Best TWAS P=3.58e-66 · Best GWAS P=1.55e-78 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 | CCDC126 | 0.04 | 0.02 | lasso | 6 | 0.02 | 4.4e-03 | 4.5 | 6.2 | 4.2e-10 | -0.15 | 0.60 | 0.01 | TRUE |
| 2 | GTEx | Adipose Visceral Omentum | KLHL7 | 0.22 | 0.06 | lasso | 4 | 0.13 | 3.7e-07 | 3.3 | 5.5 | 4.8e-08 | -0.01 | 0.28 | 0.03 | FALSE |
| 3 | GTEx | Artery Aorta | MPP6 | 0.13 | 0.09 | lasso | 3 | 0.07 | 1.4e-04 | 5.2 | -5.2 | 1.8e-07 | -0.02 | 0.03 | 0.95 | FALSE |
| 4 | GTEx | Artery Aorta | KLHL7 | 0.18 | 0.10 | lasso | 6 | 0.07 | 7.3e-05 | 3.3 | 9.6 | 8.0e-22 | -0.25 | 0.20 | 0.36 | TRUE |
| 5 | GTEx | Artery Tibial | MPP6 | 0.14 | 0.04 | lasso | 5 | 0.04 | 6.3e-04 | 5.2 | -5.7 | 9.5e-09 | -0.02 | 0.02 | 0.97 | TRUE |
| 6 | GTEx | Brain Caudate basal ganglia | FAM221A | 0.27 | 0.26 | lasso | 4 | 0.22 | 4.5e-07 | 6.7 | 6.7 | 2.4e-11 | -0.18 | 0.86 | 0.01 | FALSE |
| 7 | GTEx | Brain Cerebellum | AK3P3 | 0.27 | 0.15 | enet | 23 | 0.14 | 8.4e-05 | -1.1 | 5.5 | 4.2e-08 | -0.24 | 0.35 | 0.05 | TRUE |
| 8 | GTEx | Brain Hippocampus | FAM221A | 0.40 | 0.37 | enet | 24 | 0.38 | 6.0e-10 | 6.7 | 8.3 | 9.4e-17 | -0.20 | 0.84 | 0.02 | FALSE |
| 9 | GTEx | Brain Putamen basal ganglia | FAM221A | 0.26 | 0.33 | lasso | 3 | 0.32 | 2.6e-08 | 6.7 | 6.9 | 4.4e-12 | -0.21 | 0.63 | 0.05 | FALSE |
| 10 | GTEx | Breast Mammary Tissue | FAM221A | 0.13 | 0.08 | lasso | 5 | 0.05 | 1.7e-03 | -5.8 | -5.5 | 2.8e-08 | 0.05 | 0.37 | 0.03 | TRUE |
| 11 | GTEx | Breast Mammary Tissue (Male) | FAM221A | 0.05 | 0.16 | lasso | 1 | 0.13 | 5.6e-04 | -6.7 | -6.7 | 2.6e-11 | 0.12 | 0.04 | 0.08 | TRUE |
| 12 | GTEx | Cells EBV-transformed lymphocytes | CCDC126 | 0.52 | 0.39 | enet | 26 | 0.40 | 3.0e-14 | -12.0 | -10.3 | 5.3e-25 | 0.23 | 1.00 | 0.00 | FALSE |
| 13 | GTEx | Esophagus Gastroesophageal Junction | FAM221A | 0.15 | 0.16 | lasso | 4 | 0.13 | 1.6e-05 | 6.6 | -8.1 | 7.4e-16 | 0.24 | 0.32 | 0.05 | FALSE |
| 14 | GTEx | Esophagus Mucosa | CCDC126 | 0.12 | 0.03 | lasso | 7 | 0.01 | 4.3e-02 | -13.7 | 14.2 | 8.0e-46 | -0.51 | 0.18 | 0.10 | TRUE |
| 15 | GTEx | Esophagus Mucosa | FAM221A | 0.16 | 0.12 | enet | 8 | 0.12 | 1.0e-08 | 6.7 | -6.9 | 5.4e-12 | 0.18 | 1.00 | 0.00 | FALSE |
| 16 | GTEx | Esophagus Muscularis | FAM221A | 0.10 | 0.00 | lasso | 5 | 0.00 | 5.0e-01 | -6.7 | -6.2 | 4.1e-10 | 0.08 | 0.12 | 0.04 | FALSE |
| 17 | GTEx | Muscle Skeletal | FAM221A | 0.11 | 0.13 | lasso | 4 | 0.10 | 1.2e-09 | 6.7 | -6.1 | 8.5e-10 | 0.15 | 1.00 | 0.00 | FALSE |
| 18 | GTEx | Muscle Skeletal | AK3P3 | 0.05 | 0.00 | enet | 14 | 0.00 | 9.9e-02 | 6.9 | 7.6 | 3.6e-14 | -0.30 | 0.11 | 0.03 | TRUE |
| 19 | GTEx | Nerve Tibial | MPP6 | 0.30 | 0.04 | enet | 55 | 0.10 | 1.9e-07 | 4.8 | -5.6 | 2.1e-08 | 0.01 | 0.04 | 0.95 | FALSE |
