Best TWAS P=1.51e-58 · Best GWAS P=8.04e-68 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 | LOC100506746 | 0.05 | 0.01 | bslmm | 325 | 0.02 | 4.6e-04 | -3.79 | 8.2 | 3.0e-16 | -0.02 | 0.05 | 0.45 | TRUE |
2 | CommonMind | Brain Pre-frontal Cortex | MEPE | 0.15 | 0.05 | bslmm | 513 | 0.07 | 9.7e-09 | -13.82 | 7.2 | 5.4e-13 | 0.11 | 1.00 | 0.00 | FALSE |
3 | CommonMind | Brain Pre-frontal Cortex | PKD2 | 0.17 | 0.10 | enet | 15 | 0.16 | 2.1e-18 | 7.55 | 6.3 | 3.1e-10 | 0.35 | 1.00 | 0.00 | FALSE |
4 | GTEx | Adipose Subcutaneous | RP13-514E23.2 | 0.09 | 0.03 | enet | 11 | 0.04 | 2.0e-04 | 11.51 | 9.0 | 1.6e-19 | 0.01 | 0.06 | 0.83 | TRUE |
5 | GTEx | Artery Aorta | ARHGAP24 | 0.24 | 0.13 | enet | 8 | 0.14 | 2.2e-08 | 11.51 | 13.4 | 6.3e-41 | 0.04 | 0.01 | 0.99 | TRUE |
6 | GTEx | Artery Aorta | RP13-514E23.2 | 0.26 | 0.09 | lasso | 6 | 0.10 | 2.2e-06 | 12.67 | 13.3 | 2.6e-40 | 0.04 | 0.00 | 1.00 | FALSE |
7 | GTEx | Artery Tibial | ARHGAP24 | 0.26 | 0.19 | enet | 14 | 0.21 | 2.7e-16 | 12.67 | 13.1 | 2.2e-39 | 0.04 | 0.00 | 1.00 | TRUE |
8 | GTEx | Artery Tibial | AFF1 | 0.10 | 0.06 | lasso | 5 | 0.06 | 2.4e-05 | -8.97 | -6.8 | 8.9e-12 | -0.03 | 0.82 | 0.07 | FALSE |
9 | GTEx | Artery Tibial | RP11-397E7.4 | 0.07 | 0.03 | lasso | 7 | 0.03 | 4.2e-03 | 5.89 | -6.4 | 1.4e-10 | 0.02 | 0.38 | 0.20 | FALSE |
10 | GTEx | Artery Tibial | RP13-514E23.2 | 0.22 | 0.16 | enet | 10 | 0.18 | 1.2e-13 | 12.67 | 13.4 | 5.6e-41 | 0.03 | 0.00 | 1.00 | FALSE |
11 | GTEx | Brain Cortex | HSD17B13 | 0.28 | 0.23 | enet | 10 | 0.26 | 8.9e-08 | 3.20 | 5.2 | 2.6e-07 | -0.01 | 0.44 | 0.06 | TRUE |
12 | GTEx | Breast Mammary Tissue | HSD17B11 | 0.27 | 0.01 | enet | 40 | 0.03 | 8.1e-03 | 5.65 | 5.8 | 7.7e-09 | 0.29 | 0.07 | 0.44 | FALSE |
13 | GTEx | Breast Mammary Tissue | RP11-529H2.2 | 0.22 | 0.07 | enet | 9 | 0.06 | 6.3e-04 | 5.65 | 5.4 | 7.4e-08 | -0.03 | 0.38 | 0.03 | FALSE |
14 | GTEx | Breast Mammary Tissue (Female) | HSD17B11 | 0.14 | -0.01 | lasso | 2 | 0.01 | 2.1e-01 | 5.62 | 7.2 | 6.8e-13 | -0.01 | 0.04 | 0.11 | FALSE |
15 | GTEx | Colon Sigmoid | PPM1K | 0.25 | 0.01 | lasso | 7 | 0.00 | 4.8e-01 | 13.27 | 9.5 | 1.5e-21 | 0.46 | 0.05 | 0.21 | FALSE |
16 | GTEx | Colon Sigmoid | RP11-397E7.4 | 0.26 | 0.25 | lasso | 2 | 0.23 | 1.1e-08 | 6.39 | -6.3 | 3.1e-10 | 0.03 | 0.86 | 0.07 | FALSE |
17 | GTEx | Colon Transverse | RP11-397E7.4 | 0.07 | 0.05 | lasso | 7 | 0.02 | 2.6e-02 | 6.54 | -8.5 | 2.3e-17 | 0.01 | 0.05 | 0.69 | FALSE |
18 | GTEx | Esophagus Gastroesophageal Junction | RP11-397E7.4 | 0.17 | 0.01 | lasso | 10 | 0.02 | 7.0e-02 | 6.91 | -8.5 | 1.4e-17 | 0.00 | 0.12 | 0.24 | FALSE |
