Best TWAS P=3.97e-16 · Best GWAS P=6.88e-25 conditioned to 1.12e-14
| # | 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 | HAPLN4 | 0.07 | 0.10 | lasso | 6 | 0.10 | 5.3e-12 | -7.25 | -6.8 | 8.0e-12 | -0.05 | 0.01 | 0.99 | FALSE |
| 2 | GTEx | Artery Tibial | RAB3A | 0.18 | 0.08 | lasso | 4 | 0.07 | 3.1e-06 | -5.16 | -5.1 | 3.0e-07 | -0.05 | 0.64 | 0.06 | FALSE |
| 3 | GTEx | Brain Cerebellum | KLHL26 | 0.31 | 0.15 | lasso | 6 | 0.10 | 6.2e-04 | 5.01 | 6.2 | 5.8e-10 | -0.59 | 0.07 | 0.07 | FALSE |
| 4 | GTEx | Colon Transverse | YJEFN3 | 0.09 | 0.09 | lasso | 3 | 0.07 | 4.3e-04 | -6.67 | 6.8 | 1.1e-11 | 0.07 | 0.05 | 0.89 | FALSE |
| 5 | GTEx | Esophagus Gastroesophageal Junction | KXD1 | 0.18 | 0.04 | lasso | 5 | 0.02 | 6.5e-02 | 5.01 | 5.2 | 1.9e-07 | -0.46 | 0.07 | 0.07 | FALSE |
| 6 | GTEx | Esophagus Muscularis | MEF2BNB | 0.12 | 0.00 | lasso | 4 | 0.00 | 7.5e-01 | 4.89 | -5.2 | 2.0e-07 | 0.00 | 0.06 | 0.04 | TRUE |
| 7 | GTEx | Muscle Skeletal | SUGP1 | 0.11 | 0.06 | lasso | 7 | 0.07 | 9.5e-08 | -7.25 | 6.2 | 6.1e-10 | 0.04 | 0.01 | 0.99 | FALSE |
| 8 | GTEx | Nerve Tibial | CRTC1 | 0.11 | 0.02 | lasso | 5 | 0.03 | 1.8e-03 | -6.36 | -6.5 | 5.7e-11 | 0.59 | 0.35 | 0.14 | FALSE |
| 9 | GTEx | Skin Sun Exposed Lower leg | ZNF14 | 0.08 | 0.01 | enet | 12 | 0.02 | 4.5e-03 | -4.76 | 5.3 | 1.1e-07 | 0.06 | 0.46 | 0.06 | FALSE |
| 10 | GTEx | Testis | PDE4C | 0.39 | 0.44 | lasso | 2 | 0.43 | 5.8e-21 | -6.80 | -6.8 | 1.0e-11 | -0.04 | 1.00 | 0.00 | FALSE |
| 11 | GTEx | Testis | AC068499.10 | 0.38 | 0.41 | lasso | 3 | 0.40 | 6.8e-19 | -6.80 | -6.9 | 5.0e-12 | -0.04 | 1.00 | 0.00 | TRUE |
| 12 | GTEx | Thyroid | KIAA1683 | 0.11 | 0.07 | enet | 14 | 0.12 | 2.1e-09 | 1.65 | 5.5 | 5.0e-08 | -0.18 | 0.97 | 0.00 | TRUE |
| 13 | GTEx | Thyroid | YJEFN3 | 0.05 | 0.02 | lasso | 3 | 0.02 | 1.2e-02 | -7.05 | 7.1 | 1.6e-12 | 0.08 | 0.06 | 0.76 | FALSE |
| 14 | GTEx | Vagina | CTC-559E9.5 | 0.25 | 0.08 | lasso | 2 | 0.09 | 5.0e-03 | -4.96 | 6.3 | 3.0e-10 | 0.04 | 0.04 | 0.09 | FALSE |
| 15 | METSIM | Adipose | CILP2 | 0.04 | 0.03 | lasso | 5 | 0.07 | 2.7e-11 | -4.86 | -6.7 | 2.1e-11 | 0.03 | 0.20 | 0.79 | TRUE |
| 16 | ROSMAP | Brain Pre-frontal Cortex | HAPLN4 | 0.05 | 0.03 | enet | 15 | 0.03 | 1.7e-04 | -2.21 | -6.6 | 5.4e-11 | 0.10 | 0.01 | 0.99 | FALSE |
| 17 | YFS | Blood | MAST3 | 0.06 | 0.04 | lasso | 5 | 0.04 | 4.2e-12 | 6.77 | -6.5 | 6.0e-11 | 0.05 | 0.98 | 0.02 | FALSE |
| 18 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | YJEFN3 | 0.04 | 0.05 | lasso | 7 | 0.04 | 1.6e-04 | -6.83 | 6.8 | 1.5e-11 | 0.04 | 0.01 | 0.97 | FALSE |
| 19 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CILP2 | 0.02 | 0.02 | blup | 30 | 0.02 | 1.6e-04 | -6.82 | -7.0 | 3.7e-12 | -0.04 | 0.01 | 0.96 | FALSE |
