Best TWAS P=4.21e-19 · Best GWAS P=4.39e-14 conditioned to 8.46e-07
| # | 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 | BBS7 | 0.19 | 0.21 | bslmm | 423 | 0.23 | 1.8e-27 | -7.45 | -7.8 | 5.2e-15 | 0.93 | 0.00 | 1.00 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | NUDT6 | 0.04 | 0.04 | lasso | 3 | 0.02 | 6.5e-04 | 5.80 | 5.8 | 6.2e-09 | 0.02 | 0.72 | 0.04 | FALSE |
| 3 | CommonMind | Brain Pre-frontal Cortex | TMEM155 | 0.06 | 0.05 | lasso | 3 | 0.02 | 5.5e-04 | -6.04 | -5.5 | 3.5e-08 | 0.68 | 0.14 | 0.80 | FALSE |
| 4 | GTEx | Adipose Subcutaneous | EXOSC9 | 0.07 | 0.00 | lasso | 2 | 0.00 | 4.5e-01 | -5.68 | 5.3 | 1.1e-07 | -0.83 | 0.05 | 0.31 | FALSE |
| 5 | GTEx | Artery Tibial | FGF2 | 0.18 | 0.05 | lasso | 3 | 0.02 | 1.3e-02 | 5.88 | 6.1 | 1.2e-09 | -0.01 | 0.08 | 0.11 | TRUE |
| 6 | GTEx | Artery Tibial | NUDT6 | 0.08 | 0.08 | lasso | 5 | 0.05 | 5.6e-05 | 5.66 | 5.8 | 8.2e-09 | 0.02 | 0.65 | 0.08 | FALSE |
| 7 | GTEx | Brain Cerebellar Hemisphere | BBS7 | 0.27 | 0.05 | lasso | 3 | 0.08 | 4.7e-03 | -5.66 | -5.3 | 8.7e-08 | 0.61 | 0.08 | 0.32 | FALSE |
| 8 | GTEx | Brain Cerebellum | BBS7 | 0.20 | -0.01 | enet | 24 | 0.01 | 2.2e-01 | -5.60 | -6.0 | 2.3e-09 | 0.73 | 0.07 | 0.72 | FALSE |
| 9 | GTEx | Breast Mammary Tissue | NUDT6 | 0.25 | 0.10 | lasso | 3 | 0.08 | 4.2e-05 | 5.77 | 5.8 | 7.0e-09 | 0.01 | 0.09 | 0.87 | TRUE |
| 10 | GTEx | Breast Mammary Tissue (Male) | NUDT6 | 0.29 | 0.00 | lasso | 6 | 0.00 | 3.5e-01 | 5.56 | 5.7 | 1.2e-08 | 0.04 | 0.04 | 0.42 | TRUE |
| 11 | GTEx | Breast Mammary Tissue (Female) | NUDT6 | 0.30 | -0.01 | enet | 30 | 0.00 | 2.6e-01 | 5.95 | 5.4 | 5.4e-08 | -0.03 | 0.03 | 0.33 | TRUE |
| 12 | GTEx | Cells EBV-transformed lymphocytes | EXOSC9 | 0.29 | 0.17 | lasso | 7 | 0.16 | 6.6e-06 | 6.91 | 7.5 | 4.3e-14 | -0.68 | 0.13 | 0.85 | FALSE |
| 13 | GTEx | Cells Transformed fibroblasts | BBS7 | 0.16 | 0.09 | lasso | 7 | 0.16 | 2.9e-12 | -7.55 | -8.0 | 9.2e-16 | 0.91 | 0.00 | 1.00 | FALSE |
| 14 | GTEx | Colon Transverse | BBS12 | 0.12 | 0.05 | enet | 29 | 0.12 | 3.2e-06 | 0.68 | 5.6 | 1.8e-08 | -0.07 | 0.04 | 0.58 | TRUE |
| 15 | GTEx | Muscle Skeletal | NUDT6 | 0.15 | 0.12 | lasso | 3 | 0.11 | 1.1e-10 | 5.80 | 5.8 | 4.9e-09 | 0.03 | 0.98 | 0.02 | FALSE |
| 16 | GTEx | Muscle Skeletal | RP11-170N16.3 | 0.07 | 0.07 | lasso | 3 | 0.06 | 8.8e-07 | 4.99 | 5.7 | 1.0e-08 | 0.04 | 0.23 | 0.76 | FALSE |
| 17 | GTEx | Nerve Tibial | NUDT6 | 0.11 | 0.08 | lasso | 3 | 0.05 | 2.1e-04 | 5.42 | 5.4 | 6.0e-08 | 0.02 | 0.80 | 0.02 | FALSE |