19 | GTEx | Esophagus Muscularis | HSD17B13 | 0.12 | 0.04 | lasso | 5 | 0.02 | 1.9e-02 | -5.30 | 5.4 | 6.5e-08 | -0.03 | 0.09 | 0.04 | FALSE |
20 | GTEx | Esophagus Muscularis | AFF1 | 0.11 | 0.09 | lasso | 2 | 0.10 | 1.3e-06 | 5.64 | -5.3 | 8.8e-08 | -0.04 | 0.84 | 0.09 | FALSE |
21 | GTEx | Esophagus Muscularis | HSD17B11 | 0.29 | 0.05 | enet | 66 | 0.07 | 6.9e-05 | 6.29 | 7.2 | 7.6e-13 | 0.01 | 0.65 | 0.03 | TRUE |
22 | GTEx | Esophagus Muscularis | RP11-397E7.4 | 0.13 | 0.15 | lasso | 2 | 0.14 | 1.4e-08 | 6.39 | -6.4 | 1.4e-10 | 0.02 | 0.98 | 0.01 | FALSE |
23 | GTEx | Heart Atrial Appendage | SPP1 | 0.25 | 0.09 | enet | 24 | 0.10 | 3.6e-05 | 10.90 | 9.2 | 3.2e-20 | 0.22 | 0.99 | 0.00 | FALSE |
24 | GTEx | Lung | RP11-397E7.4 | 0.11 | 0.04 | enet | 7 | 0.02 | 9.0e-03 | 6.54 | -7.3 | 3.2e-13 | -0.01 | 0.10 | 0.57 | TRUE |
25 | GTEx | Nerve Tibial | MAPK10 | 0.08 | 0.01 | enet | 17 | 0.03 | 1.7e-03 | 0.26 | -5.4 | 7.6e-08 | 0.00 | 0.40 | 0.03 | TRUE |
26 | GTEx | Nerve Tibial | SPP1 | 0.15 | 0.08 | lasso | 3 | 0.08 | 2.4e-06 | 15.89 | 16.1 | 1.5e-58 | 0.82 | 0.03 | 0.96 | TRUE |
27 | GTEx | Nerve Tibial | ARHGAP24 | 0.24 | 0.04 | enet | 47 | 0.07 | 5.6e-06 | 3.71 | 6.6 | 3.0e-11 | -0.04 | 0.29 | 0.18 | FALSE |
28 | GTEx | Nerve Tibial | HSD17B11 | 0.26 | 0.05 | enet | 16 | 0.09 | 4.9e-07 | -0.90 | 5.6 | 2.5e-08 | 0.10 | 0.64 | 0.10 | FALSE |
29 | GTEx | Nerve Tibial | RP13-514E23.2 | 0.17 | 0.00 | lasso | 6 | 0.00 | 1.9e-01 | 12.23 | 8.1 | 8.4e-16 | 0.07 | 0.05 | 0.28 | TRUE |
30 | GTEx | Ovary | PTPN13 | 0.18 | -0.01 | enet | 29 | 0.07 | 8.4e-03 | 0.23 | -5.7 | 1.1e-08 | 0.02 | 0.05 | 0.55 | FALSE |
31 | GTEx | Prostate | MAPK10 | 0.30 | 0.07 | lasso | 9 | 0.18 | 2.4e-05 | -3.48 | -6.5 | 7.5e-11 | 0.01 | 0.14 | 0.10 | TRUE |
32 | GTEx | Spleen | RP11-397E7.4 | 0.31 | 0.19 | lasso | 10 | 0.18 | 1.7e-05 | 4.81 | -7.3 | 2.5e-13 | 0.00 | 0.12 | 0.50 | FALSE |
33 | GTEx | Testis | PKD2 | 0.45 | 0.48 | lasso | 6 | 0.47 | 2.1e-23 | 8.24 | 8.3 | 1.4e-16 | 0.22 | 1.00 | 0.00 | FALSE |
34 | GTEx | Testis | C4orf36 | 0.21 | 0.15 | lasso | 4 | 0.14 | 6.6e-07 | 7.08 | 7.0 | 2.3e-12 | 0.03 | 0.58 | 0.40 | FALSE |
35 | GTEx | Thyroid | HSD17B13 | 0.20 | 0.04 | enet | 37 | 0.14 | 1.4e-10 | 0.15 | -5.8 | 6.0e-09 | 0.04 | 0.40 | 0.27 | FALSE |
36 | GTEx | Thyroid | RP11-397E7.4 | 0.05 | 0.03 | lasso | 6 | 0.03 | 1.7e-03 | 6.54 | -7.5 | 5.0e-14 | 0.01 | 0.28 | 0.32 | FALSE |
37 | METSIM | Adipose | AFF1 | 0.06 | 0.05 | lasso | 11 | 0.06 | 8.1e-09 | 9.65 | -10.8 | 3.8e-27 | -0.03 | 0.01 | 0.99 | TRUE |
38 | METSIM | Adipose | HSD17B13 | 0.20 | 0.10 | bslmm | 416 | 0.12 | 7.3e-18 | -5.30 | 8.6 | 5.8e-18 | -0.09 | 1.00 | 0.00 | FALSE |
