Best TWAS P=7.25e-11 · Best GWAS P=1.87e-09 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 | CommonMind | Brain Pre-frontal Cortex | KCNJ11 | 0.04 | 0.03 | lasso | 3 | 0.03 | 2.6e-04 | 5.6 | 5.9 | 3.9e-09 | 0.93 | 0.02 | 0.97 | TRUE |
2 | GTEx | Cells Transformed fibroblasts | PIK3C2A | 0.10 | 0.08 | lasso | 4 | 0.08 | 1.3e-06 | 5.6 | -5.4 | 5.5e-08 | -0.60 | 0.14 | 0.84 | FALSE |
3 | GTEx | Esophagus Mucosa | KCNJ11 | 0.27 | 0.16 | lasso | 8 | 0.22 | 1.6e-14 | -4.5 | -5.8 | 5.3e-09 | -0.77 | 0.35 | 0.65 | FALSE |
4 | GTEx | Esophagus Mucosa | NCR3LG1 | 0.38 | 0.38 | enet | 39 | 0.42 | 3.7e-30 | -4.5 | -5.6 | 1.9e-08 | -0.72 | 0.89 | 0.11 | FALSE |
5 | GTEx | Esophagus Mucosa | RP1-239B22.5 | 0.28 | 0.28 | enet | 47 | 0.32 | 2.9e-22 | -4.6 | -5.8 | 7.2e-09 | -0.74 | 0.88 | 0.12 | FALSE |
6 | GTEx | Skin Not Sun Exposed Suprapubic | KCNJ11 | 0.18 | 0.07 | lasso | 6 | 0.12 | 7.0e-07 | 5.6 | -6.0 | 1.6e-09 | -0.85 | 0.01 | 0.99 | FALSE |
7 | GTEx | Skin Sun Exposed Lower leg | OR7E14P | 0.11 | 0.05 | lasso | 6 | 0.08 | 4.3e-07 | 4.8 | -5.6 | 2.0e-08 | -0.48 | 0.31 | 0.66 | FALSE |
8 | GTEx | Skin Sun Exposed Lower leg | KCNJ11 | 0.23 | 0.09 | lasso | 10 | 0.12 | 1.7e-10 | 5.9 | -6.1 | 8.1e-10 | -0.89 | 0.01 | 0.99 | FALSE |
9 | GTEx | Skin Sun Exposed Lower leg | NCR3LG1 | 0.12 | 0.12 | lasso | 5 | 0.13 | 5.0e-11 | -4.9 | -5.2 | 1.8e-07 | -0.53 | 0.77 | 0.22 | FALSE |
10 | GTEx | Skin Sun Exposed Lower leg | RP1-239B22.5 | 0.06 | 0.06 | lasso | 2 | 0.07 | 8.6e-07 | -4.9 | -6.0 | 2.1e-09 | -0.83 | 0.02 | 0.97 | FALSE |
11 | GTEx | Small Intestine Terminal Ileum | OR7E14P | 0.29 | 0.10 | enet | 19 | 0.22 | 1.3e-05 | -3.2 | -5.3 | 1.0e-07 | -0.49 | 0.18 | 0.28 | TRUE |
12 | GTEx | Thyroid | RP1-239B22.5 | 0.08 | 0.07 | enet | 16 | 0.08 | 1.8e-06 | 6.0 | -5.2 | 2.1e-07 | -0.84 | 0.00 | 0.99 | TRUE |
13 | ROSMAP | Brain Pre-frontal Cortex | KCNJ11 | 0.05 | 0.06 | enet | 6 | 0.05 | 3.0e-07 | 4.8 | 5.1 | 2.9e-07 | 0.73 | 0.19 | 0.79 | TRUE |
14 | The Cancer Genome Atlas | Breast Invasive Carcinoma | ABCC8 | 0.05 | 0.05 | lasso | 3 | 0.04 | 1.7e-09 | 5.6 | -5.6 | 1.7e-08 | -0.09 | 0.03 | 0.97 | TRUE |
15 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | DKFZp686O24166 | 0.05 | 0.03 | blup | 71 | 0.04 | 1.2e-05 | -4.9 | -6.5 | 7.2e-11 | -0.81 | 0.02 | 0.98 | TRUE |
16 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | DKFZp686O24166 | 0.03 | 0.01 | blup | 72 | 0.03 | 2.4e-04 | 5.9 | -5.9 | 2.9e-09 | -0.83 | 0.01 | 0.95 | FALSE |
17 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | DKFZp686O24166 | 0.08 | 0.07 | lasso | 4 | 0.05 | 1.2e-03 | -4.6 | -5.6 | 2.7e-08 | -0.72 | 0.04 | 0.92 | FALSE |
18 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ABCC8 | 0.10 | 0.06 | enet | 10 | 0.05 | 8.5e-06 | 5.6 | -5.1 | 2.7e-07 | -0.08 | 0.03 | 0.96 | TRUE |