Best TWAS P=3.13e-26 · Best GWAS P=5.52e-24 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 | GTEx | Adipose Subcutaneous | RAD9A | 0.43 | 0.22 | lasso | 6 | 0.23 | 7.1e-19 | -10.1 | -9.8 | 1.9e-22 | 0.97 | 0.00 | 1.00 | FALSE |
2 | GTEx | Adipose Subcutaneous | DPP3 | 0.08 | 0.06 | lasso | 9 | 0.06 | 2.1e-05 | 4.9 | -5.3 | 9.5e-08 | 0.14 | 0.31 | 0.69 | FALSE |
3 | GTEx | Artery Aorta | ZDHHC24 | 0.09 | 0.09 | lasso | 2 | 0.06 | 2.0e-04 | 5.2 | 5.2 | 2.3e-07 | -0.14 | 0.30 | 0.57 | FALSE |
4 | GTEx | Artery Tibial | RAD9A | 0.39 | 0.26 | lasso | 2 | 0.24 | 3.5e-19 | -10.1 | -10.1 | 5.5e-24 | 1.00 | 0.00 | 1.00 | FALSE |
5 | GTEx | Artery Tibial | DPP3 | 0.07 | 0.04 | lasso | 3 | 0.03 | 3.2e-03 | 5.2 | -5.3 | 1.3e-07 | 0.13 | 0.22 | 0.73 | FALSE |
6 | GTEx | Artery Tibial | CTD-3074O7.12 | 0.08 | 0.01 | enet | 15 | 0.03 | 2.6e-03 | -3.3 | -5.7 | 1.4e-08 | 0.23 | 0.11 | 0.85 | TRUE |
7 | GTEx | Brain Cerebellar Hemisphere | ZDHHC24 | 0.22 | 0.11 | enet | 15 | 0.16 | 8.2e-05 | 5.2 | -5.7 | 9.7e-09 | 0.08 | 0.06 | 0.70 | TRUE |
8 | GTEx | Breast Mammary Tissue | DPP3 | 0.14 | 0.07 | lasso | 2 | 0.05 | 1.5e-03 | 4.9 | -5.7 | 1.0e-08 | 0.11 | 0.04 | 0.94 | FALSE |
9 | GTEx | Cells EBV-transformed lymphocytes | CCS | 0.21 | 0.24 | enet | 11 | 0.21 | 2.0e-07 | 5.5 | -5.5 | 3.9e-08 | 0.22 | 0.06 | 0.94 | FALSE |
10 | GTEx | Cells Transformed fibroblasts | RAD9A | 0.24 | 0.16 | lasso | 3 | 0.16 | 3.6e-12 | -10.1 | -9.0 | 1.8e-19 | 0.92 | 0.00 | 1.00 | FALSE |
11 | GTEx | Cells Transformed fibroblasts | CTD-3074O7.12 | 0.19 | 0.00 | enet | 20 | 0.03 | 3.5e-03 | -3.3 | -5.2 | 1.7e-07 | 0.14 | 0.03 | 0.88 | FALSE |
12 | GTEx | Colon Transverse | RAD9A | 0.40 | 0.16 | lasso | 8 | 0.16 | 7.2e-08 | -10.1 | -8.6 | 6.8e-18 | 0.88 | 0.00 | 1.00 | FALSE |
13 | GTEx | Esophagus Muscularis | TCIRG1 | 0.10 | 0.09 | lasso | 2 | 0.06 | 8.7e-05 | -3.7 | 5.4 | 7.5e-08 | -0.43 | 0.20 | 0.07 | FALSE |
14 | GTEx | Esophagus Muscularis | IGHMBP2 | 0.12 | 0.06 | enet | 17 | 0.06 | 9.4e-05 | 4.3 | 6.3 | 3.7e-10 | 0.05 | 0.60 | 0.31 | TRUE |
15 | GTEx | Esophagus Muscularis | RAD9A | 0.25 | 0.26 | lasso | 2 | 0.26 | 6.2e-16 | -10.1 | -10.6 | 3.1e-26 | 0.99 | 0.00 | 1.00 | TRUE |
16 | GTEx | Esophagus Muscularis | MRGPRF | 0.09 | 0.01 | lasso | 3 | 0.01 | 1.3e-01 | -5.3 | 6.0 | 1.5e-09 | 0.02 | 0.02 | 0.81 | FALSE |
17 | GTEx | Muscle Skeletal | RAD9A | 0.12 | 0.02 | lasso | 4 | 0.03 | 4.2e-04 | -10.1 | -7.8 | 9.0e-15 | 0.83 | 0.00 | 0.99 | FALSE |
18 | GTEx | Nerve Tibial | RAD9A | 0.53 | 0.24 | lasso | 10 | 0.23 | 5.6e-16 | -10.1 | -9.7 | 4.8e-22 | 0.99 | 0.00 | 1.00 | FALSE |
19 | GTEx | Nerve Tibial | CTD-3074O7.12 | 0.14 | 0.10 | lasso | 8 | 0.11 | 5.6e-08 | 5.2 | -5.3 | 1.3e-07 | 0.17 | 0.29 | 0.70 | TRUE |
20 | GTEx | Pancreas | DPP3 | 0.19 | 0.13 | lasso | 8 | 0.14 | 1.4e-06 | 4.9 | -5.7 | 9.3e-09 | 0.15 | 0.31 | 0.68 | FALSE |
21 | GTEx | Skin Not Sun Exposed Suprapubic | DPP3 | 0.08 | 0.09 | lasso | 1 | 0.08 | 2.3e-05 | 5.2 | -5.2 | 2.0e-07 | 0.13 | 0.27 | 0.64 | FALSE |
22 | GTEx | Testis | RAD9A | 0.72 | 0.50 | lasso | 4 | 0.49 | 1.1e-24 | -10.1 | -10.0 | 1.2e-23 | 1.00 | 0.00 | 1.00 | FALSE |
