Best TWAS P=3.04e-18 · Best GWAS P=2.52e-21 conditioned to 0.00746
| # | 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 | INTS12 | 0.06 | 0.06 | enet | 5 | 0.05 | 2.9e-07 | 6.9 | -7.0 | 2.9e-12 | 0.08 | 1.00 | 0.00 | TRUE |
| 2 | GTEx | Adipose Subcutaneous | GSTCD | 0.08 | 0.07 | lasso | 8 | 0.07 | 2.9e-06 | 4.2 | 5.5 | 5.0e-08 | -0.12 | 0.97 | 0.00 | FALSE |
| 3 | GTEx | Adipose Visceral Omentum | PPA2 | 0.15 | 0.04 | lasso | 6 | 0.05 | 9.1e-04 | 5.3 | -5.5 | 4.0e-08 | 0.38 | 0.13 | 0.14 | FALSE |
| 4 | GTEx | Artery Aorta | PPA2 | 0.11 | -0.01 | enet | 24 | 0.01 | 1.6e-01 | -9.4 | -7.7 | 1.4e-14 | 0.69 | 0.02 | 0.76 | FALSE |
| 5 | GTEx | Artery Aorta | INTS12 | 0.13 | 0.14 | lasso | 3 | 0.14 | 6.5e-08 | 6.0 | -6.1 | 1.0e-09 | 0.08 | 0.95 | 0.00 | FALSE |
| 6 | GTEx | Brain Cerebellum | PPA2 | 0.22 | 0.01 | lasso | 4 | 0.03 | 3.7e-02 | -6.3 | -5.7 | 1.5e-08 | 0.59 | 0.08 | 0.21 | FALSE |
| 7 | GTEx | Brain Cortex | PPA2 | 0.14 | 0.09 | lasso | 9 | 0.09 | 1.6e-03 | -7.0 | -7.2 | 6.8e-13 | 0.81 | 0.05 | 0.62 | FALSE |
| 8 | GTEx | Cells EBV-transformed lymphocytes | GSTCD | 0.16 | 0.07 | lasso | 17 | 0.03 | 4.3e-02 | 6.3 | 6.5 | 1.1e-10 | -0.07 | 0.39 | 0.04 | FALSE |
| 9 | GTEx | Cells Transformed fibroblasts | PPA2 | 0.11 | 0.03 | lasso | 3 | 0.01 | 6.5e-02 | -4.8 | -5.7 | 1.5e-08 | 0.62 | 0.31 | 0.33 | FALSE |
| 10 | GTEx | Cells Transformed fibroblasts | INTS12 | 0.15 | 0.16 | lasso | 9 | 0.17 | 9.5e-13 | 6.3 | -6.8 | 1.5e-11 | 0.07 | 1.00 | 0.00 | FALSE |
| 11 | GTEx | Esophagus Gastroesophageal Junction | PPA2 | 0.29 | 0.15 | lasso | 5 | 0.14 | 8.8e-06 | -9.4 | -8.7 | 3.0e-18 | 0.88 | 0.01 | 0.98 | TRUE |
| 12 | GTEx | Esophagus Mucosa | PPA2 | 0.18 | 0.06 | enet | 14 | 0.12 | 2.5e-08 | 5.9 | -8.1 | 4.4e-16 | 0.76 | 0.01 | 0.99 | FALSE |
| 13 | GTEx | Esophagus Muscularis | INTS12 | 0.12 | 0.10 | lasso | 15 | 0.10 | 1.3e-06 | 7.0 | -6.7 | 2.1e-11 | 0.06 | 0.98 | 0.00 | FALSE |
| 14 | GTEx | Heart Atrial Appendage | PPA2 | 0.15 | 0.05 | lasso | 7 | 0.06 | 7.4e-04 | -6.6 | -5.4 | 6.7e-08 | 0.66 | 0.18 | 0.53 | FALSE |
| 15 | GTEx | Lung | PPA2 | 0.09 | 0.02 | enet | 16 | 0.03 | 1.4e-03 | 1.8 | -5.1 | 2.7e-07 | 0.50 | 0.08 | 0.74 | FALSE |
| 16 | GTEx | Lung | NPNT | 0.07 | 0.02 | enet | 24 | 0.04 | 2.3e-04 | 6.9 | -5.3 | 1.4e-07 | 0.01 | 0.02 | 0.95 | FALSE |
| 17 | GTEx | Nerve Tibial | PPA2 | 0.13 | 0.07 | enet | 23 | 0.07 | 2.1e-05 | -6.3 | -6.6 | 3.2e-11 | 0.61 | 0.34 | 0.49 | FALSE |
| 18 | GTEx | Nerve Tibial | GSTCD | 0.09 | 0.03 | enet | 16 | 0.02 | 1.3e-02 | 5.6 | 6.1 | 1.3e-09 | -0.12 | 0.59 | 0.02 | FALSE |
| 19 | GTEx | Ovary | PPA2 | 0.18 | 0.10 | lasso | 3 | 0.14 | 2.2e-04 | -6.3 | -7.1 | 1.7e-12 | 0.71 | 0.03 | 0.82 | FALSE |
