Best TWAS P=0 · Best GWAS P=0 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 | CommonMind | Brain Pre-frontal Cortex | AK3 | 0.27 | 0.06 | enet | 36 | 0.10 | 6.0e-12 | -26.94 | -12.3 | 9.3e-35 | -0.21 | 1.00 | 0.00 | TRUE |
| 2 | CommonMind | Brain Pre-frontal Cortex | JAK2 | 0.09 | 0.02 | lasso | 5 | 0.03 | 1.0e-04 | 17.39 | -6.0 | 1.4e-09 | 0.03 | 0.77 | 0.01 | TRUE |
| 3 | CommonMind | Brain Pre-frontal Cortex | RCL1 | 0.10 | 0.07 | bslmm | 632 | 0.05 | 4.2e-07 | 22.56 | 27.1 | 1.4e-161 | 0.17 | 1.00 | 0.00 | TRUE |
| 4 | CommonMind | Brain Pre-frontal Cortex | SLC1A1 | 0.25 | 0.09 | bslmm | 840 | 0.20 | 2.5e-24 | -2.39 | -5.6 | 2.7e-08 | 0.02 | 1.00 | 0.00 | TRUE |
| 5 | GTEx | Esophagus Mucosa | JAK2 | 0.19 | 0.01 | enet | 12 | 0.02 | 1.9e-02 | -2.71 | -13.7 | 1.5e-42 | -0.12 | 0.09 | 0.04 | FALSE |
| 6 | GTEx | Nerve Tibial | JAK2 | 0.17 | 0.08 | enet | 26 | 0.07 | 1.8e-05 | -1.58 | -22.9 | 3.8e-116 | -0.26 | 0.20 | 0.54 | TRUE |
| 7 | GTEx | Ovary | PLGRKT | 0.45 | 0.11 | enet | 30 | 0.30 | 5.8e-08 | -6.13 | -9.1 | 1.3e-19 | 0.02 | 0.20 | 0.05 | TRUE |
| 8 | GTEx | Prostate | RP11-6J24.6 | 0.42 | -0.01 | enet | 46 | 0.01 | 1.9e-01 | 0.91 | -18.9 | 2.7e-79 | -0.13 | 0.08 | 0.06 | TRUE |
| 9 | GTEx | Skin Not Sun Exposed Suprapubic | SPATA6L | 0.37 | 0.34 | enet | 23 | 0.34 | 2.4e-19 | 4.96 | 7.5 | 5.5e-14 | 0.12 | 1.00 | 0.00 | FALSE |
| 10 | GTEx | Thyroid | SPATA6L | 0.37 | 0.31 | enet | 26 | 0.33 | 5.5e-26 | 5.00 | 6.4 | 1.7e-10 | 0.11 | 1.00 | 0.00 | FALSE |
| 11 | METSIM | Adipose | PPAPDC2 | 0.05 | 0.01 | enet | 21 | 0.01 | 2.9e-03 | 14.07 | 10.1 | 3.6e-24 | 0.04 | 0.77 | 0.03 | FALSE |
| 12 | METSIM | Adipose | SPATA6L | 0.10 | 0.00 | blup | 788 | 0.02 | 7.2e-04 | -1.12 | 9.3 | 1.0e-20 | 0.12 | 0.20 | 0.06 | TRUE |
| 13 | ROSMAP | Brain Pre-frontal Cortex | SPATA6L | 0.08 | 0.00 | bslmm | 775 | 0.02 | 2.1e-03 | 14.43 | 13.0 | 1.1e-38 | 0.04 | 0.66 | 0.01 | TRUE |
| 14 | ROSMAP | Brain Pre-frontal Cortex | KIAA1432 | 0.05 | 0.00 | blup | 502 | 0.02 | 7.5e-04 | -1.67 | -7.0 | 2.4e-12 | 0.03 | 0.07 | 0.42 | TRUE |
| 15 | ROSMAP | Brain Pre-frontal Cortex | RCL1 | 0.11 | 0.06 | bslmm | 641 | 0.07 | 9.3e-10 | -24.38 | -36.7 | 1.7e-294 | -0.17 | 1.00 | 0.00 | TRUE |
| 16 | ROSMAP | Brain Pre-frontal Cortex | IGHEP2 | 0.08 | 0.07 | enet | 12 | 0.08 | 3.7e-10 | -11.86 | 10.2 | 1.9e-24 | -0.02 | 1.00 | 0.00 | TRUE |
