.0e-16 | 0.94 | 0.04 | 0.88 | FALSE |
| 11 | GTEx | Brain Cortex | GSTM1 | 0.35 | 0.01 | enet | 16 | 0.12 | 2.8e-04 | -1.8 | -7.0 | 3.2e-12 | 0.36 | 0.09 | 0.13 | FALSE |
| 12 | GTEx | Brain Cortex | AC000032.2 | 0.37 | 0.01 | enet | 17 | 0.13 | 2.1e-04 | -1.8 | -7.1 | 1.4e-12 | 0.39 | 0.09 | 0.14 | FALSE |
| 13 | GTEx | Breast Mammary Tissue | AMIGO1 | 0.24 | 0.21 | lasso | 2 | 0.21 | 6.1e-11 | -5.7 | -5.6 | 1.7e-08 | 0.35 | 1.00 | 0.00 | FALSE |
| 14 | GTEx | Breast Mammary Tissue (Female) | AMIGO1 | 0.17 | 0.14 | lasso | 2 | 0.09 | 1.3e-03 | -5.8 | -5.8 | 8.3e-09 | 0.38 | 0.21 | 0.06 | FALSE |
| 15 | GTEx | Cells Transformed fibroblasts | PSMA5 | 0.12 | 0.02 | lasso | 5 | 0.01 | 3.4e-02 | -3.0 | 6.0 | 2.5e-09 | -0.47 | 0.05 | 0.63 | FALSE |
| 16 | GTEx | Cells Transformed fibroblasts | AMIGO1 | 0.39 | 0.38 | enet | 22 | 0.43 | 1.7e-34 | -5.7 | -6.2 | 6.0e-10 | 0.41 | 1.00 | 0.00 | FALSE |
| 17 | GTEx | Colon Sigmoid | SYPL2 | 0.15 | 0.06 | enet | 16 | 0.06 | 5.2e-03 | -6.1 | -6.6 | 4.6e-11 | 0.77 | 0.10 | 0.79 | FALSE |
| 18 | GTEx | Esophagus Gastroesophageal Junction | SYPL2 | 0.29 | 0.14 | enet | 21 | 0.18 | 3.0e-07 | -8.0 | -6.0 | 1.6e-09 | 0.82 | 0.06 | 0.93 | FALSE |
| 19 | GTEx | Esophagus Mucosa | SYPL2 | 0.10 | 0.00 | enet | 26 | 0.03 | 4.5e-03 | -8.1 | -6.0 | 1.9e-09 | 0.78 | 0.06 | 0.85 | FALSE |
| 20 | GTEx | Esophagus Mucosa | AMIGO1 | 0.43 | 0.38 | enet | 39 | 0.39 | 2.0e-27 | -5.7 | -5.8 | 5.9e-09 | 0.41 | 1.00 | 0.00 | FALSE |
| 21 | GTEx | Esophagus Muscularis | SYPL2 | 0.32 | 0.23 | lasso | 10 | 0.37 | 6.8e-24 | -8.3 | -6.7 | 2.1e-11 | 0.80 | 0.03 | 0.97 | FALSE |
| 22 | GTEx | Liver | SYPL2 | 0.34 | 0.27 | lasso | 5 | 0.30 | 4.6e-09 | -8.1 | -8.5 | 2.8e-17 | 0.90 | 0.03 | 0.96 | FALSE |
| 23 | GTEx | Liver | ATXN7L2 | 0.39 | 0.04 | lasso | 12 | 0.21 | 1.3e-06 | -8.0 | -7.6 | 3.6e-14 | 0.72 | 0.04 | 0.89 | FALSE |
| 24 | GTEx | Liver | AMIGO1 | 0.28 | 0.13 | lasso | 7 | 0.15 | 6.9e-05 | -5.7 | -6.5 | 8.8e-11 | 0.51 | 0.22 | 0.24 | FALSE |
| 25 | GTEx | Lung | SYPL2 | 0.24 | 0.20 | enet | 16 | 0.28 | 1.6e-21 | -6.1 | -6.4 | 1.4e-10 | 0.85 | 0.33 | 0.67 | FALSE |
| 26 | GTEx | Lung | AMIGO1 | 0.14 | 0.07 | enet | 22 | 0.06 | 3.6e-05 | -5.7 | -6.9 | 5.1e-12 | 0.46 | 0.99 | 0.01 | FALSE |
| 27 | GTEx | Muscle Skeletal | SYPL2 | 0.20 | 0.21 | lasso | 2 | 0.21 | 1.5e-20 | -5.9 | -6.0 | 2.2e-09 | 0.79 | 1.00 | 0.00 | FALSE |
| 28 | GTEx | Muscle Skeletal | CYB561D1 | 0.07 | 0.00 | lasso | 3 | 0.00 | 7.2e-01 | -8.3 | 8.2 | 1.8e-16 | -0.98 | 0.02 | 0.92 | FALSE |
| 29 | GTEx | Muscle Skeletal | AMIGO1 | 0.16 | 0.09 | lasso | 9 | 0.08 | 5.7e-08 | -5.8 | -5.5 | 3.6e-08 | 0.32 | 1.00 | 0.00 | FALSE |
