Best TWAS P=4.03e-167 · Best GWAS P=0 conditioned to 0
| # | 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 | GAB1 | 0.04 | 0.03 | lasso | 4 | 0.02 | 4.9e-03 | -7.5 | 7.5 | 7.9e-14 | 0.05 | 0.29 | 0.11 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | GYPA | 0.20 | 0.06 | blup | 293 | 0.10 | 4.0e-12 | -4.4 | -7.2 | 6.2e-13 | 0.07 | 1.00 | 0.00 | FALSE |
| 3 | CommonMind | Brain Pre-frontal Cortex | GYPE | 0.28 | 0.26 | bslmm | 263 | 0.35 | 1.0e-44 | -7.2 | 5.8 | 8.3e-09 | -0.01 | 1.00 | 0.00 | FALSE |
| 4 | CommonMind | Brain Pre-frontal Cortex | OTUD4 | 0.06 | 0.04 | bslmm | 272 | 0.04 | 2.6e-05 | -17.4 | -16.5 | 6.5e-61 | 0.31 | 0.85 | 0.03 | TRUE |
| 5 | GTEx | Adipose Visceral Omentum | RP11-673E1.3 | 0.09 | 0.03 | lasso | 6 | 0.03 | 1.3e-02 | -7.2 | -7.7 | 1.5e-14 | 0.07 | 0.37 | 0.12 | FALSE |
| 6 | GTEx | Artery Aorta | ZNF827 | 0.13 | 0.14 | enet | 11 | 0.10 | 6.5e-06 | -7.0 | 7.4 | 1.3e-13 | -0.07 | 0.90 | 0.03 | TRUE |
| 7 | GTEx | Artery Tibial | MMAA | 0.14 | 0.02 | enet | 22 | 0.08 | 6.2e-07 | -3.3 | 6.9 | 6.4e-12 | -0.06 | 0.40 | 0.02 | FALSE |
| 8 | GTEx | Artery Tibial | ZNF827 | 0.16 | 0.08 | enet | 22 | 0.05 | 1.2e-04 | 6.5 | 5.8 | 7.0e-09 | -0.03 | 0.98 | 0.00 | FALSE |
| 9 | GTEx | Artery Tibial | RP11-673E1.3 | 0.12 | 0.00 | enet | 16 | 0.04 | 4.0e-04 | -2.0 | -7.2 | 4.3e-13 | 0.07 | 0.09 | 0.14 | FALSE |
| 10 | GTEx | Brain Hypothalamus | HHIP-AS1 | 0.12 | 0.02 | enet | 16 | 0.04 | 4.6e-02 | 19.3 | 21.3 | 1.6e-100 | -0.22 | 0.06 | 0.13 | TRUE |
| 11 | GTEx | Brain Putamen basal ganglia | RP11-673E1.3 | 0.16 | -0.01 | lasso | 7 | -0.01 | 4.5e-01 | -5.8 | 5.7 | 1.6e-08 | 0.00 | 0.10 | 0.05 | FALSE |
| 12 | GTEx | Breast Mammary Tissue | RP11-673E1.3 | 0.06 | 0.05 | lasso | 3 | 0.04 | 3.7e-03 | -7.3 | -7.3 | 3.4e-13 | 0.05 | 0.46 | 0.04 | FALSE |
| 13 | GTEx | Breast Mammary Tissue (Male) | RP11-673E1.3 | 0.04 | 0.02 | lasso | 3 | 0.00 | 3.6e-01 | -7.3 | -7.3 | 3.3e-13 | 0.05 | 0.03 | 0.06 | FALSE |
| 14 | GTEx | Breast Mammary Tissue (Female) | RP11-673E1.3 | 0.05 | -0.01 | lasso | 4 | 0.05 | 1.5e-02 | -3.7 | -5.7 | 1.2e-08 | 0.02 | 0.04 | 0.10 | TRUE |
| 15 | GTEx | Colon Transverse | USP38 | 0.22 | 0.01 | lasso | 4 | 0.09 | 7.2e-05 | -4.8 | -6.9 | 5.7e-12 | 0.00 | 0.13 | 0.08 | TRUE |
| 16 | GTEx | Muscle Skeletal | MMAA | 0.16 | 0.12 | enet | 21 | 0.11 | 3.2e-11 | -3.4 | 6.1 | 8.1e-10 | -0.05 | 1.00 | 0.00 | TRUE |
| 17 | GTEx | Pancreas | GAB1 | 0.17 | 0.04 | enet | 16 | 0.04 | 7.4e-03 | -4.8 | 6.8 | 1.3e-11 | 0.00 | 0.16 | 0.07 | TRUE |
