Best TWAS P=2.15e-11 · Best GWAS P=1.79e-10 conditioned to 0.452
# | 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 | ATP5SL | 0.34 | 0.48 | bslmm | 365 | 0.48 | 1.5e-65 | 6.2 | -6.0 | 2.3e-09 | -0.99 | 0.01 | 0.99 | FALSE |
2 | CommonMind | Brain Pre-frontal Cortex | BCKDHA | 0.12 | 0.08 | lasso | 6 | 0.10 | 8.9e-13 | 6.3 | -5.1 | 2.8e-07 | -0.95 | 0.02 | 0.98 | FALSE |
3 | GTEx | Artery Aorta | ATP5SL | 0.14 | 0.00 | lasso | 2 | 0.01 | 1.6e-01 | 5.8 | -5.8 | 6.0e-09 | -0.98 | 0.03 | 0.56 | FALSE |
4 | GTEx | Artery Aorta | B3GNT8 | 0.14 | 0.09 | lasso | 2 | 0.08 | 2.6e-05 | 6.2 | 5.5 | 3.2e-08 | 0.97 | 0.02 | 0.98 | FALSE |
5 | GTEx | Artery Aorta | CTC-435M10.6 | 0.16 | 0.14 | lasso | 3 | 0.13 | 1.3e-07 | 6.3 | 6.1 | 1.2e-09 | 0.99 | 0.02 | 0.98 | FALSE |
6 | GTEx | Brain Cerebellar Hemisphere | B3GNT8 | 0.38 | 0.30 | lasso | 5 | 0.23 | 1.1e-06 | 6.2 | 6.1 | 1.3e-09 | 0.97 | 0.01 | 0.98 | FALSE |
7 | GTEx | Brain Cerebellar Hemisphere | CTC-435M10.6 | 0.29 | 0.20 | lasso | 4 | 0.18 | 2.6e-05 | 6.2 | 6.3 | 2.1e-10 | 0.99 | 0.01 | 0.96 | FALSE |
8 | GTEx | Brain Cerebellum | B3GNT8 | 0.28 | 0.23 | lasso | 5 | 0.21 | 9.2e-07 | 6.2 | 6.1 | 9.3e-10 | 0.99 | 0.02 | 0.98 | FALSE |
9 | GTEx | Brain Cerebellum | CTC-435M10.6 | 0.18 | 0.01 | lasso | 4 | 0.03 | 5.1e-02 | 6.0 | 6.4 | 1.5e-10 | 0.88 | 0.02 | 0.84 | FALSE |
10 | GTEx | Brain Frontal Cortex BA9 | ATP5SL | 0.28 | 0.15 | lasso | 3 | 0.10 | 1.0e-03 | 5.9 | -5.9 | 3.7e-09 | -0.98 | 0.02 | 0.92 | FALSE |
11 | GTEx | Cells Transformed fibroblasts | B3GNT8 | 0.10 | 0.02 | lasso | 2 | 0.03 | 2.0e-03 | 5.8 | 5.9 | 3.7e-09 | 0.98 | 0.04 | 0.96 | FALSE |
12 | GTEx | Cells Transformed fibroblasts | CTC-435M10.6 | 0.18 | 0.16 | lasso | 2 | 0.15 | 4.2e-11 | 5.8 | 5.7 | 1.6e-08 | 0.96 | 0.02 | 0.98 | FALSE |
13 | GTEx | Colon Transverse | B3GNT8 | 0.21 | 0.17 | lasso | 4 | 0.18 | 6.7e-09 | 5.9 | 5.9 | 4.1e-09 | 0.97 | 0.04 | 0.96 | FALSE |
14 | GTEx | Colon Transverse | CTC-435M10.6 | 0.26 | 0.19 | enet | 19 | 0.22 | 5.8e-11 | 5.8 | 5.6 | 2.1e-08 | 0.91 | 0.03 | 0.97 | FALSE |
15 | GTEx | Esophagus Muscularis | CTC-435M10.6 | 0.12 | 0.12 | lasso | 2 | 0.10 | 1.4e-06 | 5.7 | 5.6 | 1.7e-08 | 0.95 | 0.03 | 0.97 | FALSE |
16 | GTEx | Lung | CTC-435M10.6 | 0.13 | 0.11 | lasso | 3 | 0.10 | 3.3e-08 | 5.8 | 5.8 | 4.8e-09 | 0.98 | 0.03 | 0.97 | FALSE |
17 | GTEx | Muscle Skeletal | EXOSC5 | 0.07 | 0.03 | enet | 6 | 0.03 | 4.1e-04 | 6.0 | 6.0 | 1.6e-09 | 0.98 | 0.01 | 0.99 | FALSE |
18 | GTEx | Nerve Tibial | B3GNT8 | 0.22 | 0.17 | enet | 12 | 0.20 | 6.6e-14 | 5.7 | 5.3 | 1.2e-07 | 0.96 | 0.02 | 0.98 | FALSE |
19 | GTEx | Nerve Tibial | CTC-435M10.6 | 0.18 | 0.15 | lasso | 6 | 0.14 | 5.5e-10 | 5.7 | 6.0 | 1.9e-09 | 0.98 | 0.02 | 0.98 | FALSE |
