Best TWAS P=4.81e-11 · Best GWAS P=8.41e-08 conditioned to 0.331
# | 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 | POM121C | 0.08 | 0.05 | lasso | 2 | 0.04 | 1.1e-05 | -5.2 | -5.2 | 2.6e-07 | 0.95 | 0.00 | 0.99 | FALSE |
2 | GTEx | Adipose Subcutaneous | PMS2P3 | 0.15 | 0.12 | lasso | 3 | 0.10 | 9.8e-09 | -5.4 | -5.4 | 8.5e-08 | 0.99 | 0.00 | 1.00 | FALSE |
3 | GTEx | Adipose Subcutaneous | STAG3L1 | 0.30 | 0.24 | enet | 24 | 0.27 | 2.4e-22 | -5.2 | -5.3 | 1.2e-07 | 0.90 | 0.00 | 1.00 | FALSE |
4 | GTEx | Adipose Visceral Omentum | STAG3L1 | 0.20 | 0.19 | lasso | 3 | 0.17 | 2.3e-09 | -5.2 | -5.3 | 1.3e-07 | 0.96 | 0.00 | 1.00 | FALSE |
5 | GTEx | Artery Coronary | STAG3L1 | 0.28 | 0.13 | lasso | 4 | 0.17 | 1.8e-06 | -5.0 | -5.3 | 1.4e-07 | 0.86 | 0.01 | 0.99 | FALSE |
6 | GTEx | Artery Tibial | POM121C | 0.12 | 0.10 | lasso | 1 | 0.10 | 6.8e-08 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 1.00 | FALSE |
7 | GTEx | Artery Tibial | STAG3L1 | 0.25 | 0.19 | lasso | 4 | 0.19 | 8.3e-15 | -5.2 | -5.2 | 1.6e-07 | 0.96 | 0.00 | 1.00 | FALSE |
8 | GTEx | Brain Cerebellar Hemisphere | POM121C | 0.33 | 0.32 | lasso | 3 | 0.30 | 1.4e-08 | -5.2 | -5.2 | 2.4e-07 | 0.96 | 0.00 | 0.99 | FALSE |
9 | GTEx | Breast Mammary Tissue | STAG3L1 | 0.16 | 0.15 | lasso | 2 | 0.14 | 8.7e-08 | -5.2 | -5.2 | 2.0e-07 | 0.94 | 0.00 | 1.00 | FALSE |
10 | GTEx | Breast Mammary Tissue (Female) | STAG3L1 | 0.04 | 0.12 | lasso | 1 | 0.04 | 2.9e-02 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 0.88 | FALSE |
11 | GTEx | Cells EBV-transformed lymphocytes | STAG3L1 | 0.43 | 0.21 | enet | 21 | 0.23 | 3.8e-08 | -5.2 | -5.5 | 4.7e-08 | 0.84 | 0.00 | 1.00 | TRUE |
12 | GTEx | Cells Transformed fibroblasts | PMS2P3 | 0.23 | 0.15 | lasso | 6 | 0.15 | 1.4e-11 | -5.4 | -5.4 | 8.5e-08 | 0.97 | 0.00 | 1.00 | FALSE |
13 | GTEx | Cells Transformed fibroblasts | STAG3L1 | 0.22 | 0.17 | lasso | 4 | 0.18 | 2.6e-13 | -5.2 | -5.3 | 1.2e-07 | 0.94 | 0.00 | 1.00 | FALSE |
14 | GTEx | Colon Sigmoid | STAG3L1 | 0.30 | 0.18 | lasso | 4 | 0.18 | 8.5e-07 | -5.2 | -5.1 | 3.0e-07 | 0.94 | 0.00 | 0.99 | FALSE |
15 | GTEx | Colon Transverse | STAG3L1 | 0.22 | 0.18 | lasso | 1 | 0.16 | 4.0e-08 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 1.00 | FALSE |
16 | GTEx | Esophagus Mucosa | PMS2P3 | 0.14 | 0.15 | lasso | 2 | 0.14 | 9.7e-10 | -5.2 | -5.3 | 9.5e-08 | 0.96 | 0.00 | 1.00 | FALSE |
17 | GTEx | Esophagus Mucosa | POM121C | 0.13 | 0.10 | lasso | 1 | 0.07 | 1.0e-05 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 0.99 | FALSE |
18 | GTEx | Esophagus Mucosa | STAG3L1 | 0.19 | 0.19 | lasso | 1 | 0.18 | 2.4e-12 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 1.00 | FALSE |
