Best TWAS P=6.22e-37 · Best GWAS P=4.38e-34 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 | SF3B2 | 0.03 | 0.03 | lasso | 2 | 0.03 | 1.5e-04 | -4.98 | 5.2 | 2.0e-07 | -0.14 | 0.11 | 0.88 | TRUE |
2 | GTEx | Adipose Subcutaneous | RAD9A | 0.43 | 0.22 | lasso | 6 | 0.23 | 7.1e-19 | -12.17 | -11.5 | 9.3e-31 | 0.97 | 0.00 | 1.00 | FALSE |
3 | GTEx | Adrenal Gland | RAD9A | 0.46 | 0.08 | lasso | 3 | 0.22 | 2.9e-08 | 0.25 | -6.0 | 2.5e-09 | 0.53 | 0.11 | 0.87 | TRUE |
4 | GTEx | Artery Aorta | ZDHHC24 | 0.09 | 0.09 | lasso | 2 | 0.06 | 2.0e-04 | 5.16 | 5.2 | 2.3e-07 | -0.14 | 0.52 | 0.25 | FALSE |
5 | GTEx | Artery Tibial | RAD9A | 0.39 | 0.26 | lasso | 2 | 0.24 | 3.5e-19 | -12.17 | -12.2 | 5.4e-34 | 1.00 | 0.00 | 1.00 | FALSE |
6 | GTEx | Artery Tibial | DPP3 | 0.07 | 0.04 | lasso | 3 | 0.03 | 3.2e-03 | 5.17 | -5.3 | 1.4e-07 | 0.13 | 0.41 | 0.50 | FALSE |
7 | GTEx | Artery Tibial | CTD-3074O7.12 | 0.08 | 0.01 | enet | 15 | 0.03 | 2.6e-03 | -3.19 | -5.3 | 1.4e-07 | 0.23 | 0.40 | 0.43 | TRUE |
8 | GTEx | Brain Cerebellar Hemisphere | ZDHHC24 | 0.22 | 0.11 | enet | 15 | 0.16 | 8.2e-05 | 5.13 | -5.2 | 2.0e-07 | 0.08 | 0.18 | 0.17 | TRUE |
9 | GTEx | Breast Mammary Tissue | DPP3 | 0.14 | 0.07 | lasso | 2 | 0.05 | 1.5e-03 | 4.74 | -5.4 | 5.9e-08 | 0.11 | 0.39 | 0.38 | FALSE |
10 | GTEx | Cells Transformed fibroblasts | RAD9A | 0.24 | 0.16 | lasso | 3 | 0.16 | 3.6e-12 | -12.17 | -11.3 | 1.1e-29 | 0.92 | 0.00 | 1.00 | FALSE |
11 | GTEx | Colon Transverse | RAD9A | 0.40 | 0.16 | lasso | 8 | 0.16 | 7.2e-08 | -12.17 | -10.7 | 1.4e-26 | 0.88 | 0.00 | 1.00 | FALSE |
12 | GTEx | Esophagus Gastroesophageal Junction | KCNK7 | 0.28 | 0.01 | enet | 42 | 0.15 | 5.9e-06 | 0.21 | -5.3 | 1.1e-07 | 0.05 | 0.03 | 0.40 | TRUE |
13 | GTEx | Esophagus Muscularis | TCIRG1 | 0.10 | 0.09 | lasso | 2 | 0.06 | 8.7e-05 | -5.20 | 6.3 | 2.9e-10 | -0.43 | 0.13 | 0.41 | FALSE |
14 | GTEx | Esophagus Muscularis | IGHMBP2 | 0.12 | 0.06 | enet | 17 | 0.06 | 9.4e-05 | 3.59 | 5.3 | 9.1e-08 | 0.05 | 0.62 | 0.28 | FALSE |
15 | GTEx | Esophagus Muscularis | RAD9A | 0.25 | 0.26 | lasso | 2 | 0.26 | 6.2e-16 | -12.17 | -12.7 | 6.2e-37 | 0.99 | 0.00 | 1.00 | TRUE |
16 | GTEx | Esophagus Muscularis | MRGPRF | 0.09 | 0.01 | lasso | 3 | 0.01 | 1.3e-01 | -5.15 | 5.8 | 7.0e-09 | 0.02 | 0.03 | 0.77 | TRUE |
17 | GTEx | Muscle Skeletal | SF3B2 | 0.14 | 0.09 | lasso | 6 | 0.09 | 9.5e-09 | -4.95 | 5.1 | 3.1e-07 | -0.15 | 0.07 | 0.93 | FALSE |
18 | GTEx | Muscle Skeletal | RAD9A | 0.12 | 0.02 | lasso | 4 | 0.03 | 4.2e-04 | -12.17 | -9.4 | 4.2e-21 | 0.83 | 0.00 | 0.99 | FALSE |
19 | GTEx | Nerve Tibial | SF3B2 | 0.13 | 0.12 | lasso | 3 | 0.10 | 2.3e-07 | -4.89 | 5.2 | 1.7e-07 | -0.15 | 0.05 | 0.94 | FALSE |
20 | GTEx | Nerve Tibial | RAD9A | 0.53 | 0.24 | lasso | 10 | 0.23 | 5.6e-16 | -12.17 | -11.9 | 9.5e-33 | 0.99 | 0.00 | 1.00 | FALSE |
21 | GTEx | Pancreas | DPP3 | 0.19 | 0.13 | lasso | 8 | 0.14 | 1.4e-06 | 4.74 | -5.7 | 1.5e-08 | 0.15 | 0.66 | 0.31 | FALSE |
22 | GTEx | Skin Not Sun Exposed Suprapubic | DPP3 | 0.08 | 0.09 | lasso | 1 | 0.08 | 2.3e-05 | 5.13 | -5.1 | 2.9e-07 | 0.13 | 0.54 | 0.28 | FALSE |
