Best TWAS P=6.53e-50 · Best GWAS P=2.6e-148 conditioned to 2.22e-44
| # | 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 | GTEx | Adipose Subcutaneous | BDNF-AS | 0.06 | 0.03 | lasso | 2 | 0.02 | 1.8e-02 | 7.3 | -7.5 | 8.7e-14 | -0.16 | 0.10 | 0.46 | FALSE |
| 2 | GTEx | Adipose Visceral Omentum | LIN7C | 0.25 | 0.18 | lasso | 8 | 0.22 | 1.1e-11 | 6.4 | 9.1 | 8.5e-20 | 0.07 | 0.98 | 0.00 | FALSE |
| 3 | GTEx | Adrenal Gland | LIN7C | 0.20 | 0.07 | enet | 14 | 0.11 | 1.3e-04 | 11.5 | 8.9 | 4.2e-19 | 0.12 | 0.12 | 0.05 | FALSE |
| 4 | GTEx | Artery Aorta | LIN7C | 0.14 | 0.09 | lasso | 3 | 0.06 | 1.9e-04 | 11.5 | -11.5 | 7.4e-31 | -0.22 | 0.54 | 0.02 | FALSE |
| 5 | GTEx | Artery Aorta | BDNF-AS | 0.09 | 0.02 | lasso | 4 | 0.05 | 9.0e-04 | 7.8 | -8.9 | 7.4e-19 | -0.29 | 0.17 | 0.20 | TRUE |
| 6 | GTEx | Artery Tibial | LIN7C | 0.24 | 0.18 | lasso | 7 | 0.17 | 2.6e-13 | 9.0 | 9.7 | 3.4e-22 | 0.15 | 1.00 | 0.00 | FALSE |
| 7 | GTEx | Brain Putamen basal ganglia | BDNF-AS | 0.22 | 0.17 | lasso | 4 | 0.13 | 5.5e-04 | 10.8 | -9.7 | 4.5e-22 | -0.25 | 0.23 | 0.08 | TRUE |
| 8 | GTEx | Cells Transformed fibroblasts | LIN7C | 0.26 | 0.22 | lasso | 6 | 0.25 | 1.4e-18 | 3.8 | 7.3 | 3.9e-13 | 0.08 | 1.00 | 0.00 | FALSE |
| 9 | GTEx | Colon Transverse | LIN7C | 0.13 | 0.04 | enet | 19 | 0.08 | 1.4e-04 | 11.9 | 14.9 | 6.5e-50 | 0.47 | 0.15 | 0.23 | TRUE |
| 10 | GTEx | Esophagus Mucosa | LIN7C | 0.10 | 0.05 | enet | 14 | 0.04 | 1.1e-03 | 9.0 | 11.7 | 1.1e-31 | 0.20 | 0.93 | 0.02 | FALSE |
| 11 | GTEx | Esophagus Muscularis | LIN7C | 0.14 | 0.08 | enet | 11 | 0.07 | 5.4e-05 | 11.9 | 8.4 | 3.9e-17 | 0.11 | 0.79 | 0.03 | FALSE |
| 12 | GTEx | Nerve Tibial | LIN7C | 0.18 | 0.08 | enet | 27 | 0.12 | 4.2e-09 | 3.8 | 6.4 | 1.2e-10 | 0.13 | 0.95 | 0.00 | TRUE |
| 13 | GTEx | Nerve Tibial | BDNF-AS | 0.15 | 0.12 | lasso | 3 | 0.12 | 1.7e-08 | 7.3 | -8.4 | 5.7e-17 | -0.16 | 0.99 | 0.00 | FALSE |
| 14 | GTEx | Skin Not Sun Exposed Suprapubic | LIN7C | 0.11 | 0.03 | lasso | 4 | 0.02 | 3.4e-02 | 11.9 | 12.3 | 7.5e-35 | 0.28 | 0.20 | 0.09 | FALSE |
| 15 | GTEx | Stomach | LIN7C | 0.17 | 0.08 | enet | 32 | 0.08 | 1.5e-04 | 9.0 | 7.9 | 2.4e-15 | 0.12 | 0.26 | 0.08 | FALSE |
| 16 | GTEx | Thyroid | LIN7C | 0.08 | 0.04 | lasso | 4 | 0.04 | 6.0e-04 | 3.8 | 6.4 | 1.4e-10 | 0.05 | 0.81 | 0.01 | FALSE |
| 17 | GTEx | Thyroid | BDNF-AS | 0.05 | 0.04 | lasso | 2 | 0.02 | 1.3e-02 | -7.7 | -8.4 | 5.0e-17 | -0.07 | 0.70 | 0.04 | FALSE |
| 18 | METSIM | Adipose | LGR4 | 0.03 | 0.01 | enet | 7 | 0.02 | 4.6e-04 | 11.6 | 7.8 | 5.3e-15 | 0.30 | 0.26 | 0.02 | FALSE |
| 19 | ROSMAP | Brain Pre-frontal Cortex | BBOX1 | 0.12 | 0.03 | enet | 24 | 0.06 | 1.2e-07 | 5.0 | -6.7 | 2.4e-11 | -0.09 | 0.99 | 0.00 | TRUE |