20 | GTEx | Stomach | B3GNT8 | 0.22 | 0.14 | lasso | 7 | 0.12 | 1.4e-06 | 5.9 | 5.8 | 5.6e-09 | 0.97 | 0.02 | 0.98 | FALSE |
21 | GTEx | Stomach | CTC-435M10.6 | 0.23 | 0.14 | lasso | 11 | 0.13 | 1.0e-06 | 5.7 | 5.2 | 2.6e-07 | 0.94 | 0.02 | 0.98 | FALSE |
22 | GTEx | Testis | EXOSC5 | 0.31 | 0.33 | enet | 10 | 0.33 | 1.8e-15 | 5.9 | 6.0 | 2.1e-09 | 0.99 | 0.02 | 0.98 | FALSE |
23 | GTEx | Thyroid | EXOSC5 | 0.14 | 0.08 | lasso | 5 | 0.05 | 8.4e-05 | 6.0 | 5.6 | 2.1e-08 | 0.97 | 0.05 | 0.94 | FALSE |
24 | YFS | Blood | ATP5SL | 0.06 | 0.02 | lasso | 12 | 0.03 | 1.1e-09 | 6.3 | 5.9 | 3.8e-09 | 0.85 | 0.01 | 0.99 | FALSE |
25 | YFS | Blood | BCKDHA | 0.08 | 0.05 | enet | 27 | 0.06 | 1.9e-18 | 6.3 | -5.2 | 2.4e-07 | -0.89 | 0.02 | 0.98 | FALSE |
26 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | B3GNT8 | 0.03 | 0.04 | blup | 20 | 0.04 | 3.2e-04 | 5.9 | 5.9 | 4.0e-09 | 0.99 | 0.01 | 0.96 | FALSE |
27 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | BCKDHA | 0.02 | 0.02 | lasso | 2 | 0.02 | 1.5e-02 | 6.1 | -6.0 | 1.8e-09 | -0.99 | 0.01 | 0.82 | FALSE |
28 | The Cancer Genome Atlas | Breast Invasive Carcinoma | B3GNT8 | 0.04 | 0.07 | blup | 20 | 0.07 | 1.2e-13 | 5.8 | 5.7 | 1.1e-08 | 0.98 | 0.02 | 0.98 | FALSE |
29 | The Cancer Genome Atlas | Colon Adenocarcinoma | B3GNT8 | 0.09 | 0.13 | blup | 20 | 0.11 | 5.2e-07 | 5.7 | 5.5 | 3.5e-08 | 0.98 | 0.02 | 0.98 | FALSE |
30 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | ATP5SL | 0.04 | 0.03 | enet | 12 | 0.03 | 1.6e-04 | 6.4 | -5.5 | 3.0e-08 | -0.92 | 0.00 | 0.99 | FALSE |
31 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ATP5SL | 0.02 | 0.03 | enet | 4 | 0.02 | 7.0e-04 | 6.0 | -6.0 | 2.2e-09 | -0.99 | 0.02 | 0.89 | FALSE |
32 | The Cancer Genome Atlas | Brain Lower Grade Glioma | EXOSC5 | 0.04 | 0.03 | lasso | 2 | 0.02 | 5.8e-03 | 6.2 | 5.9 | 2.9e-09 | 0.95 | 0.01 | 0.76 | FALSE |
33 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | ATP5SL | 0.23 | 0.05 | blup | 18 | 0.05 | 4.5e-03 | 6.4 | -6.7 | 2.2e-11 | -0.90 | 0.01 | 0.86 | TRUE |
34 | The Cancer Genome Atlas | Prostate Adenocarcinoma | ATP5SL | 0.03 | 0.03 | blup | 18 | 0.03 | 4.1e-04 | 6.4 | -6.1 | 9.7e-10 | -0.99 | 0.01 | 0.94 | FALSE |
35 | The Cancer Genome Atlas | Rectum Adenocarcinoma | B3GNT8 | 0.39 | 0.08 | blup | 20 | 0.07 | 1.1e-02 | 6.1 | 6.4 | 1.6e-10 | 0.85 | 0.00 | 0.30 | FALSE |
36 | The Cancer Genome Atlas | Thyroid Carcinoma | ATP5SL | 0.02 | 0.02 | blup | 18 | 0.02 | 3.5e-03 | 6.4 | -6.0 | 2.7e-09 | -0.99 | 0.01 | 0.82 | FALSE |
37 | The Cancer Genome Atlas | Thyroid Carcinoma | B3GNT8 | 0.10 | 0.12 | lasso | 3 | 0.11 | 1.3e-10 | 6.0 | 5.3 | 1.1e-07 | 0.97 | 0.02 | 0.98 | FALSE |