Best TWAS P=1.38e-10 · Best GWAS P=2.29e-09 conditioned to 0.394
# | 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 | GNL3 | 0.15 | 0.07 | bslmm | 390 | 0.08 | 1.3e-09 | 4.2 | -5.1 | 2.7e-07 | -0.36 | 0.97 | 0.02 | TRUE |
2 | CommonMind | Brain Pre-frontal Cortex | RFT1 | 0.21 | 0.22 | lasso | 3 | 0.22 | 5.7e-26 | 6.0 | 5.9 | 3.8e-09 | 0.99 | 0.01 | 0.99 | FALSE |
3 | GTEx | Adipose Subcutaneous | RFT1 | 0.21 | 0.19 | enet | 24 | 0.17 | 3.7e-14 | 5.9 | 5.7 | 1.1e-08 | 0.98 | 0.01 | 0.99 | FALSE |
4 | GTEx | Adipose Subcutaneous | SFMBT1 | 0.10 | 0.02 | lasso | 7 | 0.03 | 2.9e-03 | 5.0 | -5.2 | 2.3e-07 | -0.84 | 0.09 | 0.84 | FALSE |
5 | GTEx | Adipose Visceral Omentum | RFT1 | 0.16 | 0.15 | enet | 12 | 0.10 | 1.0e-05 | 6.0 | 6.0 | 2.4e-09 | 0.97 | 0.01 | 0.99 | FALSE |
6 | GTEx | Adrenal Gland | RFT1 | 0.15 | 0.02 | enet | 11 | 0.03 | 4.0e-02 | 6.0 | 6.2 | 6.0e-10 | 0.94 | 0.02 | 0.93 | FALSE |
7 | GTEx | Artery Aorta | RFT1 | 0.40 | 0.32 | lasso | 13 | 0.31 | 8.1e-18 | 5.9 | -5.8 | 6.7e-09 | -1.00 | 0.01 | 0.99 | FALSE |
8 | GTEx | Artery Aorta | SFMBT1 | 0.16 | 0.10 | enet | 19 | 0.08 | 2.3e-05 | 5.9 | -5.4 | 5.8e-08 | -0.92 | 0.01 | 0.99 | FALSE |
9 | GTEx | Artery Coronary | RFT1 | 0.38 | 0.33 | lasso | 5 | 0.34 | 2.6e-12 | 5.9 | 5.9 | 4.4e-09 | 1.00 | 0.01 | 0.99 | FALSE |
10 | GTEx | Artery Tibial | RFT1 | 0.40 | 0.38 | enet | 22 | 0.40 | 8.2e-33 | 5.9 | 6.1 | 8.7e-10 | 0.99 | 0.01 | 0.99 | FALSE |
11 | GTEx | Brain Caudate basal ganglia | RFT1 | 0.30 | 0.23 | enet | 14 | 0.22 | 5.4e-07 | 6.0 | 5.7 | 1.0e-08 | 0.91 | 0.01 | 0.99 | FALSE |
12 | GTEx | Brain Cerebellar Hemisphere | RFT1 | 0.36 | 0.34 | enet | 19 | 0.33 | 2.4e-09 | 5.9 | 5.7 | 1.3e-08 | 0.97 | 0.01 | 0.99 | FALSE |
13 | GTEx | Brain Cerebellum | RFT1 | 0.72 | 0.60 | enet | 20 | 0.64 | 2.3e-24 | 6.0 | 6.0 | 1.8e-09 | 0.97 | 0.01 | 0.99 | FALSE |
14 | GTEx | Brain Cortex | RFT1 | 0.31 | 0.17 | enet | 14 | 0.30 | 5.9e-09 | 6.0 | 5.8 | 7.0e-09 | 0.90 | 0.01 | 0.99 | FALSE |
15 | GTEx | Brain Frontal Cortex BA9 | RFT1 | 0.23 | 0.10 | enet | 17 | 0.10 | 1.4e-03 | 5.9 | 5.8 | 5.2e-09 | 0.94 | 0.01 | 0.96 | FALSE |
16 | GTEx | Brain Nucleus accumbens basal ganglia | RFT1 | 0.26 | 0.16 | lasso | 4 | 0.10 | 1.1e-03 | 6.0 | 5.8 | 6.6e-09 | 0.98 | 0.01 | 0.95 | FALSE |
17 | GTEx | Breast Mammary Tissue | RFT1 | 0.24 | 0.14 | lasso | 8 | 0.15 | 3.1e-08 | 5.7 | 5.5 | 4.1e-08 | 0.88 | 0.01 | 0.99 | FALSE |
