Best TWAS P=3.51e-10 · Best GWAS P=1.58e-09 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 | ARFGEF2 | 0.09 | 0.05 | lasso | 8 | 0.10 | 9.2e-13 | 6.0 | -5.7 | 1.6e-08 | -0.83 | 0.01 | 0.99 | FALSE |
2 | GTEx | Cells Transformed fibroblasts | STAU1 | 0.08 | 0.03 | lasso | 6 | 0.02 | 2.3e-02 | 5.5 | 5.8 | 6.4e-09 | 0.85 | 0.04 | 0.88 | FALSE |
3 | GTEx | Colon Sigmoid | CSE1L | 0.18 | 0.12 | lasso | 11 | 0.09 | 4.4e-04 | 5.8 | -5.9 | 4.5e-09 | -0.81 | 0.02 | 0.97 | FALSE |
4 | GTEx | Esophagus Mucosa | CSE1L | 0.09 | 0.06 | lasso | 4 | 0.06 | 6.9e-05 | 6.0 | -5.2 | 1.7e-07 | -0.81 | 0.02 | 0.98 | FALSE |
5 | GTEx | Lung | CSE1L | 0.10 | 0.09 | lasso | 5 | 0.08 | 6.6e-07 | 5.5 | -5.2 | 2.2e-07 | -0.74 | 0.04 | 0.96 | FALSE |
6 | GTEx | Skin Sun Exposed Lower leg | CSE1L | 0.08 | 0.03 | lasso | 2 | 0.03 | 9.5e-04 | 6.0 | -5.7 | 1.4e-08 | -0.82 | 0.02 | 0.96 | FALSE |
7 | GTEx | Testis | ARFGEF2 | 0.20 | 0.20 | lasso | 7 | 0.24 | 5.4e-11 | 5.5 | -6.1 | 1.2e-09 | -0.93 | 0.03 | 0.97 | FALSE |
8 | METSIM | Adipose | ARFGEF2 | 0.04 | 0.03 | lasso | 12 | 0.02 | 9.8e-05 | 5.7 | -5.4 | 7.3e-08 | -0.97 | 0.03 | 0.96 | FALSE |
9 | NTR | Blood | SNORD12B | 0.03 | 0.05 | lasso | 8 | 0.05 | 1.9e-14 | 5.0 | -5.2 | 2.5e-07 | -0.95 | 0.40 | 0.60 | FALSE |
10 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | CSE1L | 0.03 | 0.05 | lasso | 1 | 0.03 | 9.3e-05 | 5.5 | -5.5 | 4.6e-08 | -0.76 | 0.02 | 0.97 | FALSE |
11 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CSE1L | 0.05 | 0.07 | blup | 50 | 0.07 | 3.2e-08 | 5.8 | -5.5 | 4.9e-08 | -0.81 | 0.02 | 0.98 | FALSE |
12 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ARFGEF2 | 0.05 | 0.04 | lasso | 5 | 0.05 | 3.2e-06 | 6.0 | -6.3 | 3.5e-10 | -0.95 | 0.01 | 0.99 | TRUE |
13 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | CSE1L | 0.13 | 0.03 | blup | 50 | 0.07 | 1.4e-03 | 5.5 | -5.5 | 3.2e-08 | -0.60 | 0.02 | 0.58 | FALSE |