| 30 | GTEx | Nerve Tibial | AMIGO1 | 0.36 | 0.33 | lasso | 6 | 0.33 | 4.4e-24 | -5.7 | -5.8 | 6.7e-09 | 0.37 | 1.00 | 0.00 | FALSE |
| 31 | GTEx | Ovary | SYPL2 | 0.39 | 0.44 | lasso | 5 | 0.46 | 8.8e-13 | -8.3 | 8.4 | 6.0e-17 | -0.98 | 0.03 | 0.97 | FALSE |
| 32 | GTEx | Ovary | ATXN7L2 | 0.18 | 0.18 | enet | 17 | 0.13 | 5.6e-04 | -8.3 | 8.3 | 1.1e-16 | -0.98 | 0.03 | 0.93 | FALSE |
| 33 | GTEx | Pancreas | SYPL2 | 0.28 | 0.23 | lasso | 5 | 0.19 | 2.0e-08 | -6.1 | -6.9 | 4.4e-12 | 0.90 | 0.05 | 0.95 | FALSE |
| 34 | GTEx | Skin Not Sun Exposed Suprapubic | AMIGO1 | 0.43 | 0.36 | lasso | 6 | 0.33 | 7.7e-19 | -5.7 | -5.8 | 4.8e-09 | 0.41 | 1.00 | 0.00 | FALSE |
| 35 | GTEx | Skin Sun Exposed Lower leg | AMIGO1 | 0.39 | 0.36 | enet | 26 | 0.40 | 1.0e-35 | -5.7 | -6.0 | 2.2e-09 | 0.40 | 1.00 | 0.00 | FALSE |
| 36 | GTEx | Stomach | SYPL2 | 0.23 | 0.18 | lasso | 8 | 0.21 | 2.3e-10 | -8.1 | -7.8 | 4.2e-15 | 0.91 | 0.03 | 0.97 | FALSE |
| 37 | GTEx | Stomach | AMIGO1 | 0.15 | 0.07 | lasso | 3 | 0.06 | 8.1e-04 | -5.7 | -5.9 | 4.2e-09 | 0.49 | 0.29 | 0.47 | FALSE |
| 38 | GTEx | Testis | SORT1 | 0.25 | 0.17 | lasso | 6 | 0.17 | 5.2e-08 | -6.1 | -6.0 | 1.5e-09 | 0.83 | 0.10 | 0.90 | FALSE |
| 39 | GTEx | Testis | SYPL2 | 0.45 | 0.50 | enet | 22 | 0.54 | 5.0e-28 | -8.3 | 8.4 | 3.0e-17 | -0.99 | 0.03 | 0.97 | FALSE |
| 40 | GTEx | Testis | ATXN7L2 | 0.28 | 0.34 | lasso | 4 | 0.33 | 3.7e-15 | -8.5 | 8.4 | 3.6e-17 | -1.00 | 0.02 | 0.98 | FALSE |
| 41 | GTEx | Thyroid | ATXN7L2 | 0.15 | 0.15 | lasso | 6 | 0.15 | 1.0e-11 | -5.9 | 5.8 | 5.1e-09 | -0.78 | 0.82 | 0.18 | FALSE |
| 42 | GTEx | Thyroid | AMIGO1 | 0.22 | 0.23 | lasso | 4 | 0.24 | 2.3e-18 | -5.8 | -5.6 | 2.4e-08 | 0.37 | 1.00 | 0.00 | FALSE |
| 43 | GTEx | Uterus | SYPL2 | 0.29 | 0.13 | lasso | 7 | 0.04 | 5.1e-02 | -8.0 | 7.3 | 2.8e-13 | -0.87 | 0.04 | 0.70 | FALSE |
| 44 | METSIM | Adipose | SYPL2 | 0.06 | 0.06 | blup | 418 | 0.05 | 4.3e-08 | -5.9 | -6.8 | 7.5e-12 | 0.81 | 0.30 | 0.70 | FALSE |
| 45 | NTR | Blood | SORT1 | 0.05 | 0.06 | lasso | 6 | 0.06 | 2.1e-17 | -8.3 | -8.3 | 8.2e-17 | 0.97 | 0.02 | 0.98 | FALSE |
| 46 | ROSMAP | Brain Pre-frontal Cortex | SYPL2 | 0.03 | 0.01 | lasso | 3 | 0.01 | 9.8e-03 | -5.9 | -5.3 | 1.2e-07 | 0.68 | 0.07 | 0.64 | FALSE |
| 47 | ROSMAP | Brain Pre-frontal Cortex | ATXN7L2 | 0.07 | 0.06 | enet | 12 | 0.09 | 5.6e-12 | -8.0 | 5.2 | 1.9e-07 | -0.71 | 0.16 | 0.84 | FALSE |
| 48 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | AMIGO1 | 0.10 | 0.14 | enet | 10 | 0.11 | 2.8e-09 | -5.8 | -7.5 | 7.7e-14 | 0.58 | 1.00 | 0.00 | FALSE |
