Best TWAS P=3.1e-17 · Best GWAS P=6.69e-19 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 | C11orf1 | 0.06 | 0.06 | lasso | 5 | 0.05 | 4.4e-07 | 5.4 | -5.6 | 2.6e-08 | -0.66 | 0.97 | 0.03 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | LAYN | 0.19 | 0.24 | bslmm | 398 | 0.25 | 8.0e-30 | 6.8 | -6.8 | 7.6e-12 | -0.82 | 1.00 | 0.00 | FALSE |
| 3 | GTEx | Brain Putamen basal ganglia | LAYN | 0.24 | 0.12 | lasso | 7 | 0.13 | 6.2e-04 | 6.4 | -6.9 | 6.0e-12 | -0.87 | 0.03 | 0.84 | FALSE |
| 4 | GTEx | Esophagus Mucosa | SIK2 | 0.13 | 0.03 | lasso | 4 | 0.02 | 2.2e-02 | 8.7 | 8.4 | 3.1e-17 | 0.97 | 0.01 | 0.96 | TRUE |
| 5 | GTEx | Muscle Skeletal | C11orf1 | 0.04 | 0.05 | lasso | 4 | 0.02 | 3.5e-03 | 5.6 | -5.6 | 2.1e-08 | -0.67 | 0.36 | 0.33 | FALSE |
| 6 | GTEx | Skin Not Sun Exposed Suprapubic | CRYAB | 0.12 | 0.10 | lasso | 5 | 0.07 | 7.7e-05 | 5.6 | 5.6 | 2.1e-08 | 0.67 | 0.81 | 0.10 | FALSE |
| 7 | GTEx | Skin Sun Exposed Lower leg | CRYAB | 0.07 | 0.04 | lasso | 10 | 0.02 | 1.3e-02 | 5.6 | 5.7 | 1.4e-08 | 0.66 | 0.35 | 0.27 | FALSE |
| 8 | GTEx | Skin Sun Exposed Lower leg | C11orf1 | 0.06 | 0.05 | lasso | 2 | 0.02 | 9.6e-03 | 5.6 | -5.6 | 2.4e-08 | -0.66 | 0.29 | 0.39 | FALSE |
| 9 | GTEx | Testis | PPP2R1B | 0.34 | 0.21 | lasso | 10 | 0.36 | 1.5e-16 | 7.1 | -5.8 | 8.3e-09 | -0.72 | 1.00 | 0.00 | FALSE |
| 10 | ROSMAP | Brain Pre-frontal Cortex | C11orf1 | 0.04 | 0.02 | lasso | 2 | 0.03 | 2.1e-04 | 5.6 | -5.6 | 2.7e-08 | -0.66 | 0.84 | 0.14 | FALSE |
| 11 | ROSMAP | Brain Pre-frontal Cortex | LAYN | 0.19 | 0.23 | enet | 26 | 0.25 | 2.9e-32 | 6.8 | -7.2 | 4.4e-13 | -0.89 | 1.00 | 0.00 | FALSE |
| 12 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CRYAB | 0.03 | 0.02 | lasso | 1 | 0.01 | 2.2e-03 | 5.6 | 5.6 | 2.4e-08 | 0.67 | 0.00 | 0.96 | FALSE |
| 13 | The Cancer Genome Atlas | Breast Invasive Carcinoma | LAYN | 0.02 | 0.03 | blup | 33 | 0.03 | 3.7e-06 | 6.8 | 7.3 | 2.3e-13 | 0.86 | 0.20 | 0.80 | FALSE |
| 14 | The Cancer Genome Atlas | Breast Invasive Carcinoma | SIK2 | 0.04 | 0.01 | blup | 35 | 0.01 | 6.7e-03 | 7.6 | 7.5 | 5.9e-14 | 0.85 | 0.04 | 0.79 | FALSE |
| 15 | The Cancer Genome Atlas | Colon Adenocarcinoma | C11orf1 | 0.11 | 0.07 | enet | 2 | 0.08 | 3.4e-05 | 5.6 | -5.3 | 9.4e-08 | -0.66 | 0.00 | 0.97 | FALSE |
| 16 | The Cancer Genome Atlas | Colon Adenocarcinoma | FDXACB1 | 0.08 | 0.07 | lasso | 3 | 0.05 | 5.6e-04 | 5.6 | -5.7 | 1.0e-08 | -0.67 | 0.00 | 0.97 | FALSE |
| 17 | The Cancer Genome Atlas | Brain Lower Grade Glioma | C11orf1 | 0.07 | 0.06 | enet | 3 | 0.08 | 7.0e-09 | 5.6 | -5.6 | 2.7e-08 | -0.63 | 0.00 | 1.00 | FALSE |
| 18 | The Cancer Genome Atlas | Brain Lower Grade Glioma | FDXACB1 | 0.13 | 0.05 | lasso | 1 | 0.05 | 2.4e-06 | 5.6 | -5.6 | 2.4e-08 | -0.67 | 0.00 | 1.00 | FALSE |
| 19 | The Cancer Genome Atlas | Lung Adenocarcinoma | HSPB2 | 0.03 | 0.01 | blup | 5 | 0.03 | 2.3e-04 | 5.6 | 5.4 | 7.5e-08 | 0.64 | 0.00 | 0.92 | FALSE |
| 20 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | FDXACB1 | 0.03 | 0.02 | lasso | 1 | 0.02 | 5.9e-03 | 5.6 | -5.6 | 2.4e-08 | -0.67 | 0.00 | 0.88 | FALSE |
| 21 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | LAYN | 0.13 | 0.07 | enet | 8 | 0.07 | 9.9e-04 | 6.4 | 7.5 | 5.6e-14 | 0.77 | 0.02 | 0.64 | FALSE |
| 22 | The Cancer Genome Atlas | Prostate Adenocarcinoma | SIK2 | 0.05 | 0.06 | lasso | 1 | 0.05 | 2.6e-06 | 7.6 | 7.5 | 4.3e-14 | 0.88 | 0.20 | 0.80 | FALSE |