Best TWAS P=7.38e-09 · Best GWAS P=1.82e-08 conditioned to 0.116
# | 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 | PSMG1 | 0.19 | 0.24 | enet | 30 | 0.26 | 2.0e-31 | -5.4 | -5.5 | 4.5e-08 | 0.84 | 0.02 | 0.98 | FALSE |
2 | GTEx | Adipose Subcutaneous | PSMG1 | 0.19 | 0.12 | enet | 26 | 0.13 | 4.1e-11 | 4.9 | -5.2 | 1.7e-07 | 0.72 | 0.24 | 0.76 | FALSE |
3 | GTEx | Adipose Subcutaneous | BRWD1-IT2 | 0.11 | 0.08 | lasso | 3 | 0.06 | 7.0e-06 | -5.4 | 5.3 | 1.1e-07 | -0.87 | 0.02 | 0.98 | FALSE |
4 | GTEx | Brain Cerebellum | PSMG1 | 0.28 | 0.13 | lasso | 8 | 0.09 | 1.2e-03 | -5.5 | -5.5 | 4.8e-08 | 0.85 | 0.03 | 0.91 | FALSE |
5 | GTEx | Brain Hypothalamus | PSMG1 | 0.46 | 0.20 | lasso | 5 | 0.16 | 1.5e-04 | -5.4 | -5.6 | 2.2e-08 | 0.81 | 0.04 | 0.94 | FALSE |
6 | GTEx | Colon Transverse | PSMG1 | 0.23 | 0.19 | lasso | 5 | 0.22 | 1.4e-10 | -5.3 | -5.5 | 3.7e-08 | 0.82 | 0.03 | 0.97 | FALSE |
7 | GTEx | Esophagus Mucosa | BRWD1-IT2 | 0.08 | 0.06 | lasso | 5 | 0.06 | 3.9e-05 | 4.5 | 5.4 | 6.0e-08 | -0.88 | 0.04 | 0.94 | FALSE |
8 | GTEx | Muscle Skeletal | PSMG1 | 0.13 | 0.16 | enet | 15 | 0.19 | 7.1e-18 | 5.5 | -5.7 | 1.2e-08 | 0.81 | 0.01 | 0.99 | FALSE |
9 | GTEx | Nerve Tibial | BRWD1-IT2 | 0.11 | 0.08 | lasso | 2 | 0.05 | 3.0e-04 | -5.4 | 5.4 | 5.2e-08 | -0.87 | 0.01 | 0.98 | FALSE |
10 | GTEx | Pancreas | BRWD1-IT2 | 0.18 | 0.05 | lasso | 6 | 0.02 | 6.1e-02 | -5.5 | 5.4 | 7.4e-08 | -0.79 | 0.03 | 0.95 | FALSE |
11 | GTEx | Skin Not Sun Exposed Suprapubic | BRWD1-IT2 | 0.13 | 0.09 | lasso | 3 | 0.08 | 2.5e-05 | -5.4 | 5.2 | 2.1e-07 | -0.86 | 0.02 | 0.98 | FALSE |
12 | GTEx | Testis | PSMG1 | 0.30 | 0.10 | lasso | 4 | 0.06 | 9.5e-04 | 5.5 | -5.1 | 2.7e-07 | 0.71 | 0.03 | 0.88 | FALSE |
13 | GTEx | Testis | BRWD1-IT2 | 0.49 | 0.45 | enet | 19 | 0.46 | 9.0e-23 | -5.0 | -5.2 | 1.7e-07 | 0.86 | 0.03 | 0.97 | FALSE |
14 | GTEx | Thyroid | BRWD1-IT2 | 0.16 | 0.13 | lasso | 6 | 0.14 | 1.1e-10 | -5.4 | 5.5 | 3.5e-08 | -0.85 | 0.02 | 0.98 | FALSE |
15 | METSIM | Adipose | PSMG1 | 0.05 | 0.01 | bslmm | 638 | 0.02 | 3.6e-04 | -5.6 | -5.5 | 4.4e-08 | 0.78 | 0.02 | 0.98 | FALSE |
16 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | PSMG1 | 0.08 | 0.07 | lasso | 4 | 0.06 | 1.4e-07 | -5.5 | -5.5 | 4.6e-08 | 0.86 | 0.01 | 0.99 | FALSE |
17 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | PSMG1 | 0.08 | 0.06 | blup | 61 | 0.06 | 2.5e-04 | 4.5 | -5.4 | 8.1e-08 | 0.74 | 0.04 | 0.78 | FALSE |
18 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | PSMG1 | 0.07 | 0.07 | blup | 61 | 0.04 | 6.3e-03 | 5.5 | -5.5 | 3.5e-08 | 0.76 | 0.01 | 0.93 | FALSE |
19 | The Cancer Genome Atlas | Lung Adenocarcinoma | PSMG1 | 0.04 | 0.02 | blup | 61 | 0.03 | 4.8e-04 | 4.7 | -5.6 | 2.2e-08 | 0.76 | 0.01 | 0.98 | FALSE |
20 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | PSMG1 | 0.04 | 0.04 | blup | 61 | 0.04 | 2.1e-05 | -5.5 | -5.8 | 7.4e-09 | 0.82 | 0.01 | 0.99 | TRUE |
21 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | PSMG1 | 0.11 | 0.10 | blup | 61 | 0.08 | 2.2e-04 | 4.7 | -5.5 | 4.5e-08 | 0.74 | 0.02 | 0.96 | FALSE |
22 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | PSMG1 | 0.07 | 0.04 | blup | 61 | 0.06 | 1.7e-03 | 3.0 | -5.5 | 4.8e-08 | 0.71 | 0.04 | 0.82 | FALSE |
23 | The Cancer Genome Atlas | Prostate Adenocarcinoma | HMGN1 | 0.27 | 0.06 | enet | 17 | 0.10 | 2.5e-10 | 4.8 | -5.2 | 1.7e-07 | 0.54 | 0.02 | 0.96 | FALSE |
24 | The Cancer Genome Atlas | Stomach Adenocarcinoma | BRWD1 | 0.04 | 0.02 | blup | 97 | 0.03 | 2.3e-03 | 3.2 | -5.2 | 2.5e-07 | 0.63 | 0.06 | 0.45 | FALSE |
25 | The Cancer Genome Atlas | Stomach Adenocarcinoma | PSMG1 | 0.05 | 0.02 | blup | 61 | 0.02 | 1.4e-02 | -5.4 | -5.4 | 6.9e-08 | 0.83 | 0.01 | 0.93 | FALSE |