Best TWAS P=1.29e-30 · Best GWAS P=1.08e-30 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 | ARFGEF2 | 0.09 | 0.05 | lasso | 8 | 0.10 | 9.2e-13 | 9.8 | -10.5 | 5.3e-26 | -0.76 | 0.48 | 0.52 | TRUE |
| 2 | CommonMind | Brain Pre-frontal Cortex | CSE1L | 0.08 | 0.07 | bslmm | 503 | 0.05 | 1.7e-06 | -2.6 | -5.4 | 5.8e-08 | -0.55 | 1.00 | 0.00 | FALSE |
| 3 | GTEx | Cells Transformed fibroblasts | STAU1 | 0.08 | 0.03 | lasso | 6 | 0.02 | 2.3e-02 | 7.3 | 8.3 | 6.6e-17 | 0.79 | 0.13 | 0.64 | FALSE |
| 4 | GTEx | Cells Transformed fibroblasts | ZFAS1 | 0.06 | 0.05 | enet | 5 | 0.03 | 2.6e-03 | -7.3 | 7.2 | 4.2e-13 | 0.28 | 0.37 | 0.34 | FALSE |
| 5 | GTEx | Colon Sigmoid | ARFGEF2 | 0.15 | 0.12 | lasso | 1 | 0.07 | 2.3e-03 | 6.7 | -6.7 | 1.8e-11 | -0.57 | 0.06 | 0.53 | FALSE |
| 6 | GTEx | Colon Sigmoid | CSE1L | 0.18 | 0.12 | lasso | 11 | 0.09 | 4.4e-04 | 7.6 | -7.9 | 3.7e-15 | -0.75 | 0.09 | 0.86 | FALSE |
| 7 | GTEx | Colon Transverse | ARFGEF2 | 0.11 | 0.07 | enet | 12 | 0.09 | 2.9e-05 | -2.5 | -6.6 | 3.0e-11 | -0.74 | 0.55 | 0.21 | FALSE |
| 8 | GTEx | Esophagus Mucosa | CSE1L | 0.09 | 0.06 | lasso | 4 | 0.06 | 6.9e-05 | 7.7 | -7.2 | 7.3e-13 | -0.75 | 0.16 | 0.80 | FALSE |
| 9 | GTEx | Esophagus Mucosa | ZFAS1 | 0.15 | 0.01 | enet | 16 | 0.01 | 8.9e-02 | 11.5 | 8.8 | 2.0e-18 | 0.73 | 0.01 | 0.96 | FALSE |
| 10 | GTEx | Lung | CSE1L | 0.10 | 0.09 | lasso | 5 | 0.08 | 6.6e-07 | 7.3 | -7.0 | 1.8e-12 | -0.68 | 0.95 | 0.03 | FALSE |
| 11 | GTEx | Muscle Skeletal | PREX1 | 0.14 | 0.09 | enet | 23 | 0.13 | 2.5e-12 | 7.6 | 5.8 | 8.2e-09 | 0.45 | 0.99 | 0.01 | FALSE |
| 12 | GTEx | Skin Not Sun Exposed Suprapubic | ZFAS1 | 0.16 | 0.04 | enet | 19 | 0.07 | 1.0e-04 | 7.4 | 8.1 | 4.5e-16 | 0.67 | 0.13 | 0.72 | FALSE |
| 13 | GTEx | Skin Sun Exposed Lower leg | CSE1L | 0.08 | 0.03 | lasso | 2 | 0.03 | 9.5e-04 | 7.9 | -7.5 | 8.9e-14 | -0.75 | 0.52 | 0.06 | FALSE |
| 14 | GTEx | Skin Sun Exposed Lower leg | ZFAS1 | 0.07 | 0.03 | enet | 14 | 0.05 | 5.8e-05 | 11.5 | 9.4 | 5.8e-21 | 0.85 | 0.01 | 0.99 | FALSE |
| 15 | GTEx | Testis | ARFGEF2 | 0.20 | 0.20 | lasso | 7 | 0.24 | 5.4e-11 | 7.3 | -9.0 | 2.3e-19 | -0.85 | 0.75 | 0.25 | FALSE |
| 16 | GTEx | Whole Blood | ZFAS1 | 0.07 | 0.06 | lasso | 4 | 0.05 | 1.3e-05 | -6.9 | -6.8 | 9.6e-12 | -0.19 | 1.00 | 0.00 | TRUE |