| 20 | ROSMAP | Brain Pre-frontal Cortex | LIN7C | 0.10 | 0.09 | lasso | 2 | 0.07 | 8.1e-10 | 11.5 | 11.4 | 3.8e-30 | 0.16 | 1.00 | 0.00 | FALSE |
| 21 | ROSMAP | Brain Pre-frontal Cortex | BDNF-AS | 0.06 | 0.06 | lasso | 3 | 0.07 | 6.0e-09 | 9.0 | -9.4 | 8.2e-21 | -0.16 | 1.00 | 0.00 | FALSE |
| 22 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | LIN7C | 0.04 | 0.01 | lasso | 3 | 0.02 | 1.0e-02 | -7.7 | 7.1 | 1.2e-12 | 0.15 | 0.01 | 0.93 | FALSE |
| 23 | The Cancer Genome Atlas | Colon Adenocarcinoma | LIN7C | 0.10 | 0.03 | blup | 32 | 0.08 | 2.8e-05 | 2.8 | 7.3 | 2.9e-13 | 0.03 | 0.02 | 0.89 | TRUE |
| 24 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | BDNFOS | 0.09 | 0.09 | lasso | 5 | 0.10 | 7.6e-11 | 8.0 | -8.4 | 5.6e-17 | -0.16 | 0.19 | 0.81 | FALSE |
| 25 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | LIN7C | 0.05 | 0.02 | lasso | 3 | 0.03 | 2.9e-04 | 2.8 | 5.8 | 7.7e-09 | 0.06 | 0.02 | 0.94 | TRUE |
| 26 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | BDNFOS | 0.08 | 0.05 | lasso | 3 | 0.07 | 7.8e-05 | -6.0 | -8.2 | 2.8e-16 | -0.10 | 0.02 | 0.96 | FALSE |
| 27 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | LIN7C | 0.05 | 0.03 | blup | 33 | 0.02 | 2.3e-02 | 9.0 | 8.8 | 1.2e-18 | 0.18 | 0.01 | 0.71 | FALSE |
| 28 | The Cancer Genome Atlas | Brain Lower Grade Glioma | BDNFOS | 0.15 | 0.04 | enet | 26 | 0.09 | 2.2e-10 | -8.1 | -8.0 | 1.6e-15 | -0.07 | 0.87 | 0.13 | FALSE |
| 29 | The Cancer Genome Atlas | Brain Lower Grade Glioma | LIN7C | 0.09 | 0.12 | lasso | 2 | 0.12 | 2.6e-13 | 11.5 | 10.1 | 6.0e-24 | 0.14 | 0.02 | 0.98 | TRUE |
| 30 | The Cancer Genome Atlas | Lung Adenocarcinoma | LIN7C | 0.02 | 0.02 | enet | 3 | 0.02 | 5.6e-03 | 9.0 | 8.0 | 1.1e-15 | 0.11 | 0.01 | 0.73 | FALSE |
| 31 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | LIN7C | 0.06 | 0.01 | enet | 9 | 0.03 | 5.6e-04 | 11.4 | 9.9 | 3.7e-23 | 0.23 | 0.00 | 0.90 | FALSE |
| 32 | The Cancer Genome Atlas | Prostate Adenocarcinoma | BDNFOS | 0.03 | 0.01 | blup | 83 | 0.02 | 1.4e-03 | 8.0 | -8.5 | 1.7e-17 | -0.17 | 0.29 | 0.16 | FALSE |
| 33 | The Cancer Genome Atlas | Soft Tissue Sarcoma | BDNFOS | 0.06 | 0.02 | blup | 87 | 0.01 | 4.4e-02 | -7.7 | -8.2 | 2.0e-16 | -0.11 | 0.06 | 0.49 | FALSE |
| 34 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | BDNFOS | 0.19 | 0.10 | blup | 85 | 0.15 | 5.2e-06 | 7.3 | -8.2 | 3.1e-16 | -0.10 | 0.03 | 0.91 | FALSE |
| 35 | The Cancer Genome Atlas | Thyroid Carcinoma | BDNFOS | 0.12 | 0.15 | lasso | 4 | 0.16 | 3.9e-15 | 8.0 | -8.5 | 2.3e-17 | -0.15 | 0.76 | 0.24 | FALSE |
| 36 | The Cancer Genome Atlas | Thyroid Carcinoma | LIN7C | 0.09 | 0.10 | enet | 7 | 0.09 | 8.1e-09 | 11.5 | 11.7 | 1.1e-31 | 0.16 | 0.05 | 0.95 | FALSE |