| 18 | GTEx | Pancreas | ANAPC10 | 0.14 | 0.10 | lasso | 3 | 0.10 | 4.3e-05 | -28.4 | 27.6 | 4.0e-167 | -0.38 | 0.32 | 0.12 | TRUE |
| 19 | GTEx | Testis | USP38 | 0.21 | 0.04 | enet | 18 | 0.06 | 9.5e-04 | 7.3 | 6.7 | 1.7e-11 | 0.01 | 0.08 | 0.63 | FALSE |
| 20 | GTEx | Whole Blood | RP11-673E1.3 | 0.04 | 0.03 | enet | 8 | 0.02 | 6.2e-03 | -7.3 | -7.2 | 5.9e-13 | 0.05 | 0.77 | 0.01 | FALSE |
| 21 | METSIM | Adipose | RP11-673E1.1 | 0.10 | 0.13 | bslmm | 260 | 0.15 | 5.0e-22 | -5.8 | 5.5 | 3.3e-08 | -0.03 | 1.00 | 0.00 | FALSE |
| 22 | ROSMAP | Brain Pre-frontal Cortex | OTUD4 | 0.04 | 0.03 | lasso | 2 | 0.03 | 1.4e-04 | 19.7 | -20.4 | 1.3e-92 | 0.31 | 0.66 | 0.02 | TRUE |
| 23 | ROSMAP | Brain Pre-frontal Cortex | GUSBP5 | 0.12 | 0.02 | blup | 268 | 0.07 | 4.3e-09 | 12.5 | -8.6 | 1.2e-17 | 0.11 | 0.00 | 1.00 | FALSE |
| 24 | YFS | Blood | GYPE | 0.09 | 0.17 | bslmm | 255 | 0.19 | 1.5e-60 | -7.5 | -8.2 | 2.8e-16 | 0.08 | 1.00 | 0.00 | TRUE |
| 25 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | GYPE | 0.08 | 0.07 | lasso | 2 | 0.07 | 3.4e-06 | 6.1 | -6.7 | 1.7e-11 | 0.07 | 0.04 | 0.92 | FALSE |
| 26 | The Cancer Genome Atlas | Breast Invasive Carcinoma | GYPE | 0.07 | 0.08 | enet | 4 | 0.07 | 7.6e-15 | -7.6 | -7.8 | 7.1e-15 | 0.05 | 0.01 | 0.99 | FALSE |
| 27 | The Cancer Genome Atlas | Breast Invasive Carcinoma | LOC441046 | 0.09 | 0.06 | enet | 9 | 0.08 | 8.7e-16 | -3.1 | -8.2 | 2.1e-16 | 0.11 | 1.00 | 0.00 | FALSE |
| 28 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | GYPE | 0.17 | 0.06 | lasso | 2 | 0.07 | 2.2e-04 | -7.5 | -6.0 | 2.6e-09 | 0.00 | 0.01 | 0.93 | FALSE |
| 29 | The Cancer Genome Atlas | Colon Adenocarcinoma | GYPE | 0.05 | 0.04 | blup | 18 | 0.04 | 3.3e-03 | -7.4 | -6.4 | 1.9e-10 | 0.01 | 0.01 | 0.88 | FALSE |
| 30 | The Cancer Genome Atlas | Colon Adenocarcinoma | LOC441046 | 0.14 | 0.10 | lasso | 4 | 0.11 | 7.2e-07 | -3.3 | -5.9 | 4.3e-09 | 0.13 | 0.68 | 0.22 | FALSE |
| 31 | The Cancer Genome Atlas | Glioblastoma Multiforme | LOC441046 | 0.34 | 0.18 | blup | 37 | 0.26 | 1.4e-08 | 12.5 | -8.4 | 3.9e-17 | 0.08 | 0.00 | 0.99 | FALSE |
| 32 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | GYPE | 0.05 | 0.05 | blup | 17 | 0.04 | 8.4e-06 | -7.5 | -7.8 | 7.6e-15 | 0.06 | 0.01 | 0.99 | FALSE |
| 33 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | LOC441046 | 0.13 | 0.13 | lasso | 4 | 0.14 | 2.3e-15 | -3.2 | -6.6 | 3.2e-11 | 0.12 | 1.00 | 0.00 | FALSE |
| 34 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | GYPE | 0.03 | 0.03 | blup | 18 | 0.02 | 1.1e-03 | -7.4 | -7.6 | 2.6e-14 | 0.05 | 0.01 | 0.97 | FALSE |