| 20 | GTEx | Pituitary | GSTCD | 0.28 | 0.14 | lasso | 5 | 0.09 | 2.8e-03 | 6.0 | 5.4 | 5.4e-08 | -0.11 | 0.35 | 0.04 | FALSE |
| 21 | GTEx | Skin Sun Exposed Lower leg | GSTCD | 0.08 | 0.02 | lasso | 6 | 0.01 | 3.8e-02 | 6.4 | 6.4 | 1.2e-10 | -0.14 | 0.80 | 0.01 | FALSE |
| 22 | GTEx | Skin Sun Exposed Lower leg | TET2 | 0.09 | 0.01 | enet | 18 | 0.02 | 3.6e-03 | -9.3 | -6.5 | 6.6e-11 | 0.65 | 0.02 | 0.91 | FALSE |
| 23 | GTEx | Thyroid | INTS12 | 0.07 | 0.05 | lasso | 7 | 0.03 | 1.2e-03 | 7.0 | -7.0 | 3.5e-12 | 0.08 | 0.86 | 0.00 | FALSE |
| 24 | ROSMAP | Brain Pre-frontal Cortex | PPA2 | 0.32 | 0.38 | lasso | 2 | 0.38 | 1.1e-51 | 5.3 | -5.7 | 1.3e-08 | 0.41 | 1.00 | 0.00 | FALSE |
| 25 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | INTS12 | 0.04 | 0.03 | blup | 51 | 0.04 | 3.9e-04 | 6.3 | -5.8 | 4.8e-09 | 0.13 | 0.01 | 0.96 | FALSE |
| 26 | The Cancer Genome Atlas | Breast Invasive Carcinoma | INTS12 | 0.04 | 0.03 | blup | 49 | 0.04 | 7.1e-08 | 6.0 | -7.0 | 3.2e-12 | 0.09 | 0.01 | 0.99 | FALSE |
| 27 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | INTS12 | 0.12 | 0.06 | blup | 50 | 0.08 | 1.2e-04 | 7.0 | -6.8 | 1.4e-11 | 0.10 | 0.01 | 0.98 | FALSE |
| 28 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | INTS12 | 0.03 | 0.02 | blup | 49 | 0.02 | 6.4e-03 | 7.1 | -6.6 | 3.9e-11 | 0.11 | 0.01 | 0.88 | FALSE |
| 29 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | INTS12 | 0.08 | 0.10 | lasso | 2 | 0.10 | 2.9e-11 | 6.9 | -6.9 | 3.9e-12 | 0.08 | 0.01 | 0.99 | FALSE |
| 30 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | INTS12 | 0.32 | 0.00 | blup | 49 | 0.06 | 1.8e-04 | 6.0 | -5.9 | 4.4e-09 | 0.08 | 0.01 | 0.80 | FALSE |
| 31 | The Cancer Genome Atlas | Brain Lower Grade Glioma | GSTCD | 0.07 | 0.05 | lasso | 4 | 0.04 | 6.6e-05 | 6.9 | 7.0 | 3.1e-12 | -0.09 | 0.03 | 0.97 | FALSE |
| 32 | The Cancer Genome Atlas | Lung Adenocarcinoma | INTS12 | 0.08 | 0.10 | enet | 11 | 0.10 | 9.9e-12 | 7.1 | -6.6 | 3.8e-11 | 0.10 | 0.01 | 0.99 | FALSE |
| 33 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | INTS12 | 0.22 | 0.15 | lasso | 6 | 0.16 | 2.3e-07 | 6.3 | -6.5 | 6.7e-11 | 0.05 | 0.02 | 0.96 | FALSE |
| 34 | The Cancer Genome Atlas | Stomach Adenocarcinoma | GSTCD | 0.04 | 0.06 | lasso | 1 | 0.05 | 9.1e-05 | 6.5 | 6.5 | 7.2e-11 | -0.09 | 0.02 | 0.92 | FALSE |
| 35 | The Cancer Genome Atlas | Thyroid Carcinoma | INTS12 | 0.11 | 0.09 | blup | 49 | 0.11 | 1.3e-10 | 7.0 | -6.1 | 8.7e-10 | 0.12 | 0.01 | 0.99 | FALSE |
| 36 | The Cancer Genome Atlas | Thyroid Carcinoma | PPA2 | 0.04 | 0.02 | blup | 84 | 0.04 | 6.1e-05 | -6.3 | -6.3 | 3.3e-10 | 0.73 | 0.14 | 0.66 | FALSE |