Best TWAS P=1.51e-13 · Best GWAS P=4.18e-19 conditioned to 0.619
# | 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 | COG4 | 0.19 | 0.23 | enet | 28 | 0.27 | 4.3e-33 | -4.6 | 6.2 | 6.0e-10 | 0.32 | 0.78 | 0.22 | FALSE |
2 | CommonMind | Brain Pre-frontal Cortex | NOB1 | 0.04 | 0.05 | enet | 12 | 0.04 | 7.2e-06 | -5.7 | 6.2 | 6.3e-10 | 0.61 | 0.86 | 0.12 | FALSE |
3 | GTEx | Adipose Subcutaneous | NFAT5 | 0.09 | 0.02 | enet | 19 | 0.05 | 8.2e-05 | -2.6 | -5.8 | 6.1e-09 | -0.53 | 0.08 | 0.65 | TRUE |
4 | GTEx | Brain Nucleus accumbens basal ganglia | PDXDC2P | 0.26 | 0.17 | lasso | 5 | 0.13 | 2.2e-04 | 5.7 | 5.5 | 4.7e-08 | 0.44 | 0.34 | 0.05 | FALSE |
5 | GTEx | Cells Transformed fibroblasts | COG4 | 0.23 | 0.18 | lasso | 5 | 0.20 | 1.3e-14 | -4.7 | 6.0 | 2.6e-09 | 0.26 | 0.77 | 0.23 | FALSE |
6 | GTEx | Esophagus Mucosa | COG4 | 0.14 | 0.06 | lasso | 4 | 0.08 | 7.8e-06 | -4.6 | 5.9 | 3.7e-09 | 0.26 | 0.33 | 0.63 | FALSE |
7 | GTEx | Skin Sun Exposed Lower leg | COG4 | 0.08 | 0.03 | enet | 13 | 0.04 | 3.8e-04 | 5.4 | 5.4 | 8.8e-08 | 0.22 | 0.01 | 0.96 | FALSE |
8 | GTEx | Testis | WWP2 | 0.30 | 0.10 | lasso | 5 | 0.16 | 9.2e-08 | -4.3 | -6.3 | 2.2e-10 | -0.54 | 0.65 | 0.05 | FALSE |
9 | GTEx | Thyroid | NOB1 | 0.03 | 0.01 | enet | 6 | 0.02 | 7.7e-03 | -6.6 | 7.4 | 1.5e-13 | 0.77 | 0.09 | 0.71 | TRUE |
10 | GTEx | Thyroid | CTD-2033A16.3 | 0.03 | 0.02 | enet | 7 | 0.02 | 6.7e-03 | -4.4 | 6.7 | 1.9e-11 | 0.69 | 0.12 | 0.57 | FALSE |
11 | METSIM | Adipose | NOB1 | 0.03 | 0.03 | lasso | 2 | 0.03 | 2.8e-05 | -5.0 | 6.2 | 7.1e-10 | 0.76 | 0.10 | 0.88 | FALSE |
12 | METSIM | Adipose | WWP2 | 0.08 | 0.04 | enet | 19 | 0.07 | 2.7e-10 | 6.6 | 6.3 | 2.6e-10 | 0.74 | 0.43 | 0.57 | FALSE |
13 | The Cancer Genome Atlas | Breast Invasive Carcinoma | NFAT5 | 0.02 | 0.01 | enet | 5 | 0.01 | 6.6e-04 | -2.7 | -6.2 | 5.4e-10 | -0.64 | 0.02 | 0.54 | FALSE |
14 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | CLEC18A | 0.10 | 0.06 | lasso | 2 | 0.04 | 6.3e-03 | 5.5 | 5.5 | 3.4e-08 | 0.53 | 0.04 | 0.20 | FALSE |
15 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | PDXDC2 | 0.20 | 0.02 | blup | 26 | 0.07 | 1.8e-04 | 5.7 | 6.4 | 1.2e-10 | 0.46 | 0.01 | 0.88 | FALSE |
16 | The Cancer Genome Atlas | Colon Adenocarcinoma | CLEC18A | 0.14 | 0.18 | lasso | 5 | 0.15 | 4.5e-09 | 5.5 | 5.7 | 1.0e-08 | 0.56 | 0.41 | 0.59 | FALSE |
17 | The Cancer Genome Atlas | Glioblastoma Multiforme | PDXDC2 | 0.10 | 0.12 | lasso | 3 | 0.10 | 4.7e-04 | 5.5 | 5.5 | 3.3e-08 | 0.53 | 0.02 | 0.66 | FALSE |
18 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | COG4 | 0.10 | 0.07 | enet | 7 | 0.08 | 1.9e-09 | -4.6 | 6.0 | 1.7e-09 | 0.24 | 0.52 | 0.47 | FALSE |