| 17 | METSIM | Adipose | ARFGEF2 | 0.04 | 0.03 | lasso | 12 | 0.02 | 9.8e-05 | 10.1 | -10.9 | 7.6e-28 | -0.96 | 0.02 | 0.98 | FALSE |
| 18 | NTR | Blood | NCRNA00275 | 0.07 | 0.06 | lasso | 4 | 0.08 | 9.7e-25 | -5.9 | -9.1 | 1.0e-19 | -0.49 | 1.00 | 0.00 | FALSE |
| 19 | NTR | Blood | SNORD12B | 0.03 | 0.05 | lasso | 8 | 0.05 | 1.9e-14 | 11.5 | -11.4 | 7.2e-30 | -0.98 | 0.01 | 0.99 | FALSE |
| 20 | ROSMAP | Brain Pre-frontal Cortex | CSE1L | 0.04 | 0.02 | enet | 16 | 0.02 | 2.8e-03 | 6.7 | -8.0 | 1.9e-15 | -0.73 | 0.07 | 0.92 | FALSE |
| 21 | YFS | Blood | CSE1L | 0.06 | 0.05 | enet | 21 | 0.06 | 2.0e-19 | -2.5 | -5.8 | 4.9e-09 | -0.58 | 1.00 | 0.00 | FALSE |
| 22 | YFS | Blood | ZNFX1 | 0.06 | 0.05 | lasso | 3 | 0.05 | 1.4e-16 | 3.7 | -5.5 | 3.1e-08 | -0.54 | 1.00 | 0.00 | TRUE |
| 23 | The Cancer Genome Atlas | Breast Invasive Carcinoma | STAU1 | 0.01 | 0.01 | blup | 54 | 0.01 | 6.1e-03 | -7.2 | -8.0 | 1.3e-15 | -0.44 | 0.03 | 0.12 | FALSE |
| 24 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | CSE1L | 0.03 | 0.05 | lasso | 1 | 0.03 | 9.3e-05 | 7.3 | -7.3 | 3.4e-13 | -0.70 | 0.30 | 0.62 | FALSE |
| 25 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CSE1L | 0.05 | 0.07 | blup | 50 | 0.07 | 3.2e-08 | 7.6 | -7.5 | 6.0e-14 | -0.75 | 0.40 | 0.60 | FALSE |
| 26 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ARFGEF2 | 0.05 | 0.04 | lasso | 5 | 0.05 | 3.2e-06 | 9.8 | -9.6 | 5.6e-22 | -0.88 | 0.00 | 1.00 | TRUE |
| 27 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | C20orf199 | 0.04 | 0.00 | enet | 8 | 0.02 | 6.4e-03 | 3.7 | 7.0 | 2.8e-12 | 0.63 | 0.01 | 0.51 | FALSE |
| 28 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | C20orf199 | 0.05 | 0.06 | lasso | 4 | 0.06 | 1.0e-04 | 11.5 | 11.5 | 1.3e-30 | 0.99 | 0.00 | 0.96 | TRUE |
| 29 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | CSE1L | 0.13 | 0.03 | blup | 50 | 0.07 | 1.4e-03 | 7.3 | -6.2 | 6.0e-10 | -0.55 | 0.03 | 0.26 | FALSE |
| 30 | The Cancer Genome Atlas | Thyroid Carcinoma | ARFGEF2 | 0.06 | 0.01 | blup | 79 | 0.03 | 4.2e-04 | -4.2 | -6.8 | 9.8e-12 | -0.39 | 0.75 | 0.05 | FALSE |
| 31 | The Cancer Genome Atlas | Thyroid Carcinoma | DDX27 | 0.08 | 0.05 | lasso | 3 | 0.05 | 1.9e-05 | 11.5 | 9.5 | 1.5e-21 | 0.91 | 0.01 | 0.99 | FALSE |