Best TWAS P=6.27e-10 · Best GWAS P=7.27e-10 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 | ARFRP1 | 0.07 | 0.07 | lasso | 3 | 0.06 | 5.3e-08 | -6.2 | 6.2 | 6.3e-10 | -0.97 | 0.01 | 0.99 | TRUE |
2 | CommonMind | Brain Pre-frontal Cortex | STMN3 | 0.07 | 0.02 | lasso | 4 | 0.05 | 2.8e-06 | -5.5 | -5.4 | 7.8e-08 | 0.74 | 0.02 | 0.98 | FALSE |
3 | GTEx | Brain Cortex | STMN3 | 0.25 | 0.09 | lasso | 7 | 0.11 | 6.8e-04 | -5.4 | -5.7 | 1.5e-08 | 0.73 | 0.10 | 0.68 | FALSE |
4 | GTEx | Testis | RTEL1 | 0.19 | 0.06 | lasso | 5 | 0.14 | 8.0e-07 | -5.4 | -5.5 | 3.4e-08 | 0.63 | 0.11 | 0.77 | FALSE |
5 | YFS | Blood | LIME1 | 0.12 | 0.19 | enet | 15 | 0.19 | 5.3e-59 | -5.8 | -5.9 | 3.6e-09 | 0.96 | 0.02 | 0.98 | FALSE |
6 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | STMN3 | 0.02 | 0.02 | blup | 43 | 0.02 | 1.7e-03 | -5.4 | -5.5 | 3.9e-08 | 0.65 | 0.01 | 0.92 | FALSE |
7 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | TNFRSF6B | 0.03 | 0.01 | blup | 44 | 0.02 | 7.1e-04 | -5.2 | -5.2 | 2.0e-07 | 0.74 | 0.04 | 0.85 | FALSE |
8 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | SLC2A4RG | 0.03 | 0.01 | blup | 48 | 0.02 | 2.4e-03 | -5.2 | 5.8 | 8.3e-09 | -0.68 | 0.06 | 0.52 | FALSE |
9 | The Cancer Genome Atlas | Brain Lower Grade Glioma | LIME1 | 0.02 | 0.03 | blup | 47 | 0.02 | 6.2e-03 | -5.4 | -6.1 | 1.4e-09 | 0.82 | 0.03 | 0.58 | FALSE |
10 | The Cancer Genome Atlas | Lung Adenocarcinoma | TNFRSF6B | 0.02 | 0.01 | enet | 7 | 0.01 | 6.9e-03 | -5.1 | -6.0 | 2.2e-09 | 0.92 | 0.01 | 0.91 | FALSE |
11 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | STMN3 | 0.07 | 0.01 | blup | 41 | 0.05 | 4.2e-04 | -4.7 | -5.3 | 1.2e-07 | 0.58 | 0.04 | 0.68 | FALSE |
12 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ARFRP1 | 0.03 | 0.02 | lasso | 2 | 0.02 | 1.2e-03 | -6.2 | 6.1 | 8.7e-10 | -1.00 | 0.00 | 0.97 | FALSE |
13 | The Cancer Genome Atlas | Prostate Adenocarcinoma | LIME1 | 0.04 | 0.05 | blup | 47 | 0.05 | 9.0e-06 | -5.7 | -5.9 | 3.0e-09 | 0.95 | 0.01 | 0.99 | FALSE |
14 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ZGPAT | 0.05 | 0.06 | lasso | 3 | 0.06 | 5.5e-07 | -5.5 | 5.8 | 8.6e-09 | -0.84 | 0.06 | 0.93 | FALSE |
15 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | LIME1 | 0.10 | 0.02 | blup | 47 | 0.04 | 1.5e-02 | -5.7 | -5.3 | 1.0e-07 | 0.89 | 0.01 | 0.61 | FALSE |
16 | The Cancer Genome Atlas | Thyroid Carcinoma | ARFRP1 | 0.04 | 0.00 | blup | 51 | 0.00 | 1.3e-01 | -5.8 | 5.4 | 8.4e-08 | -0.81 | 0.01 | 0.56 | FALSE |