| 49 | The Cancer Genome Atlas | Breast Invasive Carcinoma | AMIGO1 | 0.16 | 0.19 | enet | 21 | 0.19 | 3.0e-37 | -5.7 | -5.3 | 1.4e-07 | 0.32 | 1.00 | 0.00 | FALSE |
| 50 | The Cancer Genome Atlas | Breast Invasive Carcinoma | SYPL2 | 0.06 | 0.07 | blup | 45 | 0.08 | 8.5e-16 | -8.0 | -6.7 | 2.0e-11 | 0.88 | 0.08 | 0.92 | FALSE |
| 51 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | AMIGO1 | 0.20 | 0.17 | lasso | 2 | 0.17 | 1.1e-08 | -5.4 | -5.5 | 3.1e-08 | 0.31 | 0.96 | 0.01 | FALSE |
| 52 | The Cancer Genome Atlas | Colon Adenocarcinoma | AMIGO1 | 0.21 | 0.14 | lasso | 9 | 0.14 | 2.4e-08 | -5.7 | -5.7 | 9.5e-09 | 0.32 | 1.00 | 0.00 | FALSE |
| 53 | The Cancer Genome Atlas | Esophageal Carcinoma | AMIGO1 | 0.24 | 0.08 | blup | 46 | 0.18 | 3.0e-06 | -5.4 | -7.3 | 2.4e-13 | 0.58 | 0.07 | 0.45 | FALSE |
| 54 | The Cancer Genome Atlas | Glioblastoma Multiforme | AMIGO1 | 0.20 | 0.05 | lasso | 7 | 0.07 | 3.1e-03 | -4.2 | -5.2 | 1.9e-07 | 0.54 | 0.02 | 0.65 | FALSE |
| 55 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | AMIGO1 | 0.17 | 0.20 | enet | 9 | 0.18 | 2.1e-19 | -5.7 | -6.3 | 3.5e-10 | 0.42 | 1.00 | 0.00 | FALSE |
| 56 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | SYPL2 | 0.03 | 0.05 | lasso | 4 | 0.05 | 6.6e-06 | -8.3 | -8.4 | 6.1e-17 | 1.00 | 0.01 | 0.99 | FALSE |
| 57 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | SYPL2 | 0.04 | 0.04 | blup | 45 | 0.04 | 3.6e-03 | -8.0 | 6.6 | 3.0e-11 | -0.90 | 0.02 | 0.55 | FALSE |
| 58 | The Cancer Genome Atlas | Brain Lower Grade Glioma | AMIGO1 | 0.19 | 0.24 | lasso | 4 | 0.23 | 9.3e-26 | -5.8 | -5.6 | 2.1e-08 | 0.33 | 1.00 | 0.00 | FALSE |
| 59 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | AMIGO1 | 0.24 | 0.17 | lasso | 7 | 0.16 | 3.8e-08 | -5.7 | -5.7 | 9.3e-09 | 0.38 | 0.99 | 0.00 | FALSE |
| 60 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | MYBPHL | 0.09 | 0.07 | blup | 46 | 0.06 | 5.7e-04 | -6.1 | -7.1 | 1.3e-12 | 0.78 | 0.01 | 0.77 | FALSE |
| 61 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | SYPL2 | 0.18 | 0.19 | blup | 45 | 0.18 | 4.7e-09 | -8.5 | -7.6 | 3.6e-14 | 0.96 | 0.01 | 0.99 | FALSE |
| 62 | The Cancer Genome Atlas | Lung Adenocarcinoma | AMIGO1 | 0.10 | 0.14 | enet | 10 | 0.12 | 2.0e-13 | -5.7 | -6.5 | 8.3e-11 | 0.47 | 1.00 | 0.00 | FALSE |
| 63 | The Cancer Genome Atlas | Lung Adenocarcinoma | SYPL2 | 0.09 | 0.14 | enet | 13 | 0.14 | 1.3e-16 | -8.0 | -6.7 | 2.8e-11 | 0.90 | 0.09 | 0.91 | FALSE |
| 64 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | AMIGO1 | 0.13 | 0.13 | blup | 46 | 0.12 | 1.7e-13 | -5.7 | -7.1 | 1.5e-12 | 0.49 | 1.00 | 0.00 | FALSE |
