Best TWAS P=3.55e-24 · Best GWAS P=5.21e-25 conditioned to 0.741
| # | 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 | JMJD4 | 0.10 | 0.05 | bslmm | 381 | 0.04 | 6.8e-06 | -10.2 | -8.6 | 6.0e-18 | 0.84 | 0.01 | 0.99 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | LOC100130093 | 0.09 | 0.07 | enet | 30 | 0.10 | 5.6e-12 | 6.4 | 5.3 | 1.4e-07 | -0.19 | 1.00 | 0.00 | FALSE |
| 3 | CommonMind | Brain Pre-frontal Cortex | SNAP47 | 0.23 | 0.19 | lasso | 7 | 0.19 | 5.7e-23 | -7.6 | 7.5 | 8.2e-14 | -0.60 | 1.00 | 0.00 | FALSE |
| 4 | GTEx | Adipose Subcutaneous | SNAP47 | 0.06 | 0.06 | lasso | 3 | 0.05 | 4.5e-05 | -6.4 | 7.4 | 1.9e-13 | -0.50 | 0.35 | 0.25 | FALSE |
| 5 | GTEx | Brain Cortex | SNAP47 | 0.21 | 0.05 | lasso | 9 | 0.04 | 2.2e-02 | -7.4 | 10.1 | 3.5e-24 | -0.88 | 0.03 | 0.79 | TRUE |
| 6 | GTEx | Breast Mammary Tissue (Male) | CDC42BPA | 0.03 | 0.01 | enet | 1 | 0.00 | 3.0e-01 | 6.5 | -6.5 | 1.0e-10 | 0.18 | 0.05 | 0.06 | FALSE |
| 7 | GTEx | Cells EBV-transformed lymphocytes | JMJD4 | 0.13 | 0.06 | lasso | 4 | 0.03 | 2.9e-02 | -9.7 | -9.5 | 3.2e-21 | 0.50 | 0.05 | 0.45 | TRUE |
| 8 | GTEx | Muscle Skeletal | SNAP47 | 0.09 | 0.08 | lasso | 10 | 0.08 | 7.7e-08 | -7.6 | 9.0 | 2.4e-19 | -0.60 | 0.97 | 0.03 | FALSE |
| 9 | GTEx | Nerve Tibial | SNAP47 | 0.06 | 0.01 | enet | 16 | 0.03 | 6.5e-03 | -8.7 | 8.2 | 3.1e-16 | -0.64 | 0.04 | 0.87 | FALSE |
| 10 | GTEx | Skin Not Sun Exposed Suprapubic | CDC42BPA | 0.13 | 0.00 | enet | 30 | 0.03 | 8.6e-03 | -7.4 | -7.6 | 2.8e-14 | 0.45 | 0.12 | 0.50 | FALSE |
| 11 | GTEx | Testis | SNAP47 | 0.23 | 0.21 | enet | 15 | 0.21 | 7.5e-10 | -7.4 | 6.4 | 1.2e-10 | -0.46 | 0.99 | 0.00 | FALSE |
| 12 | GTEx | Thyroid | C1orf35 | 0.10 | 0.00 | lasso | 6 | 0.01 | 4.1e-02 | 5.4 | -7.4 | 1.0e-13 | 0.37 | 0.05 | 0.07 | FALSE |
| 13 | METSIM | Adipose | SNAP47 | 0.06 | 0.06 | lasso | 6 | 0.08 | 2.0e-11 | -8.7 | 8.8 | 1.1e-18 | -0.76 | 0.95 | 0.05 | FALSE |
| 14 | YFS | Blood | JMJD4 | 0.11 | 0.12 | lasso | 4 | 0.12 | 3.7e-36 | -8.7 | -8.8 | 1.5e-18 | 0.80 | 1.00 | 0.00 | FALSE |
| 15 | YFS | Blood | SNAP47 | 0.02 | 0.00 | bslmm | 403 | 0.01 | 6.4e-04 | -7.0 | 8.4 | 3.6e-17 | -0.45 | 0.11 | 0.23 | FALSE |
| 16 | The Cancer Genome Atlas | Breast Invasive Carcinoma | LOC100130093 | 0.02 | 0.01 | lasso | 4 | 0.01 | 4.0e-03 | 6.6 | 5.2 | 2.5e-07 | -0.28 | 0.10 | 0.02 | FALSE |
| 17 | The Cancer Genome Atlas | Colon Adenocarcinoma | SNAP47 | 0.05 | 0.05 | lasso | 3 | 0.06 | 2.4e-04 | -7.4 | 9.6 | 8.0e-22 | -0.81 | 0.01 | 0.90 | FALSE |
| 18 | The Cancer Genome Atlas | Brain Lower Grade Glioma | JMJD4 | 0.07 | 0.01 | enet | 9 | 0.03 | 3.6e-04 | -10.2 | -5.4 | 7.5e-08 | 0.66 | 0.00 | 0.80 | FALSE |
| 19 | The Cancer Genome Atlas | Brain Lower Grade Glioma | SNAP47 | 0.08 | 0.06 | blup | 54 | 0.08 | 1.2e-09 | -7.4 | 7.1 | 1.0e-12 | -0.56 | 0.97 | 0.03 | FALSE |
| 20 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | SNAP47 | 0.07 | 0.05 | blup | 54 | 0.05 | 2.9e-03 | -7.4 | 8.4 | 4.2e-17 | -0.65 | 0.02 | 0.37 | FALSE |
| 21 | The Cancer Genome Atlas | Lung Adenocarcinoma | SNAP47 | 0.03 | 0.02 | enet | 4 | 0.02 | 1.5e-03 | -7.4 | 7.4 | 1.2e-13 | -0.52 | 0.40 | 0.15 | FALSE |
| 22 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | LOC100130093 | 0.16 | 0.10 | blup | 42 | 0.05 | 4.7e-03 | 6.8 | 7.8 | 8.7e-15 | -0.57 | 0.22 | 0.25 | FALSE |
| 23 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ARF1 | 0.06 | 0.02 | blup | 31 | 0.03 | 1.0e-03 | -3.6 | -6.8 | 9.8e-12 | 0.14 | 0.18 | 0.71 | TRUE |
| 24 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ZNF678 | 0.03 | 0.01 | blup | 91 | 0.02 | 2.4e-03 | -6.8 | -9.1 | 8.0e-20 | 0.76 | 0.04 | 0.48 | FALSE |