Best TWAS P=6.57e-37 · Best GWAS P=4.86e-37 conditioned to 1
| # | 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 | -8.24 | -9.5 | 1.5e-21 | 0.00 | 1.00 | 0.00 | FALSE |
| 2 | CommonMind | Brain Pre-frontal Cortex | POLR2A | 0.08 | 0.07 | lasso | 4 | 0.07 | 1.9e-08 | -7.18 | -7.5 | 9.2e-14 | -0.07 | 1.00 | 0.00 | FALSE |
| 3 | GTEx | Adipose Subcutaneous | CHRNB1 | 0.30 | 0.22 | lasso | 8 | 0.26 | 1.6e-21 | 8.37 | -9.6 | 6.9e-22 | 0.04 | 1.00 | 0.00 | FALSE |
| 4 | GTEx | Adipose Subcutaneous | LSMD1 | 0.21 | 0.10 | enet | 29 | 0.13 | 6.6e-11 | -12.69 | -11.0 | 2.8e-28 | 0.66 | 0.00 | 1.00 | TRUE |
| 5 | GTEx | Adipose Visceral Omentum | CHRNB1 | 0.29 | 0.14 | lasso | 5 | 0.14 | 1.0e-07 | -8.24 | -8.4 | 5.4e-17 | -0.08 | 0.96 | 0.00 | FALSE |
| 6 | GTEx | Adrenal Gland | ELP5 | 0.52 | 0.44 | lasso | 7 | 0.43 | 9.0e-17 | 4.97 | 5.3 | 1.4e-07 | -0.03 | 1.00 | 0.00 | FALSE |
| 7 | GTEx | Artery Aorta | CHRNB1 | 0.23 | 0.10 | enet | 7 | 0.13 | 1.3e-07 | 8.40 | -9.2 | 4.7e-20 | 0.01 | 0.89 | 0.00 | FALSE |
| 8 | GTEx | Artery Coronary | CHRNB1 | 0.26 | 0.08 | enet | 24 | 0.11 | 1.3e-04 | -7.18 | -8.0 | 1.2e-15 | -0.03 | 0.24 | 0.06 | FALSE |
| 9 | GTEx | Artery Coronary | ELP5 | 0.64 | 0.55 | lasso | 9 | 0.55 | 7.2e-22 | 4.97 | 5.2 | 1.6e-07 | -0.03 | 1.00 | 0.00 | FALSE |
| 10 | GTEx | Artery Tibial | CHRNB1 | 0.27 | 0.20 | lasso | 5 | 0.22 | 8.1e-17 | 8.41 | -9.8 | 1.4e-22 | 0.04 | 1.00 | 0.00 | FALSE |
| 11 | GTEx | Artery Tibial | TNFSF12 | 0.11 | 0.06 | lasso | 2 | 0.05 | 1.2e-04 | -6.03 | -6.0 | 1.6e-09 | -0.01 | 0.77 | 0.01 | FALSE |
| 12 | GTEx | Brain Cerebellum | SAT2 | 0.36 | 0.11 | lasso | 9 | 0.12 | 2.0e-04 | 6.68 | 6.7 | 1.8e-11 | -0.07 | 0.33 | 0.22 | TRUE |
| 13 | GTEx | Breast Mammary Tissue | CHRNB1 | 0.23 | 0.07 | enet | 19 | 0.14 | 1.6e-07 | 8.41 | -7.8 | 4.9e-15 | -0.05 | 0.73 | 0.01 | FALSE |
| 14 | GTEx | Breast Mammary Tissue (Male) | CHRNB1 | 0.28 | -0.01 | lasso | 6 | 0.02 | 9.6e-02 | -8.24 | -6.2 | 4.5e-10 | -0.07 | 0.06 | 0.15 | FALSE |
| 15 | GTEx | Cells Transformed fibroblasts | CHRNB1 | 0.28 | 0.11 | enet | 25 | 0.18 | 2.9e-13 | -8.24 | -9.3 | 2.1e-20 | -0.05 | 1.00 | 0.00 | FALSE |
| 16 | GTEx | Colon Sigmoid | CHRNB1 | 0.18 | 0.06 | enet | 18 | 0.11 | 1.3e-04 | 8.41 | -9.0 | 1.7e-19 | 0.02 | 0.44 | 0.03 | FALSE |
