Best TWAS P=1.11e-33 · Best GWAS P=1.12e-34 conditioned to 1
| # | 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 | TSEN15 | 0.23 | 0.18 | lasso | 9 | 0.18 | 4.7e-21 | 12.3 | 12.1 | 1.1e-33 | 0.99 | 0.00 | 1.00 | TRUE |
| 2 | GTEx | Adipose Subcutaneous | RP11-181K3.4 | 0.09 | 0.11 | enet | 9 | 0.09 | 6.7e-08 | 8.3 | 8.3 | 9.2e-17 | 0.06 | 0.29 | 0.71 | FALSE |
| 3 | GTEx | Adipose Visceral Omentum | RP11-181K3.4 | 0.13 | 0.06 | lasso | 3 | 0.14 | 8.3e-08 | 8.3 | 8.3 | 1.4e-16 | 0.07 | 0.08 | 0.92 | FALSE |
| 4 | GTEx | Artery Aorta | RP11-181K3.4 | 0.17 | 0.01 | enet | 16 | 0.02 | 2.3e-02 | 8.3 | 8.5 | 2.3e-17 | 0.09 | 0.09 | 0.88 | FALSE |
| 5 | GTEx | Artery Tibial | LAMC1 | 0.10 | 0.10 | lasso | 5 | 0.10 | 2.2e-08 | 8.3 | -8.4 | 2.8e-17 | -0.06 | 0.11 | 0.88 | FALSE |
| 6 | GTEx | Artery Tibial | TSEN15 | 0.10 | 0.07 | lasso | 5 | 0.05 | 6.3e-05 | -6.7 | -5.5 | 4.9e-08 | -0.10 | 0.57 | 0.06 | FALSE |
| 7 | GTEx | Artery Tibial | RP11-181K3.4 | 0.07 | 0.07 | lasso | 15 | 0.05 | 1.1e-04 | 8.3 | 8.9 | 3.4e-19 | 0.09 | 0.20 | 0.78 | TRUE |
| 8 | GTEx | Brain Cerebellar Hemisphere | LAMC1 | 0.50 | 0.16 | enet | 13 | 0.13 | 3.8e-04 | 8.8 | 8.6 | 1.2e-17 | 0.06 | 0.06 | 0.92 | FALSE |
| 9 | GTEx | Brain Cerebellar Hemisphere | TSEN15 | 0.38 | 0.08 | lasso | 13 | 0.16 | 5.3e-05 | 12.3 | 10.6 | 2.1e-26 | 0.90 | 0.01 | 0.98 | FALSE |
| 10 | GTEx | Brain Cerebellum | LAMC1 | 0.27 | 0.36 | enet | 29 | 0.29 | 3.5e-09 | 8.7 | 8.4 | 3.1e-17 | 0.02 | 0.05 | 0.95 | FALSE |
| 11 | GTEx | Brain Cerebellum | COLGALT2 | 0.49 | 0.05 | lasso | 8 | 0.10 | 9.2e-04 | 7.8 | -9.4 | 4.9e-21 | -0.39 | 0.09 | 0.28 | FALSE |
| 12 | GTEx | Brain Frontal Cortex BA9 | LAMC2 | 0.20 | 0.05 | lasso | 5 | 0.10 | 1.0e-03 | -6.0 | -5.7 | 1.6e-08 | 0.05 | 0.09 | 0.81 | FALSE |
| 13 | GTEx | Cells EBV-transformed lymphocytes | RP11-181K3.4 | 0.15 | 0.03 | enet | 30 | 0.06 | 3.8e-03 | 8.3 | 5.8 | 7.4e-09 | 0.04 | 0.04 | 0.85 | FALSE |
| 14 | GTEx | Cells Transformed fibroblasts | RP11-181K3.4 | 0.05 | 0.01 | lasso | 2 | 0.01 | 1.2e-01 | -6.0 | 6.0 | 2.2e-09 | -0.01 | 0.06 | 0.59 | FALSE |
| 15 | GTEx | Colon Transverse | TSEN15 | 0.17 | 0.05 | enet | 18 | 0.06 | 7.2e-04 | 5.9 | 7.2 | 8.7e-13 | 0.73 | 0.07 | 0.88 | FALSE |
| 16 | GTEx | Esophagus Mucosa | LAMC1 | 0.17 | 0.01 | enet | 40 | 0.07 | 2.8e-05 | -7.0 | -7.0 | 2.4e-12 | -0.03 | 0.06 | 0.88 | FALSE |
| 17 | GTEx | Esophagus Mucosa | TSEN15 | 0.08 | 0.07 | lasso | 2 | 0.05 | 2.6e-04 | -6.8 | -6.9 | 7.0e-12 | -0.21 | 0.66 | 0.01 | TRUE |
| 18 | GTEx | Esophagus Muscularis | LAMC1 | 0.11 | 0.08 | enet | 9 | 0.03 | 4.4e-03 | 8.7 | -8.8 | 9.1e-19 | -0.05 | 0.03 | 0.96 | FALSE |
| 19 | GTEx | Esophagus Muscularis | RP11-181K3.4 | 0.05 | 0.09 | lasso | 1 | 0.07 | 3.9e-05 | 8.6 | 8.6 | 6.4e-18 | 0.06 | 0.07 | 0.91 | FALSE |
