Best TWAS P=2.06e-11 · Best GWAS P=8.25e-13 conditioned to 0.000278
| # | 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 | SF3B1 | 0.06 | 0.07 | enet | 10 | 0.07 | 2.5e-09 | -5.1 | -5.2 | 2.2e-07 | 0.49 | 1.00 | 0.00 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | TYW5 | 0.08 | 0.14 | lasso | 8 | 0.13 | 2.2e-15 | -5.2 | 5.4 | 6.9e-08 | -0.05 | 0.03 | 0.97 | FALSE |
| 3 | GTEx | Adipose Subcutaneous | RFTN2 | 0.14 | 0.10 | enet | 11 | 0.13 | 5.3e-11 | -6.2 | -5.7 | 1.6e-08 | 0.86 | 0.19 | 0.81 | FALSE |
| 4 | GTEx | Brain Caudate basal ganglia | TYW5 | 0.23 | 0.11 | lasso | 3 | 0.11 | 5.4e-04 | -4.3 | 5.2 | 1.7e-07 | -0.03 | 0.05 | 0.45 | FALSE |
| 5 | GTEx | Brain Hippocampus | FTCDNL1 | 0.35 | 0.24 | enet | 24 | 0.26 | 9.0e-07 | -4.4 | -6.5 | 5.7e-11 | -0.10 | 0.22 | 0.43 | TRUE |
| 6 | GTEx | Brain Nucleus accumbens basal ganglia | C2orf47 | 0.25 | 0.01 | lasso | 3 | 0.00 | 2.8e-01 | 5.2 | -5.7 | 1.0e-08 | 0.04 | 0.04 | 0.53 | TRUE |
| 7 | GTEx | Breast Mammary Tissue | SF3B1 | 0.06 | 0.06 | lasso | 4 | 0.03 | 6.6e-03 | -5.2 | -6.0 | 2.2e-09 | 0.61 | 0.17 | 0.67 | FALSE |
| 8 | GTEx | Breast Mammary Tissue (Female) | SF3B1 | 0.05 | -0.01 | lasso | 3 | -0.01 | 8.1e-01 | -5.1 | -5.8 | 7.7e-09 | 0.65 | 0.05 | 0.10 | FALSE |
| 9 | GTEx | Lung | RFTN2 | 0.06 | 0.08 | lasso | 8 | 0.06 | 2.7e-05 | -6.7 | -6.7 | 3.0e-11 | 0.86 | 0.07 | 0.93 | FALSE |
| 10 | GTEx | Nerve Tibial | SF3B1 | 0.06 | 0.09 | lasso | 8 | 0.08 | 3.3e-06 | -5.1 | -5.2 | 2.5e-07 | 0.54 | 0.96 | 0.04 | FALSE |
| 11 | GTEx | Skin Sun Exposed Lower leg | MARS2 | 0.04 | 0.05 | enet | 8 | 0.03 | 1.2e-03 | -6.8 | 6.7 | 2.1e-11 | -0.86 | 0.07 | 0.92 | TRUE |
| 12 | GTEx | Spleen | RFTN2 | 0.11 | 0.03 | enet | 26 | 0.05 | 2.4e-02 | -6.7 | -6.6 | 4.1e-11 | 0.84 | 0.07 | 0.51 | FALSE |
| 13 | GTEx | Spleen | MARS2 | 0.12 | 0.04 | lasso | 5 | 0.00 | 3.4e-01 | -6.7 | 6.4 | 1.4e-10 | -0.82 | 0.06 | 0.42 | FALSE |
| 14 | GTEx | Testis | SF3B1 | 0.10 | 0.07 | enet | 17 | 0.08 | 2.6e-04 | -5.1 | -5.2 | 2.2e-07 | 0.55 | 0.45 | 0.50 | FALSE |
| 15 | GTEx | Thyroid | SF3B1 | 0.04 | 0.02 | enet | 14 | 0.02 | 2.0e-02 | -5.1 | -6.3 | 3.8e-10 | 0.72 | 0.09 | 0.84 | FALSE |
| 16 | GTEx | Thyroid | PLCL1 | 0.04 | 0.01 | lasso | 4 | 0.00 | 2.6e-01 | -6.6 | -6.6 | 4.7e-11 | 0.76 | 0.16 | 0.59 | FALSE |
| 17 | GTEx | Thyroid | RFTN2 | 0.04 | 0.01 | enet | 11 | 0.01 | 9.5e-02 | -6.7 | -5.5 | 5.0e-08 | 0.80 | 0.07 | 0.79 | FALSE |
| 18 | GTEx | Whole Blood | PLCL1 | 0.08 | 0.08 | enet | 15 | 0.05 | 4.1e-05 | -6.1 | -6.4 | 1.7e-10 | 0.92 | 0.16 | 0.84 | FALSE |
| 19 | ROSMAP | Brain Pre-frontal Cortex | TYW5 | 0.11 | 0.12 | lasso | 5 | 0.11 | 5.5e-14 | -5.2 | 5.5 | 5.1e-08 | -0.04 | 0.03 | 0.97 | FALSE |
| 20 | YFS | Blood | PLCL1 | 0.10 | 0.10 | lasso | 9 | 0.14 | 1.5e-43 | -6.3 | -5.5 | 3.6e-08 | 0.83 | 0.54 | 0.46 | FALSE |
| 21 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | PLCL1 | 0.04 | 0.00 | blup | 130 | 0.02 | 4.0e-03 | 1.8 | -5.2 | 2.7e-07 | 0.65 | 0.05 | 0.40 | FALSE |
| 22 | The Cancer Genome Atlas | Lung Adenocarcinoma | C2orf60 | 0.03 | 0.03 | blup | 44 | 0.03 | 1.8e-04 | -5.2 | 5.5 | 4.7e-08 | -0.05 | 0.01 | 0.97 | FALSE |
| 23 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | C2orf60 | 0.04 | 0.05 | lasso | 5 | 0.03 | 2.1e-03 | -5.3 | 5.3 | 1.3e-07 | -0.04 | 0.01 | 0.91 | FALSE |
| 24 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | RFTN2 | 0.05 | 0.01 | blup | 61 | 0.02 | 3.1e-02 | -5.2 | -6.4 | 1.7e-10 | 0.70 | 0.04 | 0.40 | FALSE |