| 17 | GTEx | Colon Transverse | LSMD1 | 0.28 | 0.12 | lasso | 5 | 0.19 | 3.3e-09 | -12.69 | -12.1 | 9.3e-34 | 0.89 | 0.00 | 1.00 | FALSE |
| 18 | GTEx | Esophagus Mucosa | CD68 | 0.30 | 0.19 | lasso | 5 | 0.17 | 2.5e-11 | 6.68 | 7.4 | 1.0e-13 | -0.04 | 1.00 | 0.00 | FALSE |
| 19 | GTEx | Esophagus Mucosa | CHRNB1 | 0.19 | 0.11 | lasso | 2 | 0.13 | 7.3e-09 | -8.24 | -8.5 | 1.6e-17 | -0.07 | 1.00 | 0.00 | FALSE |
| 20 | GTEx | Esophagus Mucosa | ZBTB4 | 0.12 | 0.10 | lasso | 2 | 0.08 | 8.0e-06 | -7.08 | -7.1 | 1.1e-12 | -0.09 | 0.96 | 0.00 | FALSE |
| 21 | GTEx | Esophagus Mucosa | SNORA67 | 0.28 | 0.18 | lasso | 3 | 0.16 | 9.7e-11 | 6.68 | 6.5 | 8.3e-11 | -0.03 | 1.00 | 0.00 | FALSE |
| 22 | GTEx | Esophagus Muscularis | CHRNB1 | 0.35 | 0.19 | lasso | 7 | 0.28 | 1.9e-17 | 8.40 | -9.3 | 9.2e-21 | 0.02 | 1.00 | 0.00 | FALSE |
| 23 | GTEx | Esophagus Muscularis | ZBTB4 | 0.13 | 0.06 | lasso | 2 | 0.05 | 6.3e-04 | -7.34 | -5.9 | 3.3e-09 | -0.15 | 0.24 | 0.36 | FALSE |
| 24 | GTEx | Lung | CHRNB1 | 0.22 | 0.05 | enet | 17 | 0.14 | 7.5e-11 | 4.70 | -7.8 | 4.6e-15 | -0.04 | 0.98 | 0.00 | FALSE |
| 25 | GTEx | Nerve Tibial | CHRNB1 | 0.37 | 0.31 | enet | 12 | 0.35 | 9.7e-26 | 8.40 | -9.0 | 1.8e-19 | 0.06 | 1.00 | 0.00 | FALSE |
| 26 | GTEx | Pancreas | SAT2 | 0.25 | 0.18 | lasso | 3 | 0.15 | 8.7e-07 | 6.68 | 6.0 | 2.0e-09 | -0.02 | 0.95 | 0.00 | FALSE |
| 27 | GTEx | Prostate | RP11-104H15.8 | 0.54 | 0.01 | enet | 1 | 0.06 | 1.6e-02 | 5.58 | 5.6 | 2.5e-08 | 0.00 | 0.08 | 0.06 | TRUE |
| 28 | GTEx | Skin Not Sun Exposed Suprapubic | CHRNB1 | 0.17 | 0.15 | lasso | 3 | 0.16 | 7.4e-09 | -8.24 | -8.1 | 6.5e-16 | -0.07 | 1.00 | 0.00 | FALSE |
| 29 | GTEx | Skin Sun Exposed Lower leg | CHRNB1 | 0.19 | 0.12 | enet | 13 | 0.12 | 3.0e-10 | -7.29 | -7.8 | 6.9e-15 | -0.04 | 1.00 | 0.00 | FALSE |
| 30 | GTEx | Skin Sun Exposed Lower leg | CTDNEP1 | 0.10 | 0.06 | lasso | 6 | 0.06 | 9.5e-06 | 4.84 | -5.4 | 6.2e-08 | 0.04 | 0.79 | 0.03 | FALSE |
| 31 | GTEx | Stomach | SAT2 | 0.18 | 0.03 | lasso | 4 | 0.03 | 1.3e-02 | 4.35 | 5.3 | 1.1e-07 | -0.06 | 0.23 | 0.03 | TRUE |
| 32 | GTEx | Stomach | CHRNB1 | 0.28 | 0.19 | lasso | 4 | 0.23 | 2.0e-11 | -8.24 | -9.8 | 9.0e-23 | 0.01 | 0.97 | 0.00 | FALSE |
| 33 | GTEx | Testis | ELP5 | 0.48 | 0.42 | enet | 10 | 0.42 | 3.3e-20 | 4.97 | 5.1 | 2.9e-07 | -0.04 | 1.00 | 0.00 | FALSE |