18 | GTEx | Breast Mammary Tissue (Male) | RFT1 | 0.23 | 0.12 | enet | 8 | 0.13 | 5.5e-04 | 6.0 | 6.0 | 1.6e-09 | 0.99 | 0.01 | 0.88 | FALSE |
19 | GTEx | Cells Transformed fibroblasts | RFT1 | 0.22 | 0.21 | enet | 16 | 0.22 | 2.8e-16 | 5.9 | 6.3 | 3.0e-10 | 0.97 | 0.01 | 0.99 | FALSE |
20 | GTEx | Colon Sigmoid | RFT1 | 0.55 | 0.45 | enet | 15 | 0.43 | 1.0e-16 | 6.0 | 6.0 | 1.5e-09 | 0.99 | 0.01 | 0.99 | FALSE |
21 | GTEx | Colon Transverse | RFT1 | 0.30 | 0.27 | enet | 16 | 0.24 | 8.0e-12 | 5.9 | 5.7 | 1.3e-08 | 0.97 | 0.01 | 0.99 | FALSE |
22 | GTEx | Esophagus Gastroesophageal Junction | RFT1 | 0.43 | 0.37 | enet | 18 | 0.34 | 7.0e-13 | 6.0 | 5.7 | 1.5e-08 | 0.97 | 0.01 | 0.99 | FALSE |
23 | GTEx | Esophagus Mucosa | RFT1 | 0.24 | 0.24 | enet | 10 | 0.22 | 6.2e-15 | 6.0 | 5.7 | 1.0e-08 | 0.98 | 0.01 | 0.99 | FALSE |
24 | GTEx | Esophagus Muscularis | RFT1 | 0.46 | 0.45 | enet | 28 | 0.44 | 6.5e-29 | 5.9 | 5.7 | 1.6e-08 | 0.97 | 0.01 | 0.99 | FALSE |
25 | GTEx | Heart Atrial Appendage | RFT1 | 0.14 | 0.12 | enet | 16 | 0.10 | 4.4e-05 | 5.3 | 6.0 | 2.6e-09 | 0.91 | 0.02 | 0.96 | FALSE |
26 | GTEx | Lung | RFT1 | 0.24 | 0.23 | enet | 12 | 0.23 | 2.7e-17 | 6.0 | 5.6 | 2.6e-08 | 0.98 | 0.01 | 0.99 | FALSE |
27 | GTEx | Muscle Skeletal | NEK4 | 0.07 | 0.03 | lasso | 5 | 0.03 | 9.6e-04 | 5.5 | 5.4 | 7.1e-08 | 0.75 | 0.22 | 0.63 | FALSE |
28 | GTEx | Muscle Skeletal | RFT1 | 0.17 | 0.16 | enet | 17 | 0.15 | 3.0e-14 | 6.0 | 5.8 | 8.8e-09 | 0.96 | 0.01 | 0.99 | FALSE |
29 | GTEx | Nerve Tibial | RFT1 | 0.35 | 0.31 | enet | 17 | 0.27 | 1.9e-19 | 5.9 | 5.9 | 3.1e-09 | 0.99 | 0.01 | 0.99 | FALSE |
30 | GTEx | Nerve Tibial | SFMBT1 | 0.21 | 0.10 | enet | 11 | 0.07 | 1.4e-05 | 5.9 | -5.9 | 3.3e-09 | -1.00 | 0.01 | 0.99 | FALSE |
31 | GTEx | Ovary | SFMBT1 | 0.24 | 0.10 | enet | 12 | 0.15 | 2.0e-04 | 5.4 | -5.8 | 6.5e-09 | -0.92 | 0.02 | 0.93 | FALSE |
32 | GTEx | Prostate | RFT1 | 0.39 | 0.18 | enet | 17 | 0.24 | 1.1e-06 | 5.9 | 5.5 | 3.1e-08 | 0.87 | 0.01 | 0.98 | FALSE |
33 | GTEx | Skin Not Sun Exposed Suprapubic | RFT1 | 0.33 | 0.29 | enet | 27 | 0.23 | 1.2e-12 | 6.0 | 5.9 | 4.0e-09 | 0.96 | 0.01 | 0.99 | FALSE |
34 | GTEx | Skin Sun Exposed Lower leg | RFT1 | 0.18 | 0.16 | enet | 7 | 0.13 | 1.1e-10 | 6.0 | 5.9 | 2.7e-09 | 1.00 | 0.01 | 0.99 | FALSE |
