Best TWAS P=4.39e-10 · Best GWAS P=4.71e-09 conditioned to 0.896
# | 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 | RNF40 | 0.14 | 0.15 | enet | 7 | 0.15 | 1.9e-17 | 5.7 | 5.8 | 8.9e-09 | 0.69 | 0.02 | 0.98 | FALSE |
2 | GTEx | Adipose Subcutaneous | STX4 | 0.06 | 0.05 | lasso | 2 | 0.02 | 7.8e-03 | 5.6 | 5.7 | 1.1e-08 | 0.75 | 0.03 | 0.88 | FALSE |
3 | GTEx | Adipose Subcutaneous | RNF40 | 0.18 | 0.10 | lasso | 7 | 0.11 | 3.7e-09 | 5.8 | 5.6 | 1.8e-08 | 0.71 | 0.02 | 0.98 | FALSE |
4 | GTEx | Brain Caudate basal ganglia | PRSS36 | 0.16 | 0.25 | lasso | 3 | 0.23 | 2.4e-07 | 5.0 | 5.1 | 2.9e-07 | 0.85 | 0.15 | 0.63 | FALSE |
5 | GTEx | Brain Cerebellum | RNF40 | 0.24 | 0.16 | lasso | 5 | 0.13 | 9.7e-05 | 5.6 | 5.9 | 4.2e-09 | 0.78 | 0.02 | 0.94 | FALSE |
6 | GTEx | Cells Transformed fibroblasts | RNF40 | 0.08 | 0.04 | lasso | 8 | 0.04 | 5.6e-04 | 5.7 | 6.2 | 4.4e-10 | 0.93 | 0.02 | 0.97 | TRUE |
7 | GTEx | Colon Transverse | STX1B | 0.12 | 0.01 | lasso | 5 | 0.00 | 3.9e-01 | 5.6 | 5.4 | 5.1e-08 | 0.84 | 0.05 | 0.33 | FALSE |
8 | GTEx | Esophagus Muscularis | RNF40 | 0.16 | 0.10 | lasso | 1 | 0.08 | 1.3e-05 | 5.8 | 5.8 | 7.7e-09 | 0.70 | 0.01 | 0.97 | FALSE |
9 | GTEx | Nerve Tibial | RNF40 | 0.13 | 0.08 | lasso | 5 | 0.09 | 8.1e-07 | 5.6 | 5.6 | 2.3e-08 | 0.67 | 0.02 | 0.98 | FALSE |
10 | GTEx | Ovary | STX4 | 0.16 | 0.05 | enet | 13 | 0.07 | 9.0e-03 | 4.1 | 5.4 | 8.3e-08 | 0.86 | 0.06 | 0.52 | FALSE |
11 | GTEx | Skin Sun Exposed Lower leg | STX4 | 0.04 | 0.02 | enet | 18 | 0.04 | 3.9e-04 | 3.2 | 5.2 | 2.5e-07 | 0.72 | 0.26 | 0.42 | FALSE |
12 | GTEx | Testis | C16orf93 | 0.10 | 0.09 | lasso | 3 | 0.08 | 1.4e-04 | 5.8 | -5.6 | 2.1e-08 | -0.70 | 0.02 | 0.96 | FALSE |
13 | GTEx | Thyroid | HSD3B7 | 0.27 | 0.12 | lasso | 4 | 0.17 | 7.0e-13 | 3.7 | 5.2 | 1.6e-07 | 0.81 | 0.06 | 0.94 | FALSE |
14 | GTEx | Thyroid | RNF40 | 0.07 | 0.03 | lasso | 3 | 0.03 | 1.5e-03 | 5.6 | 5.9 | 2.9e-09 | 0.89 | 0.02 | 0.96 | FALSE |
15 | GTEx | Thyroid | C16orf93 | 0.17 | 0.18 | lasso | 4 | 0.18 | 1.6e-13 | 5.7 | -5.8 | 5.3e-09 | -0.75 | 0.02 | 0.98 | FALSE |
16 | METSIM | Adipose | RNF40 | 0.12 | 0.07 | lasso | 4 | 0.07 | 1.1e-10 | 5.6 | 5.7 | 9.5e-09 | 0.74 | 0.02 | 0.98 | FALSE |
17 | ROSMAP | Brain Pre-frontal Cortex | RNF40 | 0.19 | 0.14 | bslmm | 201 | 0.15 | 2.7e-18 | 5.6 | 5.4 | 7.5e-08 | 0.54 | 0.02 | 0.98 | FALSE |
18 | ROSMAP | Brain Pre-frontal Cortex | C16orf93 | 0.19 | 0.26 | lasso | 10 | 0.28 | 5.1e-36 | 5.6 | -5.4 | 7.7e-08 | -0.72 | 0.02 | 0.98 | FALSE |
19 | YFS | Blood | ZNF785 | 0.05 | 0.07 | lasso | 4 | 0.06 | 2.0e-20 | 4.7 | 5.1 | 2.9e-07 | 0.66 | 0.74 | 0.26 | FALSE |
20 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | HSD3B7 | 0.06 | 0.01 | blup | 31 | 0.02 | 7.4e-04 | 4.4 | 5.2 | 2.0e-07 | 0.89 | 0.04 | 0.82 | FALSE |
21 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | C16orf93 | 0.02 | 0.02 | blup | 11 | 0.02 | 1.5e-03 | 5.8 | -5.6 | 2.1e-08 | -0.70 | 0.00 | 0.71 | FALSE |
22 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | RNF40 | 0.06 | 0.02 | enet | 4 | 0.03 | 6.0e-04 | 5.8 | 5.2 | 1.9e-07 | 0.62 | 0.00 | 0.86 | FALSE |
23 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | C16orf93 | 0.14 | 0.11 | blup | 10 | 0.11 | 4.5e-07 | 5.8 | -5.5 | 3.8e-08 | -0.70 | 0.00 | 1.00 | FALSE |
24 | The Cancer Genome Atlas | Brain Lower Grade Glioma | C16orf93 | 0.09 | 0.09 | blup | 11 | 0.09 | 1.0e-10 | 5.6 | -5.4 | 8.3e-08 | -0.68 | 0.01 | 0.99 | FALSE |
25 | The Cancer Genome Atlas | Brain Lower Grade Glioma | RNF40 | 0.09 | 0.08 | blup | 12 | 0.07 | 2.1e-08 | 5.8 | 5.3 | 9.6e-08 | 0.64 | 0.00 | 1.00 | FALSE |
26 | The Cancer Genome Atlas | Prostate Adenocarcinoma | RNF40 | 0.07 | 0.11 | lasso | 5 | 0.10 | 7.5e-11 | 5.8 | 5.8 | 7.8e-09 | 0.71 | 0.00 | 1.00 | FALSE |
27 | The Cancer Genome Atlas | Thyroid Carcinoma | C16orf93 | 0.15 | 0.19 | lasso | 4 | 0.19 | 1.8e-18 | 5.8 | -5.8 | 8.5e-09 | -0.71 | 0.00 | 1.00 | FALSE |
28 | The Cancer Genome Atlas | Thyroid Carcinoma | RNF40 | 0.06 | 0.04 | blup | 12 | 0.06 | 3.6e-06 | 5.8 | 5.1 | 2.9e-07 | 0.58 | 0.00 | 0.99 | FALSE |