23 | GTEx | Skin Sun Exposed Lower leg | RAD9A | 0.33 | 0.02 | enet | 48 | 0.12 | 4.4e-10 | -12.17 | -5.2 | 2.6e-07 | 0.43 | 0.00 | 1.00 | TRUE |
24 | GTEx | Testis | RAD9A | 0.72 | 0.50 | lasso | 4 | 0.49 | 1.1e-24 | -12.17 | -12.1 | 7.7e-34 | 1.00 | 0.00 | 1.00 | FALSE |
25 | GTEx | Testis | CTD-3074O7.5 | 0.22 | 0.16 | enet | 16 | 0.19 | 8.0e-09 | 5.18 | 5.2 | 1.6e-07 | -0.18 | 0.69 | 0.31 | FALSE |
26 | GTEx | Thyroid | RAD9A | 0.27 | 0.07 | lasso | 6 | 0.20 | 1.8e-15 | -12.17 | -9.3 | 1.3e-20 | 0.70 | 0.00 | 1.00 | FALSE |
27 | GTEx | Whole Blood | SF3B2 | 0.09 | 0.07 | lasso | 11 | 0.05 | 1.7e-05 | -4.89 | 5.6 | 2.3e-08 | -0.14 | 0.10 | 0.89 | FALSE |
28 | METSIM | Adipose | CTD-3074O7.12 | 0.12 | 0.12 | bslmm | 265 | 0.12 | 4.2e-18 | 5.05 | -5.5 | 4.9e-08 | 0.24 | 0.73 | 0.27 | TRUE |
29 | NTR | Blood | CCS | 0.03 | 0.04 | lasso | 2 | 0.04 | 1.2e-11 | 4.96 | -5.3 | 1.1e-07 | 0.23 | 0.08 | 0.92 | FALSE |
30 | ROSMAP | Brain Pre-frontal Cortex | RAD9A | 0.34 | 0.17 | enet | 21 | 0.20 | 1.1e-25 | -12.17 | -11.3 | 1.0e-29 | 0.89 | 0.00 | 1.00 | FALSE |
31 | ROSMAP | Brain Pre-frontal Cortex | CCS | 0.08 | 0.04 | lasso | 9 | 0.06 | 8.9e-08 | 5.02 | -5.4 | 8.3e-08 | 0.20 | 0.34 | 0.66 | FALSE |
32 | ROSMAP | Brain Pre-frontal Cortex | CTSF | 0.07 | 0.08 | blup | 244 | 0.07 | 1.6e-09 | 5.16 | 5.1 | 2.9e-07 | -0.15 | 0.66 | 0.34 | TRUE |
33 | YFS | Blood | CATSPER1 | 0.02 | 0.01 | blup | 352 | 0.01 | 5.5e-04 | -4.78 | 5.8 | 8.4e-09 | -0.21 | 0.03 | 0.95 | FALSE |
34 | YFS | Blood | RAD9A | 0.08 | 0.02 | lasso | 7 | 0.04 | 5.4e-12 | -12.17 | -9.2 | 3.9e-20 | 0.78 | 0.00 | 1.00 | FALSE |
35 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | DPP3 | 0.05 | 0.02 | blup | 41 | 0.02 | 2.8e-02 | 4.70 | -5.3 | 1.3e-07 | 0.15 | 0.02 | 0.67 | FALSE |
36 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | ZDHHC24 | 0.03 | 0.03 | blup | 47 | 0.03 | 1.5e-04 | 5.16 | 5.2 | 1.6e-07 | -0.20 | 0.03 | 0.95 | FALSE |
37 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CCDC87 | 0.03 | 0.02 | blup | 34 | 0.02 | 2.0e-03 | 5.42 | 6.6 | 4.6e-11 | -0.13 | 0.03 | 0.40 | TRUE |
38 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | SAPS3 | 0.04 | 0.02 | blup | 84 | 0.04 | 2.5e-05 | -3.40 | 5.2 | 1.7e-07 | 0.00 | 0.22 | 0.77 | FALSE |
39 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | DPP3 | 0.05 | 0.07 | lasso | 5 | 0.06 | 1.4e-04 | 5.16 | -5.2 | 2.4e-07 | 0.13 | 0.02 | 0.90 | FALSE |
40 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CTSF | 0.05 | 0.04 | blup | 35 | 0.04 | 1.2e-05 | 5.12 | 5.5 | 5.1e-08 | -0.16 | 0.02 | 0.98 | TRUE |
41 | The Cancer Genome Atlas | Lung Adenocarcinoma | BANF1 | 0.03 | 0.00 | blup | 44 | 0.02 | 3.9e-03 | -2.76 | 5.2 | 2.3e-07 | -0.13 | 0.02 | 0.40 | FALSE |
42 | The Cancer Genome Atlas | Lung Adenocarcinoma | ZDHHC24 | 0.03 | 0.04 | lasso | 1 | 0.04 | 6.4e-06 | 5.12 | 5.1 | 3.0e-07 | -0.13 | 0.03 | 0.96 | FALSE |
43 | The Cancer Genome Atlas | Rectum Adenocarcinoma | RPS6KB2 | 0.17 | 0.13 | lasso | 2 | 0.12 | 1.2e-03 | 5.46 | -5.2 | 1.6e-07 | 0.14 | 0.00 | 0.90 | FALSE |
44 | The Cancer Genome Atlas | Thyroid Carcinoma | PELI3 | 0.04 | 0.04 | enet | 4 | 0.03 | 9.0e-04 | 5.15 | -5.4 | 6.5e-08 | 0.12 | 0.02 | 0.87 | TRUE |