| 17 | YFS | Blood | JAK2 | 0.03 | 0.03 | lasso | 4 | 0.03 | 1.4e-10 | 16.60 | -18.0 | 3.0e-72 | -0.01 | 1.00 | 0.00 | TRUE |
| 18 | YFS | Blood | PPAPDC2 | 0.19 | 0.11 | bslmm | 676 | 0.12 | 7.5e-38 | 4.96 | 9.7 | 2.5e-22 | 0.13 | 1.00 | 0.00 | TRUE |
| 19 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | SLC1A1 | 0.12 | 0.03 | enet | 15 | 0.05 | 8.6e-05 | 2.27 | -6.2 | 6.1e-10 | -0.09 | 0.40 | 0.16 | TRUE |
| 20 | The Cancer Genome Atlas | Breast Invasive Carcinoma | AK3 | 0.05 | 0.00 | blup | 79 | 0.01 | 1.0e-03 | -26.15 | 16.0 | 1.0e-57 | 0.10 | 0.01 | 0.07 | TRUE |
| 21 | The Cancer Genome Atlas | Breast Invasive Carcinoma | PPAPDC2 | 0.06 | 0.01 | enet | 9 | 0.03 | 2.1e-07 | -4.96 | 9.7 | 3.0e-22 | 0.03 | 0.13 | 0.06 | FALSE |
| 22 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | AK3 | 0.06 | 0.00 | enet | 14 | 0.02 | 2.7e-03 | -26.15 | -15.4 | 1.6e-53 | -0.32 | 0.03 | 0.03 | TRUE |
| 23 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | RLN2 | 0.08 | 0.06 | blup | 41 | 0.06 | 2.7e-04 | 4.70 | -9.2 | 2.5e-20 | 0.02 | 0.12 | 0.04 | TRUE |
| 24 | The Cancer Genome Atlas | Brain Lower Grade Glioma | C9orf68 | 0.18 | 0.05 | enet | 23 | 0.12 | 2.0e-13 | -1.12 | 5.5 | 3.5e-08 | 0.10 | 0.00 | 1.00 | TRUE |
| 25 | The Cancer Genome Atlas | Brain Lower Grade Glioma | PPAPDC2 | 0.08 | 0.03 | lasso | 6 | 0.04 | 6.0e-05 | 5.00 | 9.8 | 1.6e-22 | 0.12 | 0.05 | 0.95 | TRUE |
| 26 | The Cancer Genome Atlas | Brain Lower Grade Glioma | RCL1 | 0.04 | 0.02 | enet | 5 | 0.03 | 5.3e-04 | 16.71 | -26.9 | 9.2e-160 | -0.10 | 0.22 | 0.02 | TRUE |
| 27 | The Cancer Genome Atlas | Brain Lower Grade Glioma | RLN2 | 0.03 | 0.02 | lasso | 2 | 0.02 | 5.7e-03 | 4.70 | -5.5 | 4.9e-08 | 0.03 | 0.05 | 0.03 | TRUE |
| 28 | The Cancer Genome Atlas | Prostate Adenocarcinoma | AK3 | 0.12 | 0.06 | lasso | 5 | 0.07 | 2.3e-07 | -27.13 | -23.5 | 2.1e-122 | -0.33 | 0.90 | 0.00 | TRUE |
| 29 | The Cancer Genome Atlas | Prostate Adenocarcinoma | PPAPDC2 | 0.12 | 0.01 | enet | 14 | 0.04 | 9.4e-05 | -8.74 | 12.3 | 5.4e-35 | 0.11 | 0.04 | 0.46 | TRUE |
| 30 | The Cancer Genome Atlas | Prostate Adenocarcinoma | RLN2 | 0.05 | 0.01 | enet | 9 | 0.01 | 1.1e-02 | -5.84 | -10.2 | 1.3e-24 | 0.03 | 0.04 | 0.10 | FALSE |
| 31 | The Cancer Genome Atlas | Thyroid Carcinoma | RCL1 | 0.06 | 0.03 | blup | 130 | 0.04 | 1.1e-04 | -31.17 | -45.1 | 0.0e+00 | -0.37 | 0.56 | 0.03 | TRUE |