39 | NTR | Blood | PPM1K | 0.02 | 0.00 | blup | 468 | 0.00 | 1.8e-02 | 5.98 | -7.5 | 7.0e-14 | -0.10 | 0.09 | 0.02 | FALSE |
40 | NTR | Blood | SPP1 | 0.19 | 0.08 | lasso | 10 | 0.18 | 6.2e-56 | -9.59 | -5.7 | 1.4e-08 | -0.30 | 1.00 | 0.00 | TRUE |
41 | ROSMAP | Brain Pre-frontal Cortex | PKD2 | 0.11 | 0.09 | lasso | 13 | 0.11 | 3.3e-14 | 6.71 | 9.9 | 3.1e-23 | 0.28 | 1.00 | 0.00 | TRUE |
42 | ROSMAP | Brain Pre-frontal Cortex | KLHL8 | 0.06 | 0.06 | lasso | 2 | 0.05 | 7.0e-07 | -6.39 | -5.8 | 5.4e-09 | 0.02 | 1.00 | 0.00 | TRUE |
43 | ROSMAP | Brain Pre-frontal Cortex | MEPE | 0.17 | 0.12 | bslmm | 496 | 0.12 | 1.1e-14 | -13.82 | 11.6 | 4.3e-31 | 0.06 | 1.00 | 0.00 | TRUE |
44 | The Cancer Genome Atlas | Breast Invasive Carcinoma | IBSP | 0.05 | 0.05 | lasso | 6 | 0.07 | 1.2e-13 | 9.62 | -13.4 | 6.0e-41 | -0.08 | 1.00 | 0.00 | TRUE |
45 | The Cancer Genome Atlas | Breast Invasive Carcinoma | SPP1 | 0.04 | 0.00 | enet | 11 | 0.01 | 3.3e-03 | 9.08 | 13.0 | 1.8e-38 | 0.74 | 0.01 | 0.83 | FALSE |
46 | The Cancer Genome Atlas | Colon Adenocarcinoma | IBSP | 0.09 | 0.02 | enet | 15 | 0.07 | 9.4e-05 | 8.93 | -8.8 | 1.4e-18 | 0.03 | 0.06 | 0.05 | TRUE |
47 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | IBSP | 0.10 | 0.05 | enet | 8 | 0.09 | 1.5e-10 | 5.61 | -12.0 | 4.4e-33 | -0.24 | 1.00 | 0.00 | TRUE |
48 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | MEPE | 0.08 | 0.01 | blup | 87 | 0.05 | 2.3e-06 | 16.38 | 15.5 | 3.7e-54 | 0.47 | 0.25 | 0.46 | TRUE |
49 | The Cancer Genome Atlas | Brain Lower Grade Glioma | IBSP | 0.06 | 0.01 | blup | 78 | 0.03 | 8.2e-05 | 12.95 | -10.9 | 8.7e-28 | -0.24 | 0.19 | 0.05 | FALSE |
50 | The Cancer Genome Atlas | Lung Adenocarcinoma | DMP1 | 0.05 | 0.04 | enet | 4 | 0.04 | 2.1e-05 | 6.43 | -8.9 | 5.7e-19 | 0.15 | 0.04 | 0.92 | FALSE |
51 | The Cancer Genome Atlas | Lung Adenocarcinoma | IBSP | 0.06 | 0.01 | blup | 78 | 0.03 | 7.7e-05 | 9.62 | -8.9 | 8.0e-19 | 0.08 | 0.33 | 0.03 | TRUE |
52 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | DMP1 | 0.09 | 0.04 | blup | 46 | 0.05 | 2.6e-06 | 6.90 | -6.0 | 2.0e-09 | -0.10 | 0.64 | 0.02 | TRUE |
53 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | IBSP | 0.03 | 0.01 | blup | 78 | 0.03 | 2.8e-04 | -12.09 | -12.6 | 2.1e-36 | -0.35 | 0.08 | 0.12 | TRUE |
54 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | IBSP | 0.16 | 0.05 | blup | 76 | 0.08 | 3.6e-06 | -10.92 | -12.2 | 3.8e-34 | -0.20 | 0.95 | 0.00 | FALSE |
55 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | SPP1 | 0.14 | 0.03 | blup | 64 | 0.07 | 1.0e-03 | 16.04 | 8.8 | 1.1e-18 | 0.54 | 0.00 | 0.86 | FALSE |