Best TWAS P=3.13e-39 · Best GWAS P=2.82e-99 conditioned to NaN
| # | 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 | Brain Cortex | HAPLN3 | 0.40 | -0.01 | lasso | 5 | -0.01 | 6.0e-01 | -4.060 | -8.9 | 5.8e-19 | -0.04 | 0.05 | 0.09 | TRUE |
| 2 | GTEx | Cells Transformed fibroblasts | IQGAP1 | 0.13 | 0.06 | enet | 19 | 0.11 | 9.2e-09 | 4.769 | 6.2 | 7.7e-10 | 0.05 | 0.06 | 0.92 | TRUE |
| 3 | GTEx | Colon Transverse | MFGE8 | 0.17 | 0.05 | lasso | 2 | 0.05 | 3.0e-03 | -6.519 | 6.6 | 3.6e-11 | -0.01 | 0.23 | 0.09 | TRUE |
| 4 | GTEx | Esophagus Gastroesophageal Junction | ZNF774 | 0.16 | 0.16 | lasso | 2 | 0.11 | 7.8e-05 | 6.288 | 6.4 | 1.7e-10 | 0.05 | 0.02 | 0.96 | FALSE |
| 5 | GTEx | Esophagus Mucosa | CRTC3 | 0.08 | 0.07 | enet | 7 | 0.04 | 6.1e-04 | 5.996 | -5.7 | 9.7e-09 | -0.04 | 0.04 | 0.96 | FALSE |
| 6 | GTEx | Heart Left Ventricle | MFGE8 | 0.11 | 0.03 | lasso | 6 | 0.05 | 1.8e-03 | -5.929 | 6.4 | 1.4e-10 | 0.03 | 0.11 | 0.04 | TRUE |
| 7 | GTEx | Lung | MFGE8 | 0.12 | 0.04 | lasso | 5 | 0.06 | 1.4e-05 | -8.187 | 7.2 | 4.4e-13 | -0.03 | 0.78 | 0.01 | TRUE |
| 8 | GTEx | Lung | ZNF774 | 0.06 | 0.09 | enet | 6 | 0.03 | 1.5e-03 | 6.288 | 5.8 | 5.9e-09 | 0.04 | 0.02 | 0.98 | FALSE |
| 9 | GTEx | Nerve Tibial | MFGE8 | 0.21 | 0.07 | enet | 17 | 0.12 | 1.0e-08 | -4.982 | 7.2 | 6.0e-13 | 0.01 | 0.98 | 0.00 | TRUE |
| 10 | GTEx | Skin Sun Exposed Lower leg | CRTC3 | 0.10 | 0.08 | lasso | 3 | 0.05 | 7.5e-05 | 6.082 | -6.2 | 6.0e-10 | -0.07 | 0.04 | 0.96 | TRUE |
| 11 | GTEx | Stomach | MRPS11 | 0.35 | -0.01 | lasso | 11 | 0.01 | 1.1e-01 | -6.447 | -6.7 | 1.5e-11 | 0.01 | 0.07 | 0.06 | TRUE |
| 12 | GTEx | Testis | FANCI | 0.19 | 0.04 | enet | 21 | 0.09 | 1.3e-04 | -4.253 | -8.5 | 2.0e-17 | -0.08 | 0.21 | 0.04 | TRUE |
| 13 | GTEx | Testis | ISG20 | 0.39 | 0.23 | enet | 41 | 0.26 | 4.0e-12 | 4.945 | -5.4 | 8.3e-08 | 0.00 | 0.99 | 0.00 | TRUE |
| 14 | GTEx | Whole Blood | MFGE8 | 0.12 | 0.14 | lasso | 4 | 0.13 | 9.3e-12 | -6.911 | -7.4 | 1.3e-13 | -0.01 | 1.00 | 0.00 | TRUE |
| 15 | METSIM | Adipose | IQGAP1 | 0.11 | 0.08 | enet | 32 | 0.12 | 3.9e-17 | 6.423 | 5.8 | 7.5e-09 | 0.04 | 0.02 | 0.98 | FALSE |
| 16 | METSIM | Adipose | POLG | 0.04 | 0.02 | blup | 469 | 0.03 | 4.9e-05 | -4.280 | -7.2 | 6.0e-13 | -0.08 | 0.96 | 0.00 | TRUE |
| 17 | NTR | Blood | IQGAP1 | 0.03 | 0.04 | enet | 10 | 0.04 | 1.5e-12 | 6.247 | 6.5 | 7.9e-11 | 0.06 | 0.02 | 0.98 | TRUE |
| 18 | NTR | Blood | ZNF710 | 0.02 | 0.00 | bslmm | 443 | 0.01 | 1.5e-04 | -4.120 | -5.3 | 1.4e-07 | 0.05 | 0.14 | 0.02 | TRUE |
| 19 | YFS | Blood | BLM | 0.41 | 0.35 | enet | 13 | 0.36 | 2.7e-122 | 5.917 | 6.1 | 1.4e-09 | -0.01 | 0.15 | 0.85 | FALSE |