| 65 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | SYPL2 | 0.05 | 0.06 | blup | 45 | 0.06 | 4.4e-07 | -8.3 | -6.7 | 1.9e-11 | 0.92 | 0.02 | 0.98 | FALSE |
| 66 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | AMIGO1 | 0.06 | 0.00 | blup | 46 | 0.02 | 9.5e-03 | -4.3 | -6.9 | 5.7e-12 | 0.70 | 0.01 | 0.74 | FALSE |
| 67 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | MYBPHL | 0.16 | 0.18 | enet | 10 | 0.17 | 2.3e-11 | -8.3 | -8.3 | 6.8e-17 | 0.97 | 0.01 | 0.99 | FALSE |
| 68 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | AMIGO1 | 0.20 | 0.24 | enet | 7 | 0.16 | 2.3e-07 | -5.7 | -6.3 | 3.1e-10 | 0.44 | 0.98 | 0.02 | FALSE |
| 69 | The Cancer Genome Atlas | Prostate Adenocarcinoma | AMIGO1 | 0.09 | 0.07 | enet | 10 | 0.07 | 1.2e-07 | -5.7 | -5.2 | 2.3e-07 | 0.26 | 1.00 | 0.00 | FALSE |
| 70 | The Cancer Genome Atlas | Prostate Adenocarcinoma | SYPL2 | 0.08 | 0.08 | blup | 44 | 0.10 | 1.9e-10 | -8.0 | -7.9 | 3.9e-15 | 0.93 | 0.07 | 0.93 | FALSE |
| 71 | The Cancer Genome Atlas | Rectum Adenocarcinoma | AMIGO1 | 0.27 | 0.21 | lasso | 1 | 0.19 | 2.5e-05 | -5.7 | -5.7 | 1.0e-08 | 0.38 | 0.08 | 0.18 | FALSE |
| 72 | The Cancer Genome Atlas | Soft Tissue Sarcoma | AMIGO1 | 0.12 | 0.14 | enet | 7 | 0.13 | 2.5e-08 | -5.7 | -5.8 | 8.7e-09 | 0.37 | 1.00 | 0.00 | FALSE |
| 73 | The Cancer Genome Atlas | Stomach Adenocarcinoma | AMIGO1 | 0.28 | 0.24 | enet | 16 | 0.22 | 4.0e-16 | -5.7 | -5.8 | 6.5e-09 | 0.39 | 1.00 | 0.00 | FALSE |
| 74 | The Cancer Genome Atlas | Stomach Adenocarcinoma | CELSR2 | 0.08 | 0.00 | blup | 62 | 0.02 | 8.1e-03 | -8.3 | -5.5 | 3.4e-08 | 0.59 | 0.01 | 0.42 | FALSE |
| 75 | The Cancer Genome Atlas | Stomach Adenocarcinoma | SORT1 | 0.04 | 0.01 | blup | 60 | 0.03 | 4.4e-03 | -2.9 | -7.0 | 2.4e-12 | 0.72 | 0.02 | 0.30 | FALSE |
| 76 | The Cancer Genome Atlas | Stomach Adenocarcinoma | SYPL2 | 0.05 | 0.02 | blup | 45 | 0.03 | 2.6e-03 | -8.0 | -6.5 | 7.0e-11 | 0.89 | 0.02 | 0.80 | FALSE |
| 77 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | AMIGO1 | 0.14 | 0.14 | blup | 46 | 0.14 | 1.1e-05 | -5.7 | -7.4 | 1.1e-13 | 0.60 | 0.40 | 0.34 | FALSE |
| 78 | The Cancer Genome Atlas | Thyroid Carcinoma | AMIGO1 | 0.14 | 0.16 | enet | 6 | 0.16 | 1.7e-15 | -5.7 | -6.0 | 1.6e-09 | 0.41 | 1.00 | 0.00 | FALSE |
| 79 | The Cancer Genome Atlas | Thyroid Carcinoma | ATXN7L2 | 0.06 | 0.06 | lasso | 3 | 0.05 | 6.6e-06 | -8.0 | 8.2 | 2.5e-16 | -0.96 | 0.03 | 0.97 | FALSE |
| 80 | The Cancer Genome Atlas | Thyroid Carcinoma | SYPL2 | 0.07 | 0.04 | blup | 45 | 0.03 | 4.9e-04 | -8.0 | 8.5 | 1.3e-17 | -0.90 | 0.03 | 0.96 | TRUE |