19 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | PDXDC2 | 0.14 | 0.05 | enet | 6 | 0.05 | 3.2e-06 | 5.7 | 5.7 | 1.4e-08 | 0.42 | 0.01 | 0.99 | FALSE |
20 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CLEC18C | 0.06 | 0.05 | lasso | 1 | 0.04 | 3.8e-05 | 5.7 | 5.7 | 1.1e-08 | 0.44 | 0.52 | 0.29 | FALSE |
21 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | PDXDC2 | 0.03 | 0.04 | enet | 4 | 0.04 | 4.0e-05 | 5.7 | 5.7 | 1.3e-08 | 0.45 | 0.01 | 0.98 | FALSE |
22 | The Cancer Genome Atlas | Brain Lower Grade Glioma | COG4 | 0.08 | 0.08 | lasso | 3 | 0.09 | 1.0e-10 | -3.9 | 5.5 | 3.5e-08 | 0.25 | 0.68 | 0.31 | FALSE |
23 | The Cancer Genome Atlas | Lung Adenocarcinoma | COG4 | 0.03 | 0.00 | blup | 30 | 0.01 | 9.7e-03 | -4.5 | 5.6 | 2.3e-08 | 0.23 | 0.08 | 0.18 | FALSE |
24 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | CLEC18A | 0.06 | 0.10 | lasso | 1 | 0.09 | 6.9e-11 | 5.5 | 5.5 | 3.8e-08 | 0.53 | 0.86 | 0.14 | FALSE |
25 | The Cancer Genome Atlas | Ovarian Serous Cystadenocarcinoma | PDXDC2 | 0.09 | 0.01 | blup | 26 | 0.06 | 4.7e-05 | 5.7 | 5.6 | 2.8e-08 | 0.47 | 0.01 | 0.91 | FALSE |
26 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | COG4 | 0.11 | 0.04 | lasso | 3 | 0.06 | 2.3e-03 | -4.7 | 5.8 | 7.0e-09 | 0.25 | 0.21 | 0.41 | FALSE |
27 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | PDXDC2 | 0.26 | 0.19 | lasso | 3 | 0.23 | 1.3e-09 | 5.7 | 5.2 | 1.7e-07 | 0.43 | 0.01 | 0.99 | FALSE |
28 | The Cancer Genome Atlas | Rectum Adenocarcinoma | CLEC18A | 0.15 | 0.03 | blup | 23 | 0.09 | 4.3e-03 | 5.7 | 6.1 | 1.4e-09 | 0.63 | 0.01 | 0.39 | FALSE |
29 | The Cancer Genome Atlas | Soft Tissue Sarcoma | CLEC18A | 0.12 | 0.11 | lasso | 2 | 0.11 | 3.4e-07 | 5.5 | 5.5 | 3.4e-08 | 0.56 | 0.60 | 0.38 | FALSE |
30 | The Cancer Genome Atlas | Soft Tissue Sarcoma | PDXDC2 | 0.05 | 0.01 | blup | 26 | 0.03 | 9.5e-03 | 5.7 | 6.7 | 2.4e-11 | 0.55 | 0.01 | 0.74 | FALSE |
31 | The Cancer Genome Atlas | Skin Cutaneous Melanoma | CLEC18A | 0.17 | 0.09 | enet | 8 | 0.11 | 8.5e-04 | 5.7 | 6.6 | 4.8e-11 | 0.63 | 0.01 | 0.81 | FALSE |
32 | The Cancer Genome Atlas | Skin Cutaneous Melanoma | COG4 | 0.26 | -0.01 | blup | 30 | 0.02 | 1.1e-01 | -3.6 | 5.6 | 1.6e-08 | 0.25 | 0.02 | 0.28 | FALSE |
33 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | CLEC18A | 0.20 | 0.09 | lasso | 5 | 0.08 | 8.8e-04 | 6.6 | 6.6 | 3.2e-11 | 0.70 | 0.00 | 0.92 | FALSE |
34 | The Cancer Genome Atlas | Thyroid Carcinoma | PDXDC2 | 0.12 | 0.16 | blup | 26 | 0.15 | 1.1e-14 | 5.7 | 5.3 | 1.2e-07 | 0.45 | 0.01 | 0.99 | FALSE |