Best TWAS P=4.47e-35 · Best GWAS P=3.88e-53 conditioned to 2.37e-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 | CommonMind | Brain Pre-frontal Cortex | NSUN6 | 0.10 | 0.09 | lasso | 3 | 0.09 | 4.5e-11 | -6.6 | 6.7 | 2.9e-11 | -0.14 | 1.00 | 0.00 | FALSE |
| 2 | GTEx | Adipose Subcutaneous | NSUN6 | 0.23 | 0.24 | lasso | 3 | 0.24 | 3.7e-19 | -7.1 | 7.0 | 3.5e-12 | -0.13 | 1.00 | 0.00 | FALSE |
| 3 | GTEx | Adipose Visceral Omentum | NSUN6 | 0.14 | 0.08 | enet | 9 | 0.08 | 5.2e-05 | -7.1 | 6.5 | 8.2e-11 | -0.11 | 0.87 | 0.01 | FALSE |
| 4 | GTEx | Artery Aorta | RP11-499P20.2 | 0.19 | 0.08 | enet | 17 | 0.13 | 1.7e-07 | 3.6 | 5.8 | 6.1e-09 | -0.12 | 1.00 | 0.00 | FALSE |
| 5 | GTEx | Artery Aorta | NSUN6 | 0.24 | 0.23 | lasso | 6 | 0.22 | 2.8e-12 | -6.4 | 7.8 | 4.4e-15 | -0.13 | 1.00 | 0.00 | FALSE |
| 6 | GTEx | Artery Tibial | NSUN6 | 0.18 | 0.11 | lasso | 8 | 0.10 | 4.9e-08 | -6.4 | 10.2 | 1.6e-24 | -0.14 | 1.00 | 0.00 | FALSE |
| 7 | GTEx | Brain Caudate basal ganglia | RP11-499P20.2 | 0.40 | 0.08 | lasso | 7 | 0.08 | 3.4e-03 | 4.4 | 8.0 | 1.4e-15 | -0.28 | 0.13 | 0.05 | FALSE |
| 8 | GTEx | Brain Caudate basal ganglia | NSUN6 | 0.29 | 0.22 | lasso | 7 | 0.22 | 6.4e-07 | -7.1 | 6.9 | 6.9e-12 | -0.12 | 0.66 | 0.12 | FALSE |
| 9 | GTEx | Brain Cerebellar Hemisphere | RP11-499P20.2 | 0.38 | -0.01 | enet | 32 | 0.01 | 1.6e-01 | 2.9 | 9.8 | 1.6e-22 | -0.13 | 0.11 | 0.06 | FALSE |
| 10 | GTEx | Brain Frontal Cortex BA9 | NSUN6 | 0.39 | 0.03 | lasso | 9 | 0.09 | 2.4e-03 | -6.4 | 7.3 | 2.9e-13 | -0.27 | 0.20 | 0.06 | FALSE |
| 11 | GTEx | Brain Nucleus accumbens basal ganglia | RP11-499P20.2 | 0.37 | 0.01 | enet | 41 | -0.01 | 7.2e-01 | 3.7 | 7.5 | 8.7e-14 | -0.29 | 0.08 | 0.08 | FALSE |
| 12 | GTEx | Brain Nucleus accumbens basal ganglia | NSUN6 | 0.25 | 0.14 | lasso | 6 | 0.16 | 4.0e-05 | -6.6 | 6.3 | 2.8e-10 | -0.19 | 0.25 | 0.20 | FALSE |
| 13 | GTEx | Cells Transformed fibroblasts | RP11-499P20.2 | 0.12 | 0.05 | enet | 24 | 0.06 | 3.8e-05 | 3.8 | 5.9 | 4.2e-09 | -0.16 | 0.88 | 0.00 | FALSE |
| 14 | GTEx | Colon Sigmoid | NSUN6 | 0.27 | 0.14 | lasso | 4 | 0.14 | 1.3e-05 | -7.1 | 6.5 | 7.7e-11 | -0.11 | 0.33 | 0.03 | FALSE |
| 15 | GTEx | Esophagus Gastroesophageal Junction | NSUN6 | 0.22 | 0.03 | lasso | 7 | 0.03 | 3.1e-02 | -6.5 | 9.6 | 1.1e-21 | -0.11 | 0.20 | 0.11 | TRUE |
| 16 | GTEx | Heart Atrial Appendage | NSUN6 | 0.16 | 0.00 | lasso | 6 | 0.01 | 7.2e-02 | -7.1 | -7.2 | 6.2e-13 | 0.14 | 0.19 | 0.06 | FALSE |
| 17 | GTEx | Lung | NSUN6 | 0.32 | 0.15 | lasso | 10 | 0.22 | 7.3e-17 | 3.7 | 6.1 | 1.1e-09 | -0.06 | 1.00 | 0.00 | FALSE |
| 18 | GTEx | Nerve Tibial | NSUN6 | 0.37 | 0.35 | enet | 36 | 0.36 | 1.7e-26 | -7.1 | 8.2 | 3.3e-16 | -0.10 | 1.00 | 0.00 | FALSE |