| 35 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | LOC441046 | 0.09 | 0.03 | enet | 6 | 0.06 | 2.8e-07 | 12.5 | -9.9 | 4.3e-23 | 0.10 | 0.00 | 0.99 | FALSE |
| 36 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | GAB1 | 0.06 | 0.07 | lasso | 2 | 0.07 | 8.0e-05 | -7.5 | -7.8 | 7.5e-15 | -0.05 | 0.30 | 0.05 | TRUE |
| 37 | The Cancer Genome Atlas | Brain Lower Grade Glioma | LOC441046 | 0.05 | 0.01 | enet | 6 | 0.03 | 4.3e-04 | -3.1 | -10.1 | 4.8e-24 | 0.11 | 0.01 | 0.83 | TRUE |
| 38 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | GYPE | 0.07 | 0.05 | enet | 4 | 0.07 | 4.1e-04 | -7.5 | -8.3 | 1.4e-16 | 0.12 | 0.01 | 0.90 | TRUE |
| 39 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | LOC441046 | 0.19 | 0.02 | blup | 37 | 0.08 | 9.0e-05 | 12.5 | -9.8 | 6.7e-23 | 0.10 | 0.00 | 0.97 | FALSE |
| 40 | The Cancer Genome Atlas | Lung Adenocarcinoma | GYPE | 0.05 | 0.05 | blup | 17 | 0.05 | 2.3e-06 | -7.5 | -7.0 | 2.3e-12 | 0.02 | 0.01 | 0.99 | FALSE |
| 41 | The Cancer Genome Atlas | Lung Adenocarcinoma | LOC441046 | 0.06 | 0.04 | lasso | 3 | 0.03 | 1.7e-04 | -3.1 | -5.6 | 2.8e-08 | 0.12 | 0.72 | 0.21 | FALSE |
| 42 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | GYPE | 0.07 | 0.08 | lasso | 3 | 0.08 | 2.7e-09 | -7.5 | -7.4 | 1.0e-13 | 0.04 | 0.01 | 0.99 | TRUE |
| 43 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | LOC441046 | 0.09 | 0.07 | lasso | 2 | 0.07 | 1.1e-08 | -3.1 | -6.6 | 5.4e-11 | 0.12 | 0.91 | 0.09 | TRUE |
| 44 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | GYPE | 0.11 | 0.11 | enet | 7 | 0.11 | 2.3e-05 | -7.5 | -6.7 | 2.7e-11 | 0.02 | 0.01 | 0.98 | FALSE |
| 45 | The Cancer Genome Atlas | Prostate Adenocarcinoma | GYPE | 0.03 | 0.02 | blup | 18 | 0.02 | 8.7e-03 | -7.5 | -7.6 | 3.0e-14 | 0.05 | 0.01 | 0.87 | FALSE |
| 46 | The Cancer Genome Atlas | Prostate Adenocarcinoma | LOC441046 | 0.07 | 0.01 | blup | 37 | 0.04 | 2.4e-05 | -3.2 | -8.6 | 7.4e-18 | 0.12 | 0.03 | 0.90 | FALSE |
| 47 | The Cancer Genome Atlas | Rectum Adenocarcinoma | GYPE | 0.29 | 0.11 | enet | 2 | 0.16 | 1.2e-04 | -7.5 | -7.5 | 6.3e-14 | 0.07 | 0.01 | 0.58 | FALSE |
| 48 | The Cancer Genome Atlas | Stomach Adenocarcinoma | GYPE | 0.15 | 0.11 | lasso | 4 | 0.11 | 2.2e-08 | -7.6 | -7.1 | 1.0e-12 | 0.03 | 0.01 | 0.99 | FALSE |
| 49 | The Cancer Genome Atlas | Stomach Adenocarcinoma | LOC441046 | 0.13 | 0.00 | enet | 13 | 0.07 | 1.2e-05 | -3.1 | -8.2 | 3.5e-16 | 0.11 | 0.02 | 0.43 | FALSE |
| 50 | The Cancer Genome Atlas | Thyroid Carcinoma | LOC441046 | 0.17 | 0.11 | blup | 37 | 0.14 | 1.0e-13 | 12.5 | -10.0 | 9.7e-24 | 0.10 | 0.00 | 1.00 | FALSE |