35 | GTEx | Small Intestine Terminal Ileum | RFT1 | 0.20 | 0.20 | enet | 19 | 0.11 | 2.2e-03 | 5.9 | 6.1 | 8.4e-10 | 0.98 | 0.01 | 0.94 | FALSE |
36 | GTEx | Spleen | RFT1 | 0.23 | 0.22 | enet | 7 | 0.13 | 3.6e-04 | 6.0 | 5.9 | 2.7e-09 | 1.00 | 0.01 | 0.97 | FALSE |
37 | GTEx | Testis | RFT1 | 0.20 | 0.12 | enet | 8 | 0.10 | 2.9e-05 | 5.9 | 6.0 | 1.7e-09 | 0.98 | 0.01 | 0.99 | FALSE |
38 | GTEx | Thyroid | RFT1 | 0.36 | 0.33 | enet | 17 | 0.35 | 2.4e-27 | 6.0 | 6.3 | 3.2e-10 | 0.98 | 0.01 | 0.99 | FALSE |
39 | GTEx | Thyroid | SFMBT1 | 0.13 | 0.09 | enet | 13 | 0.10 | 6.3e-08 | -3.6 | -5.2 | 1.9e-07 | -0.64 | 0.86 | 0.13 | FALSE |
40 | GTEx | Uterus | RFT1 | 0.52 | 0.30 | enet | 21 | 0.34 | 9.0e-08 | 5.4 | 6.4 | 1.4e-10 | 0.90 | 0.01 | 0.98 | TRUE |
41 | METSIM | Adipose | RFT1 | 0.13 | 0.19 | lasso | 7 | 0.18 | 7.8e-27 | 5.9 | 5.9 | 4.0e-09 | 1.00 | 0.01 | 0.99 | FALSE |
42 | METSIM | Adipose | SFMBT1 | 0.04 | 0.04 | lasso | 1 | 0.03 | 3.5e-05 | 5.2 | -5.2 | 2.5e-07 | -0.85 | 0.05 | 0.95 | FALSE |
43 | ROSMAP | Brain Pre-frontal Cortex | RFT1 | 0.04 | 0.00 | bslmm | 304 | 0.02 | 3.2e-03 | 5.9 | 5.2 | 1.5e-07 | 0.86 | 0.01 | 0.96 | FALSE |
44 | ROSMAP | Brain Pre-frontal Cortex | SERBP1P3 | 0.47 | 0.57 | lasso | 7 | 0.60 | 4.3e-98 | 5.9 | -5.9 | 3.5e-09 | -0.98 | 0.01 | 0.99 | FALSE |
45 | The Cancer Genome Atlas | Glioblastoma Multiforme | RFT1 | 0.20 | 0.14 | enet | 11 | 0.09 | 8.8e-04 | 5.9 | 5.9 | 3.7e-09 | 0.93 | 0.01 | 0.96 | FALSE |
46 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | RFT1 | 0.14 | 0.10 | lasso | 4 | 0.12 | 8.4e-14 | 6.0 | 5.4 | 6.3e-08 | 0.93 | 0.01 | 0.99 | FALSE |
47 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | RFT1 | 0.15 | 0.21 | lasso | 8 | 0.22 | 1.4e-24 | 6.0 | 5.9 | 3.4e-09 | 0.98 | 0.01 | 0.99 | FALSE |
48 | The Cancer Genome Atlas | Brain Lower Grade Glioma | RFT1 | 0.22 | 0.28 | enet | 13 | 0.31 | 2.5e-36 | 5.9 | 5.6 | 1.8e-08 | 0.94 | 0.01 | 0.99 | FALSE |
49 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | RFT1 | 0.41 | 0.17 | enet | 12 | 0.16 | 2.4e-07 | 5.9 | 5.4 | 7.4e-08 | 0.93 | 0.01 | 0.99 | FALSE |
50 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | RFT1 | 0.23 | 0.09 | blup | 45 | 0.08 | 3.8e-04 | 5.7 | 6.0 | 1.9e-09 | 0.92 | 0.01 | 0.96 | FALSE |
51 | The Cancer Genome Atlas | Thyroid Carcinoma | RFT1 | 0.25 | 0.30 | lasso | 4 | 0.29 | 3.8e-28 | 5.9 | 5.9 | 3.8e-09 | 0.99 | 0.01 | 0.99 | FALSE |