23 | GTEx | Testis | CTD-3074O7.5 | 0.22 | 0.16 | enet | 16 | 0.19 | 8.0e-09 | 5.2 | 5.3 | 1.4e-07 | -0.18 | 0.32 | 0.68 | FALSE |
24 | GTEx | Thyroid | RAD9A | 0.27 | 0.07 | lasso | 6 | 0.20 | 1.8e-15 | -10.1 | -7.2 | 8.5e-13 | 0.70 | 0.00 | 1.00 | TRUE |
25 | GTEx | Vagina | CTD-3074O7.5 | 0.17 | 0.16 | lasso | 5 | 0.11 | 1.7e-03 | 5.2 | -5.3 | 1.4e-07 | 0.14 | 0.10 | 0.55 | FALSE |
26 | METSIM | Adipose | CTD-3074O7.12 | 0.12 | 0.12 | bslmm | 265 | 0.12 | 4.2e-18 | 5.1 | -5.8 | 7.7e-09 | 0.24 | 0.35 | 0.65 | TRUE |
27 | METSIM | Adipose | MTL5 | 0.07 | 0.04 | bslmm | 420 | 0.04 | 2.7e-06 | 4.4 | 5.8 | 7.6e-09 | 0.01 | 0.99 | 0.00 | FALSE |
28 | NTR | Blood | CCS | 0.03 | 0.04 | lasso | 2 | 0.04 | 1.2e-11 | 5.5 | -5.7 | 1.5e-08 | 0.23 | 0.05 | 0.95 | FALSE |
29 | NTR | Blood | MRPL21 | 0.06 | 0.07 | enet | 19 | 0.07 | 7.0e-23 | 4.5 | -5.6 | 2.4e-08 | -0.03 | 1.00 | 0.00 | FALSE |
30 | ROSMAP | Brain Pre-frontal Cortex | PPP6R3 | 0.04 | 0.01 | blup | 421 | 0.02 | 3.2e-04 | -4.7 | 5.3 | 1.1e-07 | -0.03 | 0.22 | 0.76 | TRUE |
31 | ROSMAP | Brain Pre-frontal Cortex | RAD9A | 0.34 | 0.17 | enet | 21 | 0.20 | 1.1e-25 | -10.1 | -9.3 | 8.6e-21 | 0.89 | 0.00 | 1.00 | TRUE |
32 | ROSMAP | Brain Pre-frontal Cortex | CCS | 0.08 | 0.04 | lasso | 9 | 0.06 | 8.9e-08 | 5.5 | -5.7 | 9.4e-09 | 0.20 | 0.07 | 0.93 | FALSE |
33 | YFS | Blood | CATSPER1 | 0.02 | 0.01 | blup | 352 | 0.01 | 5.5e-04 | -4.6 | 5.8 | 5.5e-09 | -0.21 | 0.03 | 0.95 | FALSE |
34 | YFS | Blood | RAD9A | 0.08 | 0.02 | lasso | 7 | 0.04 | 5.4e-12 | -10.1 | -7.3 | 2.4e-13 | 0.78 | 0.00 | 1.00 | FALSE |
35 | The Cancer Genome Atlas | Bladder Urothelial Carcinoma | DPP3 | 0.03 | 0.03 | blup | 41 | 0.02 | 9.5e-03 | 5.2 | -5.2 | 1.8e-07 | 0.10 | 0.04 | 0.71 | FALSE |
36 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | DPP3 | 0.05 | 0.02 | blup | 41 | 0.02 | 2.8e-02 | 4.9 | -5.4 | 6.0e-08 | 0.15 | 0.02 | 0.68 | FALSE |
37 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | ZDHHC24 | 0.03 | 0.03 | blup | 47 | 0.03 | 1.5e-04 | 5.2 | 5.3 | 9.2e-08 | -0.20 | 0.05 | 0.92 | FALSE |
38 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CCDC87 | 0.03 | 0.02 | blup | 34 | 0.02 | 2.0e-03 | 5.8 | 6.9 | 4.0e-12 | -0.13 | 0.01 | 0.81 | TRUE |
39 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | SAPS3 | 0.04 | 0.02 | blup | 84 | 0.04 | 2.5e-05 | -4.4 | 5.8 | 6.0e-09 | 0.00 | 0.19 | 0.80 | FALSE |
40 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | DPP3 | 0.05 | 0.07 | lasso | 5 | 0.06 | 1.4e-04 | 5.2 | -5.2 | 2.4e-07 | 0.13 | 0.05 | 0.81 | FALSE |
41 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CTSF | 0.05 | 0.04 | blup | 35 | 0.04 | 1.2e-05 | 5.2 | 5.6 | 1.9e-08 | -0.16 | 0.03 | 0.96 | FALSE |
42 | The Cancer Genome Atlas | Lung Adenocarcinoma | ZDHHC24 | 0.03 | 0.04 | lasso | 1 | 0.04 | 6.4e-06 | 5.2 | 5.2 | 1.8e-07 | -0.13 | 0.07 | 0.92 | FALSE |
43 | The Cancer Genome Atlas | Thyroid Carcinoma | PELI3 | 0.04 | 0.04 | enet | 4 | 0.03 | 9.0e-04 | 5.2 | -5.2 | 1.8e-07 | 0.12 | 0.01 | 0.90 | TRUE |