19 | GTEx | Esophagus Muscularis | TRIM73 | 0.12 | 0.07 | lasso | 2 | 0.05 | 3.5e-04 | -5.4 | -5.3 | 9.5e-08 | 1.00 | 0.00 | 0.99 | FALSE |
20 | GTEx | Heart Left Ventricle | POM121C | 0.13 | 0.12 | lasso | 1 | 0.09 | 2.2e-05 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 0.99 | FALSE |
21 | GTEx | Muscle Skeletal | PMS2P3 | 0.07 | 0.07 | lasso | 2 | 0.06 | 3.8e-06 | -5.2 | -5.3 | 1.0e-07 | 0.96 | 0.00 | 1.00 | FALSE |
22 | GTEx | Nerve Tibial | PMS2P3 | 0.29 | 0.13 | enet | 4 | 0.18 | 1.1e-12 | -5.0 | -5.3 | 1.1e-07 | 0.90 | 0.00 | 1.00 | FALSE |
23 | GTEx | Ovary | CLIP2 | 0.24 | -0.01 | enet | 35 | 0.00 | 3.7e-01 | 4.1 | 5.6 | 1.7e-08 | 0.00 | 0.00 | 0.05 | FALSE |
24 | GTEx | Skin Not Sun Exposed Suprapubic | STAG3L1 | 0.13 | 0.19 | lasso | 1 | 0.18 | 2.6e-10 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 1.00 | FALSE |
25 | GTEx | Skin Sun Exposed Lower leg | PMS2P3 | 0.38 | 0.30 | lasso | 3 | 0.29 | 1.9e-24 | -5.2 | -5.3 | 1.1e-07 | 0.96 | 0.00 | 1.00 | FALSE |
26 | GTEx | Stomach | PMS2P3 | 0.16 | 0.07 | lasso | 5 | 0.09 | 3.7e-05 | -5.0 | -5.4 | 8.5e-08 | 0.94 | 0.00 | 0.99 | FALSE |
27 | GTEx | Testis | TRIM73 | 0.20 | 0.21 | lasso | 2 | 0.19 | 6.2e-09 | -5.2 | -5.2 | 2.4e-07 | 0.96 | 0.00 | 1.00 | FALSE |
28 | GTEx | Whole Blood | STAG3L1 | 0.08 | 0.06 | lasso | 3 | 0.07 | 2.8e-07 | -5.2 | -5.4 | 8.7e-08 | 0.96 | 0.00 | 1.00 | FALSE |
29 | METSIM | Adipose | NCF1 | 0.05 | 0.03 | blup | 130 | 0.04 | 3.9e-07 | 4.0 | 6.6 | 4.8e-11 | -0.19 | 0.03 | 0.78 | TRUE |
30 | METSIM | Adipose | POM121C | 0.11 | 0.08 | lasso | 1 | 0.08 | 1.6e-11 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 1.00 | FALSE |
31 | ROSMAP | Brain Pre-frontal Cortex | PMS2P3 | 0.05 | 0.04 | lasso | 1 | 0.03 | 4.6e-05 | -5.2 | -5.2 | 1.5e-07 | 0.96 | 0.00 | 1.00 | FALSE |
32 | ROSMAP | Brain Pre-frontal Cortex | POM121C | 0.36 | 0.26 | lasso | 7 | 0.27 | 2.8e-34 | -5.2 | -5.4 | 8.3e-08 | 0.95 | 0.00 | 1.00 | FALSE |
33 | ROSMAP | Brain Pre-frontal Cortex | PMS2P2 | 0.17 | 0.08 | enet | 8 | 0.08 | 6.0e-10 | -5.2 | -5.2 | 2.5e-07 | 0.95 | 0.00 | 1.00 | FALSE |
34 | ROSMAP | Brain Pre-frontal Cortex | STAG3L1 | 0.46 | 0.32 | lasso | 4 | 0.32 | 2.2e-42 | -5.2 | -5.3 | 1.4e-07 | 0.96 | 0.00 | 1.00 | FALSE |
35 | ROSMAP | Brain Pre-frontal Cortex | GTF2IP1 | 0.09 | 0.06 | lasso | 3 | 0.05 | 1.7e-07 | -5.2 | -5.2 | 1.8e-07 | 0.96 | 0.00 | 1.00 | FALSE |
36 | The Cancer Genome Atlas | Breast Invasive Carcinoma | POM121C | 0.04 | 0.04 | lasso | 2 | 0.03 | 1.2e-07 | -5.2 | -5.3 | 1.4e-07 | 0.96 | 0.00 | 1.00 | FALSE |
37 | The Cancer Genome Atlas | Uterine Corpus Endometrial Carcinoma | PMS2L3 | 0.23 | 0.14 | lasso | 2 | 0.14 | 1.3e-04 | -5.2 | -5.4 | 7.9e-08 | 0.94 | 0.00 | 0.85 | FALSE |