| 20 | GTEx | Nerve Tibial | FAM221A | 0.13 | 0.06 | enet | 24 | 0.08 | 3.2e-06 | 6.7 | -8.6 | 9.1e-18 | 0.24 | 0.72 | 0.15 | TRUE |
| 21 | GTEx | Pancreas | FAM221A | 0.31 | 0.26 | lasso | 4 | 0.23 | 6.1e-10 | 6.5 | -6.0 | 2.2e-09 | 0.14 | 1.00 | 0.00 | FALSE |
| 22 | GTEx | Prostate | NUPL2 | 0.21 | 0.12 | enet | 15 | 0.17 | 4.7e-05 | -1.3 | -9.7 | 2.0e-22 | 0.38 | 0.07 | 0.34 | FALSE |
| 23 | GTEx | Testis | GPNMB | 0.13 | 0.01 | lasso | 5 | 0.03 | 1.7e-02 | 2.7 | 6.2 | 5.5e-10 | -0.10 | 0.09 | 0.04 | FALSE |
| 24 | GTEx | Testis | FAM221A | 0.45 | 0.35 | enet | 19 | 0.42 | 2.8e-20 | -3.1 | -7.9 | 2.0e-15 | 0.26 | 1.00 | 0.00 | FALSE |
| 25 | METSIM | Adipose | FAM221A | 0.04 | 0.02 | enet | 9 | 0.03 | 3.7e-05 | -6.7 | -5.3 | 1.4e-07 | 0.17 | 0.70 | 0.01 | FALSE |
| 26 | ROSMAP | Brain Pre-frontal Cortex | AC003090.1 | 0.14 | 0.03 | lasso | 6 | 0.10 | 2.1e-12 | -1.3 | -6.3 | 2.4e-10 | 0.07 | 1.00 | 0.00 | TRUE |
| 27 | YFS | Blood | CCDC126 | 0.05 | 0.04 | enet | 10 | 0.05 | 1.6e-15 | -11.6 | -10.3 | 4.2e-25 | 0.29 | 1.00 | 0.00 | TRUE |
| 28 | YFS | Blood | TRA2A | 0.07 | 0.04 | lasso | 9 | 0.05 | 3.9e-16 | -15.6 | 8.2 | 2.3e-16 | -0.77 | 0.58 | 0.42 | FALSE |
| 29 | The Cancer Genome Atlas | Esophageal Carcinoma | TRA2A | 0.18 | 0.02 | blup | 40 | 0.05 | 1.2e-02 | -15.3 | -17.2 | 3.6e-66 | 0.82 | 0.01 | 0.40 | TRUE |
| 30 | The Cancer Genome Atlas | Glioblastoma Multiforme | GPNMB | 0.18 | 0.05 | enet | 14 | 0.06 | 6.0e-03 | 4.0 | 6.8 | 1.4e-11 | -0.20 | 0.02 | 0.19 | TRUE |
| 31 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | GPNMB | 0.03 | 0.02 | enet | 25 | 0.02 | 1.4e-03 | -2.5 | 6.4 | 1.5e-10 | -0.22 | 0.06 | 0.18 | FALSE |
| 32 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | C7orf46 | 0.02 | 0.01 | blup | 52 | 0.01 | 1.5e-02 | 6.7 | 6.4 | 1.2e-10 | -0.18 | 0.05 | 0.15 | FALSE |
| 33 | The Cancer Genome Atlas | Brain Lower Grade Glioma | C7orf46 | 0.08 | 0.09 | enet | 8 | 0.07 | 2.9e-08 | 6.5 | -6.0 | 2.4e-09 | 0.17 | 1.00 | 0.00 | FALSE |
| 34 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | C7orf46 | 0.27 | 0.22 | lasso | 5 | 0.23 | 1.2e-09 | 6.7 | -6.6 | 5.4e-11 | 0.18 | 1.00 | 0.00 | FALSE |
| 35 | The Cancer Genome Atlas | Prostate Adenocarcinoma | C7orf46 | 0.11 | 0.18 | lasso | 4 | 0.18 | 5.1e-18 | 6.7 | -6.7 | 2.4e-11 | 0.17 | 1.00 | 0.00 | FALSE |
| 36 | The Cancer Genome Atlas | Soft Tissue Sarcoma | RPS2P32 | 0.08 | 0.02 | blup | 27 | 0.02 | 3.1e-02 | -8.9 | 9.3 | 8.9e-21 | -0.45 | 0.03 | 0.10 | FALSE |
| 37 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | C7orf46 | 0.19 | 0.08 | blup | 52 | 0.09 | 3.4e-04 | -7.3 | -6.8 | 7.7e-12 | 0.27 | 0.02 | 0.10 | TRUE |