| 34 | GTEx | Testis | CYB5D1 | 0.37 | 0.12 | lasso | 4 | 0.12 | 4.2e-06 | -8.33 | -6.8 | 1.5e-11 | 0.42 | 0.96 | 0.02 | TRUE |
| 35 | GTEx | Thyroid | SAT2 | 0.18 | 0.07 | lasso | 6 | 0.06 | 4.8e-05 | 6.68 | 5.2 | 1.5e-07 | 0.00 | 0.95 | 0.00 | FALSE |
| 36 | GTEx | Thyroid | KCNAB3 | 0.15 | 0.14 | enet | 16 | 0.12 | 1.6e-09 | -3.66 | 5.3 | 1.2e-07 | -0.22 | 1.00 | 0.00 | FALSE |
| 37 | GTEx | Thyroid | CHRNB1 | 0.11 | 0.03 | lasso | 8 | 0.02 | 7.1e-03 | 8.37 | -8.4 | 3.3e-17 | 0.07 | 0.22 | 0.03 | FALSE |
| 38 | METSIM | Adipose | CHRNB1 | 0.22 | 0.16 | bslmm | 486 | 0.20 | 1.2e-28 | 8.41 | -7.5 | 5.5e-14 | 0.06 | 1.00 | 0.00 | FALSE |
| 39 | ROSMAP | Brain Pre-frontal Cortex | KDM6B | 0.07 | 0.05 | lasso | 4 | 0.04 | 2.7e-06 | -12.72 | 12.1 | 6.2e-34 | -0.95 | 0.00 | 1.00 | FALSE |
| 40 | ROSMAP | Brain Pre-frontal Cortex | SAT2 | 0.34 | 0.37 | enet | 26 | 0.37 | 1.2e-49 | 4.35 | 5.2 | 1.8e-07 | -0.06 | 1.00 | 0.00 | FALSE |
| 41 | ROSMAP | Brain Pre-frontal Cortex | CHRNB1 | 0.11 | 0.08 | lasso | 6 | 0.08 | 7.8e-11 | -8.24 | -7.8 | 9.2e-15 | -0.09 | 1.00 | 0.00 | FALSE |
| 42 | ROSMAP | Brain Pre-frontal Cortex | CTDNEP1 | 0.23 | 0.30 | bslmm | 447 | 0.31 | 5.7e-40 | 4.84 | -5.3 | 1.1e-07 | 0.05 | 1.00 | 0.00 | FALSE |
| 43 | ROSMAP | Brain Pre-frontal Cortex | POLR2A | 0.05 | 0.01 | bslmm | 466 | 0.02 | 1.6e-03 | -7.34 | -5.8 | 8.3e-09 | -0.02 | 0.52 | 0.02 | FALSE |
| 44 | YFS | Blood | CHRNB1 | 0.04 | 0.02 | lasso | 5 | 0.04 | 8.5e-12 | -8.52 | -8.4 | 4.0e-17 | -0.07 | 1.00 | 0.00 | FALSE |
| 45 | YFS | Blood | CNTROB | 0.02 | 0.01 | bslmm | 487 | 0.01 | 5.6e-05 | -3.19 | 5.3 | 9.5e-08 | -0.36 | 0.85 | 0.07 | TRUE |
| 46 | YFS | Blood | CYB5D1 | 0.28 | 0.19 | bslmm | 488 | 0.24 | 5.9e-79 | -8.33 | 10.9 | 8.1e-28 | -0.73 | 1.00 | 0.00 | FALSE |
| 47 | YFS | Blood | KDM6B | 0.07 | 0.04 | enet | 34 | 0.04 | 1.1e-13 | -12.69 | 9.8 | 1.2e-22 | -0.75 | 0.00 | 1.00 | TRUE |
| 48 | YFS | Blood | LSMD1 | 0.08 | 0.02 | enet | 41 | 0.04 | 5.8e-12 | -12.69 | -9.8 | 1.9e-22 | 0.49 | 0.00 | 1.00 | TRUE |
| 49 | YFS | Blood | TMEM88 | 0.11 | 0.05 | enet | 19 | 0.06 | 2.2e-20 | 0.99 | 6.3 | 2.9e-10 | -0.49 | 1.00 | 0.00 | TRUE |