| 19 | GTEx | Skin Not Sun Exposed Suprapubic | RP11-499P20.2 | 0.31 | 0.22 | lasso | 7 | 0.24 | 1.8e-13 | 3.7 | 5.1 | 2.7e-07 | -0.05 | 1.00 | 0.00 | FALSE |
| 20 | GTEx | Skin Not Sun Exposed Suprapubic | NSUN6 | 0.14 | 0.10 | enet | 32 | 0.09 | 1.0e-05 | -6.5 | 7.6 | 2.2e-14 | -0.18 | 0.83 | 0.02 | FALSE |
| 21 | GTEx | Skin Sun Exposed Lower leg | NSUN6 | 0.07 | 0.02 | enet | 9 | 0.03 | 2.4e-03 | -7.1 | 5.8 | 6.8e-09 | -0.08 | 0.63 | 0.02 | FALSE |
| 22 | GTEx | Spleen | NSUN6 | 0.42 | 0.31 | enet | 14 | 0.30 | 2.3e-08 | -7.1 | 6.4 | 1.9e-10 | -0.10 | 0.93 | 0.00 | FALSE |
| 23 | GTEx | Thyroid | CACNB2 | 0.20 | 0.12 | enet | 26 | 0.11 | 1.1e-08 | 1.2 | 6.0 | 1.7e-09 | -0.27 | 0.99 | 0.01 | FALSE |
| 24 | GTEx | Thyroid | NSUN6 | 0.13 | 0.11 | lasso | 2 | 0.12 | 2.1e-09 | -7.1 | 6.2 | 5.4e-10 | -0.10 | 1.00 | 0.00 | FALSE |
| 25 | GTEx | Whole Blood | NSUN6 | 0.06 | 0.04 | lasso | 2 | 0.04 | 2.4e-04 | -7.1 | 8.4 | 4.8e-17 | -0.12 | 0.60 | 0.05 | FALSE |
| 26 | METSIM | Adipose | NSUN6 | 0.18 | 0.23 | enet | 21 | 0.23 | 1.3e-33 | -7.1 | 6.9 | 5.0e-12 | -0.12 | 1.00 | 0.00 | FALSE |
| 27 | NTR | Blood | CACNB2 | 0.03 | 0.04 | enet | 4 | 0.04 | 5.9e-12 | -6.6 | 6.5 | 8.7e-11 | -0.14 | 1.00 | 0.00 | FALSE |
| 28 | NTR | Blood | NSUN6 | 0.06 | 0.05 | lasso | 6 | 0.05 | 2.1e-15 | -7.1 | 6.3 | 2.3e-10 | -0.10 | 1.00 | 0.00 | FALSE |
| 29 | ROSMAP | Brain Pre-frontal Cortex | NSUN6 | 0.23 | 0.23 | lasso | 7 | 0.22 | 3.8e-28 | -7.0 | 6.5 | 7.1e-11 | -0.11 | 1.00 | 0.00 | FALSE |
| 30 | YFS | Blood | NSUN6 | 0.07 | 0.07 | enet | 21 | 0.08 | 2.8e-25 | -7.1 | 7.4 | 1.5e-13 | -0.12 | 1.00 | 0.00 | FALSE |
| 31 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | NSUN6 | 0.06 | 0.01 | blup | 119 | 0.04 | 5.4e-04 | -3.8 | 6.1 | 8.9e-10 | -0.16 | 0.14 | 0.17 | FALSE |
| 32 | The Cancer Genome Atlas | Colon Adenocarcinoma | NSUN6 | 0.08 | 0.01 | blup | 119 | 0.05 | 5.6e-04 | -7.1 | 8.0 | 9.2e-16 | -0.23 | 0.08 | 0.34 | FALSE |
| 33 | The Cancer Genome Atlas | Glioblastoma Multiforme | NSUN6 | 0.24 | 0.12 | enet | 15 | 0.16 | 1.5e-05 | 3.7 | 6.7 | 1.8e-11 | -0.11 | 0.50 | 0.18 | FALSE |
| 34 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CACNB2 | 0.05 | 0.05 | enet | 4 | 0.04 | 8.8e-06 | 11.0 | 12.4 | 4.5e-35 | -0.03 | 0.99 | 0.00 | TRUE |
| 35 | The Cancer Genome Atlas | Brain Lower Grade Glioma | NSUN6 | 0.14 | 0.15 | lasso | 6 | 0.14 | 1.5e-15 | -7.1 | 6.8 | 9.8e-12 | -0.12 | 1.00 | 0.00 | FALSE |
| 36 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | NSUN6 | 0.03 | 0.02 | lasso | 4 | 0.02 | 4.0e-03 | -6.6 | 6.2 | 7.7e-10 | -0.11 | 0.26 | 0.18 | FALSE |
| 37 | The Cancer Genome Atlas | Thyroid Carcinoma | NSUN6 | 0.14 | 0.11 | lasso | 6 | 0.08 | 1.9e-08 | -6.4 | 6.2 | 5.2e-10 | -0.13 | 1.00 | 0.00 | FALSE |