Best TWAS P=9.24e-23 · Best GWAS P=1.02e-23 conditioned to 0.00316
| # | 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 | ECE2 | 0.24 | 0.20 | bslmm | 542 | 0.19 | 1.6e-22 | 8.2 | 8.0 | 1.1e-15 | -0.37 | 1.00 | 0.00 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | SENP2 | 0.21 | 0.18 | enet | 33 | 0.19 | 4.2e-22 | -5.3 | 5.5 | 3.7e-08 | 0.02 | 1.00 | 0.00 | TRUE |
| 3 | GTEx | Artery Tibial | PSMD2 | 0.13 | 0.09 | lasso | 5 | 0.08 | 1.3e-06 | -6.0 | 6.3 | 4.1e-10 | -0.42 | 0.88 | 0.02 | FALSE |
| 4 | GTEx | Brain Putamen basal ganglia | ECE2 | 0.38 | 0.03 | enet | 22 | 0.11 | 1.4e-03 | 8.2 | 6.5 | 7.8e-11 | -0.28 | 0.08 | 0.16 | FALSE |
| 5 | GTEx | Esophagus Mucosa | ABCF3 | 0.11 | 0.10 | lasso | 3 | 0.08 | 3.6e-06 | -5.3 | 5.5 | 4.5e-08 | -0.31 | 0.37 | 0.54 | FALSE |
| 6 | GTEx | Pancreas | ECE2 | 0.26 | 0.04 | enet | 24 | 0.09 | 1.2e-04 | 8.2 | 5.5 | 4.9e-08 | -0.24 | 0.16 | 0.09 | FALSE |
| 7 | GTEx | Pituitary | ECE2 | 0.52 | 0.30 | lasso | 7 | 0.23 | 1.5e-06 | 8.2 | 7.0 | 3.1e-12 | -0.31 | 0.39 | 0.23 | FALSE |
| 8 | GTEx | Skin Not Sun Exposed Suprapubic | ABCF3 | 0.15 | 0.10 | lasso | 4 | 0.11 | 1.1e-06 | 5.7 | 5.2 | 2.6e-07 | -0.26 | 0.77 | 0.04 | FALSE |
| 9 | GTEx | Skin Sun Exposed Lower leg | ABCF3 | 0.13 | 0.08 | lasso | 4 | 0.11 | 1.6e-09 | 5.7 | 7.2 | 4.3e-13 | -0.36 | 0.98 | 0.01 | FALSE |
| 10 | GTEx | Skin Sun Exposed Lower leg | PSMD2 | 0.13 | 0.14 | lasso | 4 | 0.15 | 1.4e-12 | -6.0 | 6.1 | 9.6e-10 | -0.39 | 1.00 | 0.00 | FALSE |
| 11 | METSIM | Adipose | SENP2 | 0.06 | 0.04 | lasso | 5 | 0.03 | 6.2e-06 | -5.3 | -5.1 | 3.1e-07 | -0.04 | 0.99 | 0.00 | FALSE |
| 12 | YFS | Blood | PSMD2 | 0.26 | 0.22 | lasso | 5 | 0.24 | 2.4e-77 | -6.0 | 5.8 | 8.6e-09 | -0.39 | 1.00 | 0.00 | FALSE |
| 13 | The Cancer Genome Atlas | Breast Invasive Carcinoma | PSMD2 | 0.03 | 0.03 | blup | 50 | 0.03 | 4.8e-06 | -6.0 | 5.4 | 5.8e-08 | -0.48 | 0.66 | 0.27 | FALSE |
| 14 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | VWA5B2 | 0.15 | 0.00 | blup | 52 | 0.01 | 1.4e-01 | 3.9 | 5.2 | 2.0e-07 | -0.16 | 0.01 | 0.04 | FALSE |
| 15 | The Cancer Genome Atlas | Colon Adenocarcinoma | ABCF3 | 0.07 | 0.00 | blup | 51 | 0.01 | 4.4e-02 | 5.7 | 5.4 | 5.4e-08 | -0.26 | 0.01 | 0.88 | FALSE |
| 16 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | ETV5 | 0.03 | 0.01 | blup | 55 | 0.02 | 1.3e-03 | -7.2 | -7.0 | 3.2e-12 | -0.04 | 0.01 | 0.86 | TRUE |
| 17 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ECE2 | 0.04 | 0.02 | blup | 61 | 0.03 | 3.5e-04 | 8.2 | 7.5 | 4.8e-14 | -0.24 | 0.54 | 0.02 | FALSE |
| 18 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | ABCF3 | 0.08 | 0.03 | blup | 51 | 0.06 | 6.1e-04 | 2.6 | 5.5 | 3.6e-08 | -0.25 | 0.02 | 0.68 | TRUE |
| 19 | The Cancer Genome Atlas | Lung Adenocarcinoma | PSMD2 | 0.09 | 0.02 | blup | 50 | 0.05 | 1.2e-06 | -9.3 | 9.8 | 9.2e-23 | -0.73 | 0.03 | 0.84 | TRUE |
| 20 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | CAMK2N2 | 0.04 | 0.01 | enet | 8 | 0.03 | 3.9e-04 | 2.9 | 5.2 | 2.3e-07 | -0.32 | 0.14 | 0.06 | FALSE |
| 21 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | PSMD2 | 0.05 | 0.00 | enet | 10 | 0.01 | 3.6e-02 | 8.2 | 6.5 | 6.9e-11 | -0.49 | 0.01 | 0.10 | FALSE |
| 22 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | VWA5B2 | 0.10 | 0.04 | blup | 51 | 0.04 | 1.8e-02 | 5.7 | -8.5 | 1.8e-17 | 0.43 | 0.03 | 0.33 | FALSE |