| 50 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | CYB5D1 | 0.04 | 0.03 | blup | 40 | 0.02 | 1.6e-02 | -12.71 | 12.7 | 1.1e-36 | -0.82 | 0.00 | 0.90 | TRUE |
| 51 | The Cancer Genome Atlas | Breast Invasive Carcinoma | C17orf81 | 0.04 | 0.05 | blup | 43 | 0.06 | 4.0e-12 | 5.01 | 5.2 | 1.7e-07 | -0.07 | 0.02 | 0.98 | FALSE |
| 52 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CHRNB1 | 0.06 | 0.06 | enet | 10 | 0.06 | 1.0e-11 | -8.52 | -8.2 | 2.9e-16 | -0.08 | 0.00 | 1.00 | TRUE |
| 53 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | C17orf81 | 0.12 | 0.14 | blup | 43 | 0.14 | 1.7e-07 | 4.97 | 5.7 | 1.3e-08 | -0.05 | 0.02 | 0.98 | FALSE |
| 54 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | CHRNB1 | 0.07 | 0.04 | blup | 57 | 0.05 | 1.6e-03 | -8.24 | -5.7 | 1.6e-08 | -0.12 | 0.01 | 0.68 | FALSE |
| 55 | The Cancer Genome Atlas | Colon Adenocarcinoma | C17orf81 | 0.14 | 0.14 | lasso | 7 | 0.15 | 3.3e-09 | 4.51 | 5.2 | 1.6e-07 | -0.04 | 0.02 | 0.98 | FALSE |
| 56 | The Cancer Genome Atlas | Colon Adenocarcinoma | CYB5D1 | 0.14 | 0.12 | lasso | 1 | 0.10 | 1.7e-06 | -12.69 | 12.7 | 6.6e-37 | -1.00 | 0.00 | 1.00 | TRUE |
| 57 | The Cancer Genome Atlas | Colon Adenocarcinoma | DLG4 | 0.31 | 0.01 | blup | 46 | 0.07 | 6.3e-05 | 3.33 | 5.5 | 3.0e-08 | -0.04 | 0.01 | 0.14 | FALSE |
| 58 | The Cancer Genome Atlas | Glioblastoma Multiforme | AMAC1L3 | 0.14 | 0.12 | lasso | 3 | 0.12 | 1.8e-04 | -5.48 | 5.8 | 9.0e-09 | 0.01 | 0.02 | 0.70 | FALSE |
| 59 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | C17orf81 | 0.08 | 0.05 | enet | 10 | 0.04 | 1.3e-05 | 4.84 | 5.7 | 1.3e-08 | -0.09 | 0.02 | 0.98 | FALSE |
| 60 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | C17orf81 | 0.11 | 0.13 | blup | 43 | 0.13 | 8.7e-08 | 4.87 | 5.3 | 1.4e-07 | -0.04 | 0.02 | 0.98 | FALSE |
| 61 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CHRNB1 | 0.05 | 0.04 | blup | 57 | 0.04 | 6.1e-05 | -5.50 | -7.5 | 8.0e-14 | -0.01 | 0.00 | 0.99 | FALSE |
| 62 | The Cancer Genome Atlas | Brain Lower Grade Glioma | KCNAB3 | 0.02 | 0.01 | blup | 53 | 0.02 | 5.4e-03 | -3.42 | 5.3 | 1.2e-07 | -0.33 | 0.23 | 0.13 | TRUE |
| 63 | The Cancer Genome Atlas | Liver Hepatocellular Carcinoma | C17orf81 | 0.10 | 0.07 | blup | 44 | 0.11 | 8.1e-06 | 5.01 | 5.3 | 1.3e-07 | -0.03 | 0.02 | 0.98 | FALSE |