| 20 | GTEx | Lung | LAMC1 | 0.18 | 0.20 | enet | 33 | 0.19 | 2.3e-14 | 8.6 | -8.6 | 1.1e-17 | -0.07 | 0.10 | 0.90 | FALSE |
| 21 | GTEx | Lung | COLGALT2 | 0.15 | 0.02 | enet | 15 | 0.08 | 1.5e-06 | 5.5 | -6.9 | 4.4e-12 | -0.25 | 0.29 | 0.19 | FALSE |
| 22 | GTEx | Nerve Tibial | LAMC1 | 0.07 | 0.08 | enet | 30 | 0.05 | 1.1e-04 | 8.8 | 8.4 | 3.8e-17 | 0.10 | 0.08 | 0.92 | FALSE |
| 23 | GTEx | Nerve Tibial | RP11-181K3.4 | 0.18 | 0.24 | enet | 30 | 0.24 | 2.9e-17 | 8.6 | 8.7 | 3.6e-18 | 0.06 | 0.09 | 0.91 | FALSE |
| 24 | GTEx | Testis | RP11-181K3.4 | 0.10 | 0.09 | enet | 29 | 0.05 | 2.2e-03 | 8.6 | 7.6 | 3.4e-14 | 0.08 | 0.06 | 0.78 | FALSE |
| 25 | GTEx | Thyroid | RP11-181K3.4 | 0.12 | 0.07 | lasso | 4 | 0.05 | 5.7e-05 | 8.3 | 8.4 | 3.2e-17 | 0.07 | 0.12 | 0.87 | FALSE |
| 26 | GTEx | Whole Blood | LAMC1 | 0.08 | 0.05 | enet | 21 | 0.04 | 1.0e-04 | 8.3 | 8.2 | 3.7e-16 | 0.06 | 0.05 | 0.94 | FALSE |
| 27 | METSIM | Adipose | TSEN15 | 0.06 | 0.02 | enet | 28 | 0.04 | 1.3e-06 | 12.3 | 11.3 | 7.6e-30 | 0.81 | 0.00 | 1.00 | FALSE |
| 28 | NTR | Blood | LAMC1 | 0.05 | 0.07 | lasso | 11 | 0.07 | 3.7e-21 | -6.3 | 7.4 | 1.8e-13 | -0.03 | 0.60 | 0.40 | FALSE |
| 29 | YFS | Blood | LAMC1 | 0.10 | 0.17 | lasso | 21 | 0.17 | 2.7e-52 | -6.3 | 7.3 | 3.6e-13 | -0.03 | 1.00 | 0.00 | FALSE |
| 30 | The Cancer Genome Atlas | Colon Adenocarcinoma | GLT25D2 | 0.10 | 0.05 | lasso | 2 | 0.04 | 3.9e-03 | 5.3 | -5.3 | 1.4e-07 | -0.12 | 0.17 | 0.05 | FALSE |
| 31 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | GLT25D2 | 0.05 | 0.01 | enet | 10 | 0.04 | 6.3e-05 | 5.3 | -11.3 | 1.8e-29 | -0.59 | 0.03 | 0.75 | FALSE |
| 32 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | GLT25D2 | 0.11 | 0.02 | blup | 119 | 0.05 | 5.1e-06 | -2.4 | -8.2 | 2.2e-16 | -0.54 | 0.13 | 0.37 | FALSE |
| 33 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | LAMC1 | 0.04 | 0.03 | blup | 108 | 0.04 | 1.2e-05 | 8.6 | -8.2 | 3.4e-16 | -0.07 | 0.07 | 0.92 | FALSE |
| 34 | The Cancer Genome Atlas | Brain Lower Grade Glioma | GLT25D2 | 0.15 | 0.10 | enet | 12 | 0.11 | 4.5e-12 | 5.5 | -7.1 | 9.4e-13 | 0.03 | 1.00 | 0.00 | TRUE |
| 35 | The Cancer Genome Atlas | Brain Lower Grade Glioma | TSEN15 | 0.11 | 0.08 | blup | 52 | 0.10 | 6.7e-12 | 12.3 | 9.8 | 6.6e-23 | 0.84 | 0.00 | 1.00 | FALSE |
| 36 | The Cancer Genome Atlas | Lung Adenocarcinoma | GLT25D2 | 0.06 | 0.04 | lasso | 1 | 0.03 | 1.7e-04 | 5.3 | -5.3 | 1.1e-07 | -0.12 | 0.21 | 0.04 | FALSE |
| 37 | The Cancer Genome Atlas | Thyroid Carcinoma | GLT25D2 | 0.09 | 0.00 | blup | 119 | 0.04 | 5.4e-05 | 1.7 | -6.1 | 1.1e-09 | -0.34 | 0.04 | 0.17 | FALSE |
| 38 | The Cancer Genome Atlas | Thyroid Carcinoma | LAMC1 | 0.06 | 0.04 | blup | 109 | 0.05 | 1.3e-05 | 8.3 | -8.2 | 2.7e-16 | -0.10 | 0.07 | 0.93 | FALSE |