Best TWAS P=1.92e-13 · Best GWAS P=1.68e-18 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 | CHRNB1 | 0.09 | 0.06 | lasso | 2 | 0.08 | 9.8e-10 | 7.26 | 6.3 | 2.9e-10 | 0.16 | 0.99 | 0.00 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | EIF5A | 0.20 | 0.12 | bslmm | 446 | 0.10 | 1.2e-12 | -4.48 | -6.6 | 4.7e-11 | -0.05 | 1.00 | 0.00 | TRUE |
| 3 | CommonMind | Brain Pre-frontal Cortex | POLR2A | 0.08 | 0.07 | lasso | 4 | 0.07 | 1.9e-08 | 5.80 | 6.0 | 2.3e-09 | 0.18 | 1.00 | 0.00 | FALSE |
| 4 | GTEx | Adipose Visceral Omentum | CHRNB1 | 0.29 | 0.14 | lasso | 5 | 0.14 | 1.0e-07 | 7.26 | 7.2 | 5.6e-13 | 0.27 | 0.96 | 0.01 | FALSE |
| 5 | GTEx | Artery Tibial | TNFSF12 | 0.11 | 0.06 | lasso | 2 | 0.05 | 1.2e-04 | 6.29 | 6.3 | 3.1e-10 | 0.52 | 0.26 | 0.67 | FALSE |
| 6 | GTEx | Breast Mammary Tissue (Male) | CHRNB1 | 0.28 | -0.01 | lasso | 6 | 0.02 | 9.6e-02 | 7.26 | 6.0 | 2.1e-09 | 0.20 | 0.07 | 0.07 | TRUE |
| 7 | GTEx | Cells Transformed fibroblasts | CHRNB1 | 0.28 | 0.11 | enet | 25 | 0.18 | 2.9e-13 | 7.26 | 6.4 | 1.7e-10 | 0.46 | 0.97 | 0.03 | TRUE |
| 8 | GTEx | Esophagus Mucosa | CHRNB1 | 0.19 | 0.11 | lasso | 2 | 0.13 | 7.3e-09 | 7.26 | 7.3 | 1.9e-13 | 0.29 | 0.99 | 0.00 | TRUE |
| 9 | GTEx | Esophagus Mucosa | ZBTB4 | 0.12 | 0.10 | lasso | 2 | 0.08 | 8.0e-06 | 5.89 | 5.9 | 4.7e-09 | 0.26 | 0.96 | 0.00 | TRUE |
| 10 | GTEx | Esophagus Muscularis | ZBTB4 | 0.13 | 0.06 | lasso | 2 | 0.05 | 6.3e-04 | 5.91 | 5.7 | 9.3e-09 | 0.26 | 0.29 | 0.23 | FALSE |
| 11 | GTEx | Muscle Skeletal | EIF5A | 0.14 | 0.06 | enet | 35 | 0.05 | 4.2e-06 | -4.30 | -6.2 | 6.6e-10 | -0.02 | 0.96 | 0.00 | FALSE |
| 12 | GTEx | Skin Not Sun Exposed Suprapubic | CHRNB1 | 0.17 | 0.15 | lasso | 3 | 0.16 | 7.4e-09 | 7.26 | 7.2 | 5.6e-13 | 0.29 | 1.00 | 0.00 | FALSE |
| 13 | GTEx | Skin Sun Exposed Lower leg | CHRNB1 | 0.19 | 0.12 | enet | 13 | 0.12 | 3.0e-10 | 5.96 | 5.9 | 4.0e-09 | 0.22 | 1.00 | 0.00 | FALSE |
| 14 | GTEx | Stomach | CHRNB1 | 0.28 | 0.19 | lasso | 4 | 0.23 | 2.0e-11 | 7.26 | 5.9 | 4.6e-09 | 0.15 | 0.97 | 0.00 | FALSE |
| 15 | GTEx | Whole Blood | TNFSF12 | 0.09 | 0.03 | enet | 24 | 0.04 | 1.9e-04 | -4.92 | -6.3 | 3.1e-10 | -0.43 | 0.44 | 0.42 | FALSE |
| 16 | METSIM | Adipose | NEURL4 | 0.06 | 0.00 | blup | 454 | 0.01 | 8.2e-03 | -0.74 | -5.4 | 6.3e-08 | -0.02 | 0.11 | 0.02 | TRUE |
| 17 | ROSMAP | Brain Pre-frontal Cortex | CHRNB1 | 0.11 | 0.08 | lasso | 6 | 0.08 | 7.8e-11 | 7.26 | 6.7 | 2.4e-11 | 0.30 | 1.00 | 0.00 | FALSE |
| 18 | YFS | Blood | CHRNB1 | 0.04 | 0.02 | lasso | 5 | 0.04 | 8.5e-12 | 7.19 | 6.9 | 6.2e-12 | 0.31 | 1.00 | 0.00 | FALSE |
| 19 | YFS | Blood | PHF23 | 0.03 | 0.01 | bslmm | 450 | 0.02 | 5.9e-08 | 6.63 | -5.5 | 3.3e-08 | 0.05 | 0.87 | 0.01 | FALSE |
| 20 | YFS | Blood | TMEM107 | 0.17 | 0.17 | lasso | 5 | 0.19 | 2.0e-61 | -5.37 | -5.7 | 1.5e-08 | -0.08 | 0.13 | 0.87 | TRUE |
| 21 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CHRNB1 | 0.06 | 0.06 | enet | 10 | 0.06 | 1.0e-11 | 7.19 | 6.3 | 2.3e-10 | 0.32 | 0.00 | 1.00 | FALSE |