| 20 | The Cancer Genome Atlas | Breast Invasive Carcinoma | HAPLN4 | 0.04 | 0.07 | lasso | 4 | 0.06 | 1.3e-12 | -7.35 | -6.6 | 3.1e-11 | -0.04 | 0.01 | 0.99 | FALSE |
| 21 | The Cancer Genome Atlas | Colon Adenocarcinoma | HAPLN4 | 0.10 | 0.08 | blup | 38 | 0.11 | 8.5e-07 | -2.62 | -5.5 | 4.7e-08 | -0.02 | 0.03 | 0.96 | FALSE |
| 22 | The Cancer Genome Atlas | Colon Adenocarcinoma | TSSK6 | 0.07 | 0.02 | blup | 32 | 0.04 | 2.9e-03 | -6.67 | -7.1 | 1.2e-12 | -0.06 | 0.01 | 0.84 | FALSE |
| 23 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | HAPLN4 | 0.07 | 0.05 | lasso | 7 | 0.07 | 2.9e-08 | -7.21 | -5.9 | 3.9e-09 | -0.04 | 0.01 | 0.99 | FALSE |
| 24 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | MAST3 | 0.04 | 0.02 | blup | 65 | 0.01 | 7.3e-02 | 6.77 | -5.6 | 2.8e-08 | 0.05 | 0.01 | 0.10 | FALSE |
| 25 | The Cancer Genome Atlas | Brain Lower Grade Glioma | MAST3 | 0.02 | 0.02 | lasso | 3 | 0.01 | 1.5e-02 | 8.07 | -8.1 | 4.0e-16 | -0.04 | 0.01 | 0.95 | TRUE |
| 26 | The Cancer Genome Atlas | Lung Adenocarcinoma | RAB3A | 0.04 | 0.04 | enet | 6 | 0.04 | 3.8e-05 | -5.16 | 5.7 | 1.2e-08 | 0.06 | 0.29 | 0.22 | FALSE |
| 27 | The Cancer Genome Atlas | Lung Adenocarcinoma | YJEFN3 | 0.03 | 0.03 | blup | 32 | 0.02 | 3.0e-03 | -6.67 | 6.8 | 9.4e-12 | 0.06 | 0.01 | 0.92 | FALSE |
| 28 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | PDE4C | 0.11 | 0.08 | lasso | 2 | 0.10 | 1.5e-07 | -4.33 | 5.1 | 2.7e-07 | 0.07 | 0.92 | 0.01 | FALSE |
| 29 | The Cancer Genome Atlas | Prostate Adenocarcinoma | YJEFN3 | 0.04 | 0.05 | lasso | 2 | 0.05 | 4.3e-06 | -6.82 | 6.8 | 9.0e-12 | 0.05 | 0.01 | 0.99 | FALSE |
| 30 | The Cancer Genome Atlas | Soft Tissue Sarcoma | HAPLN4 | 0.11 | 0.01 | blup | 38 | 0.02 | 2.7e-02 | -7.21 | -5.4 | 6.5e-08 | -0.06 | 0.01 | 0.88 | FALSE |
| 31 | The Cancer Genome Atlas | Stomach Adenocarcinoma | HAPLN4 | 0.08 | 0.03 | blup | 37 | 0.04 | 7.2e-04 | -7.30 | -7.2 | 5.1e-13 | -0.09 | 0.01 | 0.98 | TRUE |
| 32 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | CRTC1 | 0.33 | 0.08 | lasso | 5 | 0.12 | 3.6e-05 | -3.11 | -7.3 | 2.7e-13 | 0.68 | 0.04 | 0.52 | TRUE |
| 33 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | IL12RB1 | 0.10 | 0.01 | enet | 10 | 0.06 | 2.6e-03 | 0.63 | -6.2 | 6.2e-10 | 0.04 | 0.01 | 0.58 | FALSE |
| 34 | The Cancer Genome Atlas | Thyroid Carcinoma | HAPLN4 | 0.08 | 0.06 | blup | 37 | 0.09 | 1.8e-09 | -2.81 | -6.6 | 5.5e-11 | -0.03 | 0.02 | 0.98 | FALSE |
| 35 | The Cancer Genome Atlas | Thyroid Carcinoma | MAST3 | 0.04 | 0.02 | lasso | 2 | 0.00 | 3.4e-01 | 8.07 | -8.1 | 6.3e-16 | -0.04 | 0.01 | 0.89 | FALSE |
| 36 | The Cancer Genome Atlas | Thyroid Carcinoma | YJEFN3 | 0.08 | 0.06 | blup | 33 | 0.08 | 7.1e-08 | -6.82 | 6.8 | 1.4e-11 | 0.05 | 0.01 | 0.99 | FALSE |