| 64 | The Cancer Genome Atlas | Lung Adenocarcinoma | CYB5D1 | 0.05 | 0.03 | blup | 40 | 0.03 | 1.9e-04 | -12.71 | 10.8 | 2.7e-27 | -0.75 | 0.00 | 0.95 | FALSE |
| 65 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | DULLARD | 0.03 | 0.03 | enet | 8 | 0.04 | 1.2e-05 | 4.97 | -5.2 | 2.2e-07 | 0.04 | 0.02 | 0.98 | FALSE |
| 66 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | LOC284023 | 0.09 | 0.01 | blup | 55 | 0.03 | 5.5e-04 | -8.42 | -7.2 | 7.9e-13 | 0.49 | 0.02 | 0.25 | FALSE |
| 67 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | TNFSF12-TNFSF13 | 0.06 | 0.00 | blup | 58 | 0.01 | 3.4e-02 | 0.58 | 5.3 | 9.6e-08 | -0.04 | 0.01 | 0.06 | TRUE |
| 68 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | ATP1B2 | 0.13 | 0.01 | blup | 42 | 0.02 | 6.3e-02 | -3.93 | 5.1 | 2.9e-07 | -0.17 | 0.01 | 0.06 | TRUE |
| 69 | The Cancer Genome Atlas | Prostate Adenocarcinoma | CHRNB1 | 0.18 | 0.09 | enet | 10 | 0.10 | 4.9e-11 | -8.24 | -10.1 | 3.4e-24 | -0.04 | 0.01 | 0.99 | TRUE |
| 70 | The Cancer Genome Atlas | Prostate Adenocarcinoma | CYB5D1 | 0.07 | 0.02 | enet | 14 | 0.02 | 5.5e-03 | -12.69 | 7.4 | 1.5e-13 | -0.72 | 0.00 | 0.93 | TRUE |
| 71 | The Cancer Genome Atlas | Prostate Adenocarcinoma | TMEM88 | 0.06 | 0.00 | enet | 10 | 0.01 | 6.5e-02 | -8.54 | -7.0 | 2.7e-12 | 0.29 | 0.01 | 0.08 | FALSE |
| 72 | The Cancer Genome Atlas | Rectum Adenocarcinoma | DULLARD | 0.15 | 0.10 | blup | 41 | 0.11 | 1.4e-03 | 4.87 | -5.2 | 2.0e-07 | 0.03 | 0.02 | 0.73 | FALSE |
| 73 | The Cancer Genome Atlas | Stomach Adenocarcinoma | CHRNB1 | 0.06 | 0.00 | blup | 57 | 0.03 | 4.5e-03 | -3.58 | -5.3 | 9.6e-08 | -0.09 | 0.01 | 0.60 | FALSE |
| 74 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | C17orf81 | 0.13 | 0.09 | blup | 43 | 0.08 | 1.1e-03 | 5.01 | 5.8 | 8.3e-09 | -0.05 | 0.02 | 0.91 | TRUE |
| 75 | The Cancer Genome Atlas | Thyroid Carcinoma | CLDN7 | 0.05 | 0.06 | blup | 47 | 0.05 | 5.2e-06 | 4.51 | -5.7 | 1.0e-08 | 0.05 | 0.02 | 0.98 | FALSE |
| 76 | The Cancer Genome Atlas | Thyroid Carcinoma | SENP3 | 0.07 | 0.04 | enet | 9 | 0.03 | 2.7e-04 | -3.94 | -6.1 | 9.2e-10 | -0.01 | 0.33 | 0.28 | FALSE |
| 77 | The Cancer Genome Atlas | Uterine Corpus Endometrial Carcinoma | C17orf81 | 0.19 | 0.06 | blup | 42 | 0.10 | 1.2e-03 | 5.01 | 5.4 | 7.9e-08 | -0.04 | 0.02 | 0.85 | FALSE |