Best TWAS P=3.43e-24 · Best GWAS P=8.22e-24 conditioned to NaN
| # | 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 | LOC284023 | 0.10 | 0.07 | bslmm | 506 | 0.07 | 1.1e-08 | 5.91 | 5.6 | 2.1e-08 | 0.21 | 1.00 | 0.00 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | POLR2A | 0.08 | 0.07 | lasso | 4 | 0.07 | 1.9e-08 | -3.82 | -5.2 | 2.3e-07 | -0.07 | 1.00 | 0.00 | FALSE |
| 3 | GTEx | Adipose Subcutaneous | CHRNB1 | 0.30 | 0.22 | lasso | 8 | 0.26 | 1.6e-21 | 5.38 | -5.4 | 8.1e-08 | -0.11 | 1.00 | 0.00 | FALSE |
| 4 | GTEx | Adipose Subcutaneous | SNORA48 | 0.12 | 0.04 | lasso | 2 | 0.04 | 4.0e-04 | 9.00 | 9.1 | 1.2e-19 | 0.11 | 0.38 | 0.03 | FALSE |
| 5 | GTEx | Brain Cortex | TNFSF13 | 0.28 | 0.12 | lasso | 5 | 0.09 | 2.1e-03 | 9.00 | 8.9 | 4.2e-19 | 0.06 | 0.16 | 0.07 | FALSE |
| 6 | GTEx | Cells Transformed fibroblasts | TNFSF12 | 0.25 | 0.22 | lasso | 8 | 0.20 | 7.4e-15 | -5.82 | -6.0 | 1.5e-09 | -0.16 | 1.00 | 0.00 | TRUE |
| 7 | GTEx | Esophagus Muscularis | CHRNB1 | 0.35 | 0.19 | lasso | 7 | 0.28 | 1.9e-17 | 5.30 | -6.3 | 3.4e-10 | -0.10 | 1.00 | 0.00 | TRUE |
| 8 | GTEx | Liver | CD68 | 0.45 | -0.01 | lasso | 12 | -0.01 | 4.7e-01 | -4.31 | -5.6 | 1.9e-08 | -0.17 | 0.05 | 0.05 | FALSE |
| 9 | GTEx | Muscle Skeletal | CHRNB1 | 0.34 | 0.18 | enet | 35 | 0.24 | 4.9e-23 | -5.66 | 6.9 | 5.8e-12 | 0.25 | 1.00 | 0.00 | FALSE |
| 10 | GTEx | Nerve Tibial | CHRNB1 | 0.37 | 0.31 | enet | 12 | 0.35 | 9.7e-26 | 5.30 | -5.6 | 2.1e-08 | -0.12 | 1.00 | 0.00 | FALSE |
| 11 | GTEx | Skin Sun Exposed Lower leg | ATP1B2 | 0.08 | 0.01 | lasso | 3 | 0.01 | 4.8e-02 | 7.55 | 7.4 | 1.4e-13 | 0.10 | 0.38 | 0.02 | FALSE |
| 12 | GTEx | Small Intestine Terminal Ileum | CHRNB1 | 0.43 | -0.01 | lasso | 9 | 0.00 | 2.9e-01 | -2.78 | -6.7 | 1.8e-11 | -0.06 | 0.06 | 0.06 | TRUE |
| 13 | GTEx | Testis | ZBTB4 | 0.26 | 0.00 | enet | 35 | 0.06 | 1.6e-03 | 8.11 | -5.6 | 1.9e-08 | -0.07 | 0.06 | 0.05 | FALSE |
| 14 | GTEx | Testis | TMEM102 | 0.23 | 0.08 | lasso | 6 | 0.07 | 5.1e-04 | 4.43 | 7.0 | 3.5e-12 | 0.15 | 0.24 | 0.05 | FALSE |
| 15 | GTEx | Thyroid | CHRNB1 | 0.11 | 0.03 | lasso | 8 | 0.02 | 7.1e-03 | 5.38 | -5.4 | 7.2e-08 | -0.13 | 0.22 | 0.06 | FALSE |
| 16 | GTEx | Whole Blood | TNFSF12 | 0.09 | 0.03 | enet | 24 | 0.04 | 1.9e-04 | -5.81 | -6.5 | 1.0e-10 | -0.27 | 0.74 | 0.03 | FALSE |
| 17 | METSIM | Adipose | ACAP1 | 0.06 | 0.03 | blup | 452 | 0.03 | 2.5e-05 | 2.64 | 7.9 | 3.6e-15 | 0.08 | 0.58 | 0.01 | FALSE |
| 18 | METSIM | Adipose | ATP1B2 | 0.07 | 0.04 | bslmm | 494 | 0.03 | 1.2e-05 | 7.79 | 9.5 | 2.0e-21 | 0.11 | 0.98 | 0.00 | TRUE |