| 22 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | CHRNB1 | 0.07 | 0.04 | blup | 57 | 0.05 | 1.6e-03 | 7.26 | 6.6 | 3.9e-11 | 0.34 | 0.00 | 0.88 | TRUE |
| 23 | The Cancer Genome Atlas | Colon Adenocarcinoma | TNFSF12-TNFSF13 | 0.07 | 0.05 | lasso | 3 | 0.02 | 1.9e-02 | -5.02 | -5.1 | 3.0e-07 | -0.22 | 0.08 | 0.04 | FALSE |
| 24 | The Cancer Genome Atlas | Esophageal Carcinoma | EIF5A | 0.16 | 0.00 | blup | 50 | 0.03 | 5.0e-02 | -4.60 | -5.5 | 4.3e-08 | 0.08 | 0.02 | 0.05 | TRUE |
| 25 | The Cancer Genome Atlas | Glioblastoma Multiforme | AMAC1L3 | 0.14 | 0.12 | lasso | 3 | 0.12 | 1.8e-04 | 5.96 | -6.1 | 8.9e-10 | -0.25 | 0.01 | 0.86 | FALSE |
| 26 | The Cancer Genome Atlas | Glioblastoma Multiforme | EIF5A | 0.26 | 0.10 | blup | 51 | 0.05 | 9.7e-03 | 4.62 | -5.2 | 1.7e-07 | 0.14 | 0.04 | 0.06 | FALSE |
| 27 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | ALOXE3 | 0.04 | 0.00 | blup | 77 | 0.01 | 3.4e-02 | -5.29 | -5.5 | 3.0e-08 | 0.00 | 0.01 | 0.60 | FALSE |
| 28 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | CHRNB1 | 0.06 | 0.07 | lasso | 6 | 0.07 | 1.8e-08 | 4.26 | 5.5 | 5.1e-08 | 0.28 | 0.53 | 0.47 | FALSE |
| 29 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CHRNB1 | 0.05 | 0.04 | blup | 57 | 0.04 | 6.1e-05 | 6.13 | 6.9 | 6.1e-12 | 0.23 | 0.00 | 1.00 | FALSE |
| 30 | The Cancer Genome Atlas | Brain Lower Grade Glioma | EIF5A | 0.08 | 0.12 | enet | 15 | 0.13 | 1.0e-14 | -4.30 | -5.2 | 1.7e-07 | 0.10 | 0.98 | 0.02 | FALSE |
| 31 | The Cancer Genome Atlas | Brain Lower Grade Glioma | TNFSF12-TNFSF13 | 0.07 | 0.01 | enet | 17 | 0.03 | 4.4e-04 | -4.88 | -5.5 | 5.0e-08 | -0.08 | 0.03 | 0.08 | FALSE |
| 32 | The Cancer Genome Atlas | Lung Adenocarcinoma | CHRNB1 | 0.03 | 0.02 | blup | 57 | 0.02 | 7.8e-04 | 7.19 | 6.2 | 4.2e-10 | 0.36 | 0.00 | 0.99 | FALSE |
| 33 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | EFNB3 | 0.07 | 0.04 | blup | 34 | 0.04 | 4.0e-05 | -5.13 | 5.2 | 1.5e-07 | 0.34 | 0.16 | 0.07 | TRUE |
| 34 | The Cancer Genome Atlas | Prostate Adenocarcinoma | CHRNB1 | 0.18 | 0.09 | enet | 10 | 0.10 | 4.9e-11 | 7.26 | 6.2 | 4.9e-10 | 0.30 | 0.00 | 1.00 | FALSE |
| 35 | The Cancer Genome Atlas | Prostate Adenocarcinoma | TNFSF12-TNFSF13 | 0.03 | 0.00 | lasso | 4 | 0.01 | 2.9e-02 | -4.88 | -7.1 | 9.8e-13 | -0.45 | 0.01 | 0.66 | FALSE |
| 36 | The Cancer Genome Atlas | Stomach Adenocarcinoma | CHRNB1 | 0.06 | 0.00 | blup | 57 | 0.03 | 4.5e-03 | 3.45 | 6.7 | 1.7e-11 | 0.34 | 0.00 | 0.76 | FALSE |
| 37 | The Cancer Genome Atlas | Thyroid Carcinoma | CHRNB1 | 0.09 | 0.02 | blup | 57 | 0.05 | 2.6e-05 | -3.44 | 6.1 | 8.9e-10 | 0.23 | 0.11 | 0.76 | FALSE |
| 38 | The Cancer Genome Atlas | Thyroid Carcinoma | SENP3 | 0.07 | 0.04 | enet | 9 | 0.03 | 2.7e-04 | 4.11 | 6.5 | 6.6e-11 | 0.20 | 0.12 | 0.74 | FALSE |
| 39 | The Cancer Genome Atlas | Thyroid Carcinoma | SHBG | 0.04 | 0.00 | blup | 59 | 0.02 | 4.4e-03 | -3.98 | -7.1 | 1.4e-12 | -0.46 | 0.04 | 0.08 | FALSE |