| 18 | GTEx | Skin Not Sun Exposed Suprapubic | NUDT6 | 0.07 | 0.02 | lasso | 6 | 0.03 | 1.5e-02 | 4.38 | 5.3 | 9.1e-08 | 0.04 | 0.19 | 0.60 | TRUE |
| 19 | GTEx | Skin Sun Exposed Lower leg | NUDT6 | 0.11 | 0.08 | lasso | 3 | 0.08 | 6.2e-07 | 5.56 | 5.6 | 1.9e-08 | 0.03 | 0.94 | 0.02 | TRUE |
| 20 | GTEx | Testis | EXOSC9 | 0.17 | 0.07 | lasso | 8 | 0.10 | 2.5e-05 | -5.68 | 7.5 | 4.6e-14 | -0.87 | 0.02 | 0.98 | FALSE |
| 21 | ROSMAP | Brain Pre-frontal Cortex | EXOSC9 | 0.05 | 0.02 | lasso | 7 | 0.02 | 5.3e-04 | 5.06 | 5.8 | 5.4e-09 | -0.54 | 0.16 | 0.74 | FALSE |
| 22 | ROSMAP | Brain Pre-frontal Cortex | NUDT6 | 0.04 | 0.04 | enet | 9 | 0.03 | 2.0e-04 | 5.73 | 5.3 | 1.2e-07 | 0.03 | 0.62 | 0.16 | TRUE |
| 23 | YFS | Blood | EXOSC9 | 0.06 | 0.09 | bslmm | 401 | 0.09 | 7.0e-28 | 6.91 | 7.4 | 1.5e-13 | -0.63 | 0.18 | 0.82 | FALSE |
| 24 | The Cancer Genome Atlas | Breast Invasive Carcinoma | EXOSC9 | 0.03 | 0.04 | enet | 9 | 0.04 | 2.8e-08 | 7.25 | 8.0 | 1.6e-15 | -0.70 | 0.05 | 0.95 | FALSE |
| 25 | The Cancer Genome Atlas | Breast Invasive Carcinoma | NUDT6 | 0.02 | 0.02 | lasso | 4 | 0.01 | 5.4e-03 | 5.65 | 5.7 | 1.6e-08 | 0.04 | 0.13 | 0.14 | FALSE |
| 26 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | CCNA2 | 0.11 | -0.01 | enet | 14 | 0.02 | 4.4e-02 | 0.50 | 5.5 | 4.0e-08 | -0.56 | 0.00 | 0.26 | FALSE |
| 27 | The Cancer Genome Atlas | Colon Adenocarcinoma | BBS7 | 0.05 | 0.00 | blup | 47 | 0.02 | 1.9e-02 | 7.29 | -7.3 | 3.5e-13 | 0.56 | 0.02 | 0.29 | FALSE |
| 28 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | BBS7 | 0.04 | 0.02 | blup | 47 | 0.03 | 1.3e-04 | -5.66 | -5.4 | 6.1e-08 | 0.91 | 0.06 | 0.90 | FALSE |
| 29 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | CCNA2 | 0.03 | 0.01 | blup | 34 | 0.02 | 1.5e-03 | -7.42 | 8.9 | 4.2e-19 | -0.80 | 0.00 | 0.97 | TRUE |
| 30 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | BBS7 | 0.04 | 0.04 | lasso | 2 | 0.03 | 6.1e-04 | -7.45 | -7.5 | 9.0e-14 | 1.00 | 0.00 | 0.99 | FALSE |
| 31 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | FGF2 | 0.06 | 0.04 | blup | 65 | 0.05 | 4.4e-06 | 6.36 | 6.0 | 2.0e-09 | -0.03 | 0.01 | 0.98 | TRUE |
| 32 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | EXOSC9 | 0.03 | 0.02 | lasso | 2 | 0.02 | 1.0e-03 | 7.02 | 7.6 | 3.4e-14 | -0.66 | 0.05 | 0.58 | FALSE |
| 33 | The Cancer Genome Atlas | Prostate Adenocarcinoma | NUDT6 | 0.10 | 0.07 | lasso | 6 | 0.07 | 1.0e-07 | 5.66 | 5.3 | 8.6e-08 | 0.02 | 0.96 | 0.04 | FALSE |
| 34 | The Cancer Genome Atlas | Thyroid Carcinoma | EXOSC9 | 0.04 | 0.05 | lasso | 2 | 0.04 | 7.1e-05 | 7.25 | 8.1 | 6.8e-16 | -0.78 | 0.02 | 0.97 | FALSE |