| 20 | YFS | Blood | DET1 | 0.17 | 0.20 | lasso | 4 | 0.20 | 1.4e-62 | -6.364 | -6.4 | 1.4e-10 | 0.02 | 1.00 | 0.00 | TRUE |
| 21 | YFS | Blood | FURIN | 0.11 | 0.03 | enet | 37 | 0.06 | 8.3e-19 | 2.448 | 5.5 | 4.2e-08 | 0.08 | 1.00 | 0.00 | TRUE |
| 22 | YFS | Blood | IQGAP1 | 0.18 | 0.17 | enet | 46 | 0.20 | 5.8e-65 | 4.361 | 5.8 | 8.2e-09 | 0.06 | 1.00 | 0.00 | TRUE |
| 23 | YFS | Blood | MRPS11 | 0.03 | 0.00 | bslmm | 436 | 0.01 | 9.6e-05 | 0.096 | -6.2 | 4.4e-10 | 0.07 | 0.13 | 0.05 | FALSE |
| 24 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | IQGAP1 | 0.04 | 0.03 | lasso | 4 | 0.02 | 6.5e-03 | 6.247 | 6.3 | 2.3e-10 | 0.06 | 0.02 | 0.87 | FALSE |
| 25 | The Cancer Genome Atlas | Breast Invasive Carcinoma | DET1 | 0.02 | 0.02 | blup | 48 | 0.01 | 8.6e-04 | 5.086 | -5.2 | 1.5e-07 | 0.01 | 0.07 | 0.84 | TRUE |
| 26 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | IQGAP1 | 0.15 | 0.09 | lasso | 4 | 0.12 | 1.9e-06 | 6.029 | 5.3 | 1.4e-07 | 0.07 | 0.01 | 0.98 | TRUE |
| 27 | The Cancer Genome Atlas | Colon Adenocarcinoma | HAPLN3 | 0.14 | 0.04 | lasso | 4 | 0.08 | 1.7e-05 | 2.561 | -13.1 | 3.1e-39 | 0.43 | 0.05 | 0.58 | TRUE |
| 28 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | C15orf42 | 0.02 | 0.01 | lasso | 2 | 0.02 | 9.7e-04 | 7.065 | 7.1 | 9.6e-13 | -0.01 | 0.00 | 0.95 | TRUE |
| 29 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | IQGAP1 | 0.07 | 0.06 | blup | 94 | 0.07 | 9.5e-09 | 6.361 | 5.1 | 3.0e-07 | 0.04 | 0.01 | 0.99 | FALSE |
| 30 | The Cancer Genome Atlas | Brain Lower Grade Glioma | C15orf42 | 0.07 | 0.07 | lasso | 5 | 0.06 | 9.0e-08 | 6.623 | 6.6 | 4.5e-11 | -0.02 | 0.02 | 0.98 | FALSE |
| 31 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CRTC3 | 0.03 | 0.01 | blup | 78 | 0.01 | 4.2e-02 | 4.881 | -5.9 | 3.4e-09 | -0.04 | 0.02 | 0.59 | FALSE |
| 32 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ZNF774 | 0.06 | 0.06 | lasso | 3 | 0.04 | 1.2e-05 | 6.288 | -6.1 | 1.4e-09 | -0.05 | 0.00 | 1.00 | FALSE |
| 33 | The Cancer Genome Atlas | Lung Adenocarcinoma | IQGAP1 | 0.06 | 0.04 | blup | 94 | 0.03 | 5.8e-05 | 5.303 | 6.3 | 3.1e-10 | 0.07 | 0.06 | 0.94 | FALSE |
| 34 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | C15orf42 | 0.09 | 0.08 | lasso | 1 | 0.08 | 3.2e-04 | 6.932 | 6.9 | 4.1e-12 | -0.03 | 0.01 | 0.91 | TRUE |
| 35 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | MFGE8 | 0.18 | 0.01 | lasso | 4 | 0.04 | 9.9e-03 | 7.662 | -10.6 | 2.4e-26 | -0.01 | 0.04 | 0.05 | TRUE |
| 36 | The Cancer Genome Atlas | Stomach Adenocarcinoma | IQGAP1 | 0.12 | 0.07 | lasso | 4 | 0.07 | 1.4e-05 | 6.423 | 5.9 | 3.0e-09 | 0.04 | 0.01 | 0.99 | FALSE |