Best TWAS P=1.57e-10 · Best GWAS P=2.97e-09 conditioned to 0.658
# | 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 | ACVR2B | 0.08 | 0.08 | enet | 15 | 0.09 | 9.6e-11 | -4.7 | 5.3 | 9.7e-08 | -0.88 | 0.11 | 0.89 | FALSE |
2 | GTEx | Adipose Subcutaneous | EXOG | 0.10 | 0.00 | enet | 12 | 0.00 | 1.3e-01 | -5.9 | -5.5 | 5.1e-08 | 0.68 | 0.02 | 0.76 | FALSE |
3 | GTEx | Brain Cerebellum | EXOG | 0.19 | 0.23 | enet | 4 | 0.21 | 7.7e-07 | -5.9 | -5.9 | 3.6e-09 | 0.99 | 0.02 | 0.98 | FALSE |
4 | GTEx | Brain Cerebellum | ACVR2B-AS1 | 0.25 | 0.07 | lasso | 6 | 0.10 | 8.3e-04 | -5.8 | -5.8 | 6.6e-09 | 0.91 | 0.02 | 0.95 | FALSE |
5 | GTEx | Brain Frontal Cortex BA9 | EXOG | 0.18 | 0.08 | lasso | 4 | 0.05 | 1.7e-02 | -5.9 | -5.9 | 4.6e-09 | 0.99 | 0.02 | 0.88 | FALSE |
6 | GTEx | Breast Mammary Tissue | EXOG | 0.08 | 0.06 | enet | 10 | 0.05 | 8.6e-04 | -5.1 | -6.4 | 1.6e-10 | 0.90 | 0.03 | 0.95 | TRUE |
7 | GTEx | Colon Transverse | XYLB | 0.08 | 0.03 | enet | 15 | 0.05 | 1.7e-03 | -5.9 | 5.9 | 3.7e-09 | -0.85 | 0.03 | 0.94 | FALSE |
8 | GTEx | Esophagus Mucosa | EXOG | 0.13 | 0.05 | lasso | 3 | 0.03 | 5.0e-03 | -5.9 | -6.0 | 1.6e-09 | 0.98 | 0.02 | 0.95 | FALSE |
9 | GTEx | Ovary | EXOG | 0.33 | 0.25 | lasso | 8 | 0.21 | 8.1e-06 | -5.4 | -5.7 | 1.1e-08 | 0.90 | 0.05 | 0.83 | FALSE |
10 | GTEx | Pancreas | EXOG | 0.22 | 0.08 | enet | 15 | 0.03 | 2.6e-02 | -5.9 | -5.2 | 1.5e-07 | 0.91 | 0.03 | 0.94 | FALSE |
11 | GTEx | Stomach | EXOG | 0.14 | 0.05 | lasso | 6 | 0.02 | 2.5e-02 | -5.9 | -5.9 | 3.5e-09 | 1.00 | 0.02 | 0.96 | FALSE |
12 | GTEx | Testis | EXOG | 0.35 | 0.28 | lasso | 5 | 0.26 | 8.1e-12 | -5.9 | -6.0 | 2.0e-09 | 1.00 | 0.01 | 0.99 | FALSE |
13 | GTEx | Thyroid | EXOG | 0.19 | 0.20 | lasso | 3 | 0.19 | 2.9e-14 | -5.8 | -5.8 | 6.1e-09 | 0.98 | 0.02 | 0.98 | FALSE |
14 | NTR | Blood | ACVR2B | 0.02 | 0.02 | lasso | 3 | 0.02 | 5.6e-07 | -5.4 | -5.7 | 1.3e-08 | 0.95 | 0.04 | 0.96 | FALSE |
15 | NTR | Blood | EXOG | 0.02 | 0.03 | lasso | 6 | 0.03 | 1.0e-09 | -4.7 | 5.1 | 3.0e-07 | -0.89 | 0.11 | 0.89 | FALSE |
16 | NTR | Blood | XYLB | 0.05 | 0.06 | lasso | 3 | 0.06 | 6.2e-18 | -5.4 | -5.5 | 5.1e-08 | 0.87 | 0.17 | 0.83 | FALSE |
17 | ROSMAP | Brain Pre-frontal Cortex | EXOG | 0.10 | 0.13 | lasso | 2 | 0.12 | 4.8e-15 | -5.8 | -5.4 | 5.5e-08 | 0.98 | 0.01 | 0.99 | FALSE |
18 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | EXOG | 0.14 | 0.09 | blup | 56 | 0.09 | 9.5e-06 | -5.8 | -5.5 | 3.4e-08 | 0.88 | 0.01 | 0.98 | FALSE |
19 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | LOC100128640 | 0.09 | 0.05 | lasso | 2 | 0.03 | 1.7e-02 | -5.4 | 5.4 | 6.9e-08 | -0.86 | 0.02 | 0.51 | FALSE |
20 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | EXOG | 0.02 | 0.02 | blup | 56 | 0.01 | 1.0e-02 | -5.6 | -5.7 | 1.2e-08 | 0.96 | 0.02 | 0.86 | FALSE |
21 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | XYLB | 0.05 | 0.03 | lasso | 4 | 0.02 | 2.4e-03 | -5.3 | 5.4 | 8.0e-08 | -0.93 | 0.02 | 0.97 | FALSE |
22 | The Cancer Genome Atlas | Prostate Adenocarcinoma | LOC100128640 | 0.08 | 0.02 | blup | 28 | 0.03 | 2.6e-04 | -5.9 | 5.2 | 1.6e-07 | -0.87 | 0.01 | 0.97 | FALSE |
23 | The Cancer Genome Atlas | Thyroid Carcinoma | ACVR2B | 0.02 | 0.00 | blup | 49 | 0.01 | 1.6e-02 | -5.6 | 5.6 | 2.3e-08 | -0.92 | 0.03 | 0.50 | FALSE |
24 | The Cancer Genome Atlas | Thyroid Carcinoma | LOC100128640 | 0.07 | 0.03 | blup | 28 | 0.03 | 1.0e-03 | -5.9 | 5.5 | 4.4e-08 | -0.96 | 0.01 | 0.98 | FALSE |