Best TWAS P=4.73e-12 · Best GWAS P=6.27e-15 conditioned to 0.143
# | 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 | CDC16 | 0.05 | 0.03 | bslmm | 208 | 0.04 | 2.4e-05 | -3.6 | -6.0 | 2.0e-09 | 0.45 | 0.87 | 0.05 | FALSE |
2 | CommonMind | Brain Pre-frontal Cortex | RASA3 | 0.05 | 0.01 | lasso | 5 | 0.04 | 1.1e-05 | -4.1 | 6.3 | 3.1e-10 | -0.74 | 0.02 | 0.97 | TRUE |
3 | GTEx | Breast Mammary Tissue | UPF3A | 0.33 | 0.06 | enet | 18 | 0.18 | 9.7e-10 | -3.7 | -5.6 | 1.8e-08 | 0.45 | 0.27 | 0.72 | FALSE |
4 | GTEx | Breast Mammary Tissue (Female) | UPF3A | 0.32 | 0.16 | lasso | 13 | 0.17 | 1.2e-05 | -3.7 | -5.6 | 2.8e-08 | 0.36 | 0.75 | 0.18 | TRUE |
5 | GTEx | Small Intestine Terminal Ileum | CDC16 | 0.16 | 0.04 | lasso | 9 | 0.03 | 6.1e-02 | -3.6 | -6.0 | 1.5e-09 | 0.45 | 0.09 | 0.10 | FALSE |
6 | GTEx | Testis | UPF3A | 0.24 | 0.12 | enet | 10 | 0.12 | 5.1e-06 | -7.7 | -6.9 | 4.7e-12 | 0.58 | 0.01 | 0.97 | TRUE |
7 | GTEx | Thyroid | RASA3 | 0.26 | 0.28 | enet | 25 | 0.30 | 6.5e-23 | 6.0 | 6.2 | 7.2e-10 | -0.55 | 0.98 | 0.02 | FALSE |
8 | METSIM | Adipose | LINC00565 | 0.12 | 0.02 | lasso | 11 | 0.04 | 6.1e-07 | -3.3 | -6.4 | 2.0e-10 | 0.48 | 0.26 | 0.68 | FALSE |
9 | YFS | Blood | UPF3A | 0.21 | 0.17 | enet | 38 | 0.25 | 2.4e-82 | -4.7 | -5.2 | 2.5e-07 | 0.34 | 1.00 | 0.00 | FALSE |
10 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | RASA3 | 0.03 | 0.00 | blup | 89 | 0.00 | 2.1e-01 | 6.4 | -6.1 | 1.2e-09 | 0.55 | 0.12 | 0.17 | FALSE |
11 | The Cancer Genome Atlas | Thyroid Carcinoma | RASA3 | 0.08 | 0.06 | lasso | 2 | 0.06 | 7.1e-07 | 6.4 | 5.8 | 6.2e-09 | -0.51 | 0.98 | 0.02 | FALSE |