Best TWAS P=1.83e-16 · Best GWAS P=6.42e-16 conditioned to 1
| # | 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 | PEF1 | 0.04 | 0.04 | lasso | 4 | 0.03 | 2.8e-04 | -5.5 | 5.5 | 4.0e-08 | -0.02 | 0.20 | 0.77 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | S100PBP | 0.05 | 0.04 | enet | 10 | 0.02 | 1.2e-03 | -6.9 | 5.9 | 4.7e-09 | -0.03 | 0.95 | 0.01 | FALSE |
| 3 | CommonMind | Brain Pre-frontal Cortex | TMEM54 | 0.05 | 0.00 | blup | 281 | 0.02 | 4.5e-03 | 1.7 | -8.2 | 1.8e-16 | 0.50 | 0.11 | 0.23 | TRUE |
| 4 | CommonMind | Brain Pre-frontal Cortex | ZNF362 | 0.05 | 0.06 | lasso | 1 | 0.06 | 2.2e-07 | -8.1 | -8.1 | 6.4e-16 | 1.00 | 0.01 | 0.99 | TRUE |
| 5 | GTEx | Artery Aorta | PEF1 | 0.15 | 0.05 | lasso | 5 | 0.04 | 2.2e-03 | -5.2 | 5.9 | 4.4e-09 | -0.06 | 0.10 | 0.80 | TRUE |
| 6 | GTEx | Cells EBV-transformed lymphocytes | KPNA6 | 0.19 | 0.14 | enet | 18 | 0.10 | 4.9e-04 | 4.7 | 5.6 | 2.2e-08 | -0.03 | 0.20 | 0.14 | FALSE |
| 7 | GTEx | Cells EBV-transformed lymphocytes | PHC2 | 0.58 | 0.34 | lasso | 7 | 0.28 | 7.3e-10 | -8.0 | 7.9 | 2.6e-15 | -0.97 | 0.01 | 0.99 | FALSE |
| 8 | GTEx | Colon Sigmoid | PEF1 | 0.16 | 0.09 | lasso | 3 | 0.09 | 4.3e-04 | -5.8 | 5.8 | 5.8e-09 | -0.04 | 0.08 | 0.66 | FALSE |
| 9 | GTEx | Muscle Skeletal | FNDC5 | 0.15 | 0.16 | enet | 5 | 0.16 | 1.9e-15 | -6.4 | -6.4 | 1.6e-10 | 0.07 | 1.00 | 0.00 | FALSE |
| 10 | GTEx | Thyroid | BAI2 | 0.31 | 0.23 | lasso | 6 | 0.22 | 1.4e-16 | 5.7 | 5.7 | 1.2e-08 | -0.01 | 0.09 | 0.91 | TRUE |
| 11 | GTEx | Thyroid | TMEM54 | 0.10 | 0.09 | lasso | 7 | 0.07 | 3.3e-06 | -5.4 | 5.4 | 7.3e-08 | -0.06 | 0.99 | 0.00 | FALSE |
| 12 | METSIM | Adipose | PEF1 | 0.03 | 0.02 | enet | 17 | 0.02 | 7.9e-04 | -5.5 | 5.4 | 7.9e-08 | -0.01 | 0.09 | 0.79 | FALSE |
| 13 | METSIM | Adipose | ZNF362 | 0.09 | 0.02 | enet | 32 | 0.03 | 1.5e-05 | -8.1 | -5.4 | 5.3e-08 | 0.69 | 0.01 | 0.98 | FALSE |
| 14 | ROSMAP | Brain Pre-frontal Cortex | PHC2 | 0.11 | 0.07 | lasso | 3 | 0.05 | 2.2e-07 | -8.0 | -7.6 | 3.6e-14 | 0.97 | 0.01 | 0.99 | FALSE |
| 15 | ROSMAP | Brain Pre-frontal Cortex | PEF1 | 0.04 | 0.04 | lasso | 3 | 0.02 | 4.2e-04 | -5.5 | 5.5 | 4.9e-08 | -0.02 | 0.22 | 0.73 | FALSE |
| 16 | The Cancer Genome Atlas | Breast Invasive Carcinoma | FNDC5 | 0.02 | 0.01 | blup | 33 | 0.01 | 9.2e-03 | -4.8 | -5.7 | 1.2e-08 | 0.07 | 0.02 | 0.46 | FALSE |
| 17 | The Cancer Genome Atlas | Breast Invasive Carcinoma | S100PBP | 0.03 | 0.02 | blup | 46 | 0.02 | 6.6e-06 | -6.8 | 6.4 | 2.1e-10 | -0.08 | 0.01 | 0.99 | FALSE |
| 18 | The Cancer Genome Atlas | Breast Invasive Carcinoma | ZNF362 | 0.03 | 0.01 | blup | 49 | 0.01 | 1.3e-03 | 3.3 | -5.9 | 3.1e-09 | 0.70 | 0.01 | 0.32 | FALSE |
| 19 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | S100PBP | 0.06 | 0.03 | blup | 48 | 0.06 | 6.8e-04 | -6.3 | 7.2 | 6.1e-13 | -0.08 | 0.01 | 0.82 | TRUE |
| 20 | The Cancer Genome Atlas | Glioblastoma Multiforme | S100PBP | 0.21 | 0.15 | lasso | 5 | 0.15 | 2.9e-05 | -6.4 | 6.4 | 2.0e-10 | -0.07 | 0.01 | 0.91 | FALSE |
| 21 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | S100PBP | 0.04 | 0.04 | lasso | 4 | 0.04 | 2.3e-05 | -6.8 | 6.8 | 1.2e-11 | -0.08 | 0.00 | 0.99 | FALSE |
| 22 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | FNDC5 | 0.03 | 0.04 | enet | 6 | 0.03 | 2.9e-04 | -6.3 | -5.9 | 3.9e-09 | 0.09 | 0.03 | 0.93 | FALSE |
| 23 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | HPCA | 0.05 | 0.09 | lasso | 7 | 0.08 | 3.6e-09 | -4.9 | 5.4 | 5.6e-08 | -0.07 | 0.16 | 0.84 | FALSE |
| 24 | The Cancer Genome Atlas | Brain Lower Grade Glioma | S100PBP | 0.06 | 0.06 | blup | 47 | 0.05 | 5.2e-06 | -6.8 | 6.8 | 1.0e-11 | -0.08 | 0.00 | 1.00 | FALSE |
| 25 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | PTP4A2 | 0.09 | -0.01 | blup | 26 | 0.00 | 4.1e-01 | 6.0 | 6.3 | 2.4e-10 | 0.00 | 0.00 | 0.81 | TRUE |