Best TWAS P=1.75e-15 · Best GWAS P=2.4e-20 conditioned to NaN
| # | 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 | GTEx | Brain Cerebellar Hemisphere | RNF212 | 0.35 | 0.17 | lasso | 6 | 0.18 | 1.7e-05 | 4.4 | 5.5 | 3.7e-08 | 0.16 | 0.48 | 0.04 | FALSE |
| 2 | GTEx | Brain Putamen basal ganglia | RNF212 | 0.23 | 0.07 | lasso | 19 | 0.05 | 2.6e-02 | 4.3 | 5.2 | 1.5e-07 | 0.14 | 0.14 | 0.05 | TRUE |
| 3 | GTEx | Cells EBV-transformed lymphocytes | PCGF3 | 0.44 | 0.24 | lasso | 7 | 0.24 | 2.4e-08 | -4.3 | 5.2 | 1.7e-07 | 0.52 | 0.67 | 0.19 | TRUE |
| 4 | GTEx | Liver | PCGF3 | 0.27 | 0.15 | enet | 10 | 0.17 | 1.5e-05 | -4.3 | 6.0 | 2.1e-09 | 0.51 | 0.13 | 0.22 | TRUE |
| 5 | GTEx | Skin Sun Exposed Lower leg | PCGF3 | 0.60 | 0.36 | enet | 30 | 0.42 | 4.4e-37 | -4.3 | 5.2 | 2.4e-07 | 0.36 | 1.00 | 0.00 | FALSE |
| 6 | GTEx | Skin Sun Exposed Lower leg | AC139887.4 | 0.48 | 0.26 | enet | 40 | 0.31 | 7.7e-26 | -4.3 | 5.4 | 5.8e-08 | 0.35 | 1.00 | 0.00 | FALSE |
| 7 | GTEx | Skin Sun Exposed Lower leg | RP11-440L14.1 | 0.54 | 0.32 | enet | 24 | 0.38 | 9.3e-33 | -4.3 | 5.3 | 1.4e-07 | 0.39 | 1.00 | 0.00 | FALSE |
| 8 | GTEx | Vagina | PCGF3 | 0.43 | 0.20 | lasso | 7 | 0.23 | 4.5e-06 | -4.3 | 5.3 | 9.9e-08 | 0.42 | 0.16 | 0.22 | FALSE |
| 9 | GTEx | Vagina | RP11-440L14.1 | 0.36 | 0.17 | lasso | 7 | 0.16 | 1.5e-04 | 3.7 | 5.2 | 2.4e-07 | 0.53 | 0.11 | 0.22 | FALSE |
| 10 | GTEx | Whole Blood | PCGF3 | 0.26 | 0.12 | enet | 18 | 0.23 | 6.5e-21 | 9.2 | -6.4 | 1.2e-10 | -0.81 | 0.00 | 1.00 | FALSE |
| 11 | GTEx | Whole Blood | AC139887.4 | 0.14 | 0.06 | lasso | 6 | 0.11 | 4.3e-10 | 9.2 | -7.1 | 1.3e-12 | -0.85 | 0.00 | 1.00 | FALSE |
| 12 | GTEx | Whole Blood | RP11-440L14.1 | 0.17 | 0.05 | lasso | 6 | 0.14 | 2.6e-13 | -5.0 | -5.4 | 8.0e-08 | -0.69 | 0.02 | 0.98 | TRUE |
| 13 | ROSMAP | Brain Pre-frontal Cortex | RP11-440L14.1 | 0.04 | 0.00 | bslmm | 329 | 0.02 | 2.8e-03 | -4.2 | 6.1 | 1.1e-09 | 0.48 | 0.10 | 0.38 | FALSE |
| 14 | YFS | Blood | MYL5 | 0.17 | 0.01 | blup | 358 | 0.06 | 1.4e-17 | -1.5 | -6.9 | 5.8e-12 | -0.40 | 0.01 | 0.99 | TRUE |
| 15 | The Cancer Genome Atlas | Glioblastoma Multiforme | PCGF3 | 0.11 | 0.00 | blup | 69 | 0.05 | 1.6e-02 | 6.7 | 5.3 | 1.3e-07 | 0.64 | 0.02 | 0.27 | TRUE |
| 16 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CPLX1 | 0.10 | 0.04 | lasso | 3 | 0.04 | 1.1e-05 | 9.1 | -8.0 | 1.8e-15 | -0.75 | 0.00 | 1.00 | TRUE |
| 17 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | PCGF3 | 0.11 | 0.07 | blup | 69 | 0.06 | 2.7e-04 | -4.3 | 6.3 | 2.6e-10 | 0.54 | 0.20 | 0.50 | FALSE |
| 18 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | PCGF3 | 0.18 | 0.04 | blup | 70 | 0.12 | 2.6e-05 | -1.8 | 5.1 | 2.7e-07 | 0.39 | 0.34 | 0.19 | TRUE |
| 19 | The Cancer Genome Atlas | Thyroid Carcinoma | FGFRL1 | 0.34 | 0.05 | enet | 32 | 0.17 | 1.2e-16 | 3.5 | 5.5 | 3.7e-08 | 0.22 | 0.00 | 0.99 | FALSE |