| 19 | METSIM | Adipose | CHD3 | 0.06 | 0.03 | blup | 509 | 0.02 | 6.7e-04 | -0.39 | -6.1 | 9.2e-10 | -0.30 | 0.22 | 0.25 | FALSE |
| 20 | METSIM | Adipose | TMEM88 | 0.09 | 0.02 | bslmm | 500 | 0.03 | 4.6e-05 | 6.40 | 5.8 | 8.0e-09 | 0.11 | 0.63 | 0.03 | TRUE |
| 21 | NTR | Blood | KDM6B | 0.05 | 0.05 | bslmm | 499 | 0.05 | 8.8e-15 | 4.90 | 5.2 | 1.7e-07 | 0.59 | 1.00 | 0.00 | TRUE |
| 22 | ROSMAP | Brain Pre-frontal Cortex | WRAP53 | 0.06 | 0.08 | lasso | 3 | 0.06 | 6.4e-08 | 4.26 | -5.8 | 5.0e-09 | -0.08 | 1.00 | 0.00 | TRUE |
| 23 | ROSMAP | Brain Pre-frontal Cortex | TNFSF13 | 0.08 | 0.07 | lasso | 3 | 0.06 | 1.7e-08 | 7.94 | 8.4 | 5.1e-17 | 0.09 | 1.00 | 0.00 | FALSE |
| 24 | ROSMAP | Brain Pre-frontal Cortex | EIF4A1 | 0.07 | 0.02 | enet | 6 | 0.02 | 6.4e-04 | 6.70 | -5.4 | 7.1e-08 | 0.01 | 0.69 | 0.06 | FALSE |
| 25 | ROSMAP | Brain Pre-frontal Cortex | TNFSF12 | 0.10 | 0.04 | lasso | 6 | 0.06 | 9.2e-08 | -5.82 | -7.3 | 1.9e-13 | -0.19 | 1.00 | 0.00 | FALSE |
| 26 | YFS | Blood | ACAP1 | 0.33 | 0.21 | enet | 34 | 0.29 | 1.1e-96 | -5.15 | 6.2 | 7.3e-10 | 0.05 | 1.00 | 0.00 | TRUE |
| 27 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | ATP1B2 | 0.06 | 0.01 | blup | 39 | 0.02 | 4.3e-03 | 7.70 | 8.9 | 7.5e-19 | 0.14 | 0.04 | 0.59 | TRUE |
| 28 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CHRNB1 | 0.04 | 0.03 | blup | 57 | 0.02 | 1.5e-03 | -5.66 | 5.9 | 2.8e-09 | 0.18 | 0.07 | 0.18 | FALSE |
| 29 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | ATP1B2 | 0.04 | 0.02 | blup | 39 | 0.04 | 2.3e-05 | 7.70 | 9.2 | 2.8e-20 | 0.15 | 0.05 | 0.80 | FALSE |
| 30 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | TNFSF12-TNFSF13 | 0.06 | 0.00 | blup | 58 | 0.01 | 3.4e-02 | 8.68 | 6.4 | 1.3e-10 | 0.09 | 0.00 | 0.77 | TRUE |
| 31 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | ATP1B2 | 0.13 | 0.01 | blup | 42 | 0.02 | 6.3e-02 | -4.34 | 10.1 | 3.4e-24 | 0.12 | 0.01 | 0.15 | TRUE |
| 32 | The Cancer Genome Atlas | Prostate Adenocarcinoma | TMEM88 | 0.06 | 0.00 | enet | 10 | 0.01 | 6.5e-02 | 5.90 | 6.3 | 2.1e-10 | 0.23 | 0.01 | 0.10 | FALSE |
| 33 | The Cancer Genome Atlas | Thyroid Carcinoma | ATP1B2 | 0.04 | 0.01 | blup | 40 | 0.01 | 1.4e-02 | 5.60 | 9.3 | 1.1e-20 | 0.13 | 0.01 | 0.17 | FALSE |
| 34 | The Cancer Genome Atlas | Thyroid Carcinoma | CNTROB | 0.14 | 0.07 | blup | 50 | 0.10 | 4.8e-10 | 1.52 | -6.3 | 2.7e-10 | -0.57 | 0.97 | 0.02 | FALSE |
| 35 | The Cancer Genome Atlas | Thyroid Carcinoma | TRAPPC1 | 0.12 | 0.02 | lasso | 4 | 0.05 | 2.6e-05 | 8.91 | -7.8 | 4.3e-15 | -0.66 | 0.00 | 1.00 | TRUE |