Best TWAS P=1.14e-10 · Best GWAS P=1.53e-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 | LIME1 | 0.04 | 0.00 | bslmm | 439 | 0.01 | 3.3e-02 | -5.9 | 6.1 | 1.3e-09 | -0.04 | 0.07 | 0.75 | FALSE |
2 | GTEx | Adipose Subcutaneous | TCEA2 | 0.11 | 0.06 | lasso | 2 | 0.03 | 9.4e-04 | 6.4 | 6.3 | 4.1e-10 | 0.99 | 0.00 | 1.00 | TRUE |
3 | GTEx | Artery Aorta | TCEA2 | 0.09 | 0.04 | lasso | 3 | 0.03 | 1.3e-02 | -3.3 | 5.4 | 8.2e-08 | 0.65 | 0.04 | 0.91 | FALSE |
4 | GTEx | Brain Cerebellar Hemisphere | STMN3 | 0.39 | 0.08 | lasso | 5 | 0.22 | 2.1e-06 | -5.4 | -5.3 | 1.4e-07 | 0.03 | 0.21 | 0.48 | FALSE |
5 | GTEx | Brain Cerebellum | STMN3 | 0.33 | 0.12 | lasso | 10 | 0.20 | 1.8e-06 | -5.9 | -5.5 | 3.4e-08 | -0.03 | 0.10 | 0.87 | FALSE |
6 | GTEx | Brain Cortex | STMN3 | 0.25 | 0.09 | lasso | 7 | 0.11 | 6.8e-04 | -5.7 | -6.2 | 6.4e-10 | 0.03 | 0.08 | 0.74 | FALSE |
7 | GTEx | Breast Mammary Tissue | GMEB2 | 0.18 | 0.02 | lasso | 5 | 0.06 | 3.0e-04 | -5.9 | -6.4 | 1.1e-10 | -0.26 | 0.04 | 0.75 | TRUE |
8 | GTEx | Breast Mammary Tissue (Female) | GMEB2 | 0.36 | 0.06 | lasso | 4 | 0.05 | 1.2e-02 | -5.1 | -5.7 | 1.0e-08 | -0.05 | 0.07 | 0.60 | FALSE |
9 | GTEx | Thyroid | SLC2A4RG | 0.12 | 0.06 | lasso | 5 | 0.04 | 2.4e-04 | -5.9 | 5.8 | 7.9e-09 | -0.04 | 0.05 | 0.94 | FALSE |
10 | METSIM | Adipose | DNAJC5 | 0.03 | 0.00 | blup | 201 | 0.01 | 2.0e-02 | -4.0 | -5.5 | 4.2e-08 | 0.02 | 0.03 | 0.78 | FALSE |
11 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | TNFRSF6B | 0.03 | 0.01 | blup | 44 | 0.02 | 7.1e-04 | -5.9 | -5.6 | 2.8e-08 | 0.01 | 0.01 | 0.96 | FALSE |
12 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | SLC2A4RG | 0.03 | 0.01 | blup | 48 | 0.02 | 2.4e-03 | -5.9 | 5.7 | 1.3e-08 | -0.01 | 0.01 | 0.92 | FALSE |
13 | The Cancer Genome Atlas | Brain Lower Grade Glioma | LIME1 | 0.02 | 0.03 | blup | 47 | 0.02 | 6.2e-03 | -5.7 | -6.3 | 2.3e-10 | 0.01 | 0.02 | 0.81 | TRUE |
14 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ZGPAT | 0.05 | 0.04 | blup | 60 | 0.05 | 7.2e-07 | -5.9 | 5.8 | 6.3e-09 | -0.01 | 0.01 | 0.99 | FALSE |
15 | The Cancer Genome Atlas | Lung Adenocarcinoma | TNFRSF6B | 0.02 | 0.01 | enet | 7 | 0.01 | 6.9e-03 | -5.8 | -5.5 | 4.3e-08 | 0.05 | 0.01 | 0.89 | FALSE |
16 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | RTEL1 | 0.05 | 0.04 | blup | 56 | 0.03 | 4.2e-03 | -3.7 | -5.6 | 2.5e-08 | 0.08 | 0.03 | 0.47 | FALSE |
17 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | RGS19 | 0.11 | 0.00 | blup | 48 | 0.03 | 1.7e-02 | 6.1 | -5.8 | 5.3e-09 | -0.76 | 0.01 | 0.88 | FALSE |
18 | The Cancer Genome Atlas | Prostate Adenocarcinoma | SLC2A4RG | 0.05 | 0.01 | blup | 48 | 0.02 | 2.0e-03 | -4.5 | 5.3 | 1.5e-07 | -0.03 | 0.04 | 0.80 | FALSE |
19 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ZGPAT | 0.05 | 0.06 | lasso | 3 | 0.06 | 5.5e-07 | -5.7 | 5.7 | 1.3e-08 | -0.06 | 0.01 | 0.99 | FALSE |
20 | The Cancer Genome Atlas | Thyroid Carcinoma | LIME1 | 0.05 | 0.03 | blup | 47 | 0.04 | 3.9e-05 | -5.9 | -5.2 | 1.9e-07 | 0.06 | 0.01 | 0.99 | FALSE |
21 | The Cancer Genome Atlas | Thyroid Carcinoma | ZGPAT | 0.05 | 0.04 | blup | 60 | 0.03 | 2.3e-04 | -5.9 | 6.0 | 1.5e-09 | 0.00 | 0.01 | 0.99 | FALSE |