Best TWAS P=1.68e-14 · Best GWAS P=1.31e-12 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 | TRIP6 | 0.05 | 0.01 | blup | 350 | 0.01 | 1.9e-02 | -1.9 | 6.0 | 1.6e-09 | 0.50 | 0.09 | 0.45 | FALSE |
2 | GTEx | Adipose Subcutaneous | GIGYF1 | 0.14 | 0.10 | enet | 22 | 0.14 | 1.9e-11 | 6.2 | 6.3 | 2.4e-10 | 0.49 | 0.73 | 0.27 | FALSE |
3 | GTEx | Adipose Visceral Omentum | GIGYF1 | 0.12 | 0.07 | lasso | 3 | 0.04 | 5.0e-03 | 6.3 | 6.2 | 6.5e-10 | 0.43 | 0.08 | 0.38 | FALSE |
4 | GTEx | Adrenal Gland | GIGYF1 | 0.23 | 0.14 | lasso | 1 | 0.07 | 1.2e-03 | 6.2 | 6.2 | 7.6e-10 | 0.42 | 0.13 | 0.32 | FALSE |
5 | GTEx | Artery Aorta | TRIP6 | 0.10 | 0.05 | enet | 15 | 0.04 | 3.3e-03 | -4.7 | 5.5 | 4.0e-08 | 0.56 | 0.23 | 0.57 | FALSE |
6 | GTEx | Artery Aorta | ACHE | 0.35 | 0.31 | enet | 35 | 0.32 | 1.9e-18 | 7.1 | 7.3 | 3.6e-13 | 0.91 | 0.01 | 0.99 | FALSE |
7 | GTEx | Artery Aorta | SRRT | 0.11 | 0.09 | enet | 20 | 0.09 | 1.4e-05 | 7.0 | 6.4 | 1.7e-10 | 0.74 | 0.01 | 0.98 | FALSE |
8 | GTEx | Artery Aorta | GIGYF1 | 0.14 | 0.11 | enet | 9 | 0.11 | 1.1e-06 | 6.2 | 6.1 | 9.5e-10 | 0.47 | 0.43 | 0.46 | FALSE |
9 | GTEx | Artery Tibial | ACHE | 0.10 | 0.09 | lasso | 5 | 0.08 | 9.2e-07 | 7.0 | 7.0 | 2.2e-12 | 0.96 | 0.01 | 0.99 | TRUE |
10 | GTEx | Artery Tibial | ZKSCAN1 | 0.07 | 0.03 | lasso | 6 | 0.00 | 1.2e-01 | 5.7 | 5.6 | 2.1e-08 | 0.10 | 0.01 | 0.96 | FALSE |
11 | GTEx | Brain Cerebellar Hemisphere | STAG3 | 0.21 | 0.11 | lasso | 6 | 0.12 | 5.7e-04 | 5.1 | 5.2 | 1.7e-07 | 0.12 | 0.16 | 0.44 | FALSE |
12 | GTEx | Brain Cerebellar Hemisphere | SLC12A9 | 0.17 | 0.07 | lasso | 5 | 0.00 | 4.5e-01 | -3.8 | 5.2 | 1.8e-07 | 0.58 | 0.04 | 0.64 | FALSE |
13 | GTEx | Brain Nucleus accumbens basal ganglia | STAG3 | 0.25 | 0.28 | lasso | 7 | 0.28 | 3.8e-08 | 4.2 | 5.5 | 4.0e-08 | 0.25 | 0.34 | 0.58 | TRUE |
14 | GTEx | Brain Nucleus accumbens basal ganglia | CNPY4 | 0.22 | 0.13 | lasso | 9 | 0.07 | 6.9e-03 | 5.1 | 5.4 | 8.3e-08 | 0.14 | 0.06 | 0.49 | FALSE |
15 | GTEx | Brain Putamen basal ganglia | STAG3 | 0.36 | 0.03 | lasso | 12 | 0.09 | 3.1e-03 | 6.2 | 7.6 | 2.9e-14 | 0.33 | 0.03 | 0.82 | FALSE |
16 | GTEx | Cells Transformed fibroblasts | GIGYF1 | 0.21 | 0.16 | lasso | 9 | 0.19 | 6.2e-14 | 6.2 | 6.1 | 1.0e-09 | 0.49 | 0.69 | 0.31 | FALSE |
17 | GTEx | Esophagus Gastroesophageal Junction | GIGYF1 | 0.29 | 0.09 | lasso | 3 | 0.12 | 5.6e-05 | 4.5 | 5.4 | 5.3e-08 | 0.44 | 0.57 | 0.19 | FALSE |
18 | GTEx | Esophagus Mucosa | ACHE | 0.08 | 0.03 | lasso | 9 | 0.03 | 2.2e-03 | 5.2 | 7.0 | 1.9e-12 | 0.73 | 0.03 | 0.91 | FALSE |
19 | GTEx | Esophagus Mucosa | GIGYF1 | 0.10 | 0.01 | enet | 15 | 0.07 | 1.0e-05 | 6.2 | 5.4 | 7.1e-08 | 0.45 | 0.33 | 0.44 | FALSE |
20 | GTEx | Heart Atrial Appendage | ACHE | 0.19 | 0.19 | lasso | 2 | 0.18 | 2.6e-08 | 7.0 | 6.9 | 4.2e-12 | 0.93 | 0.01 | 0.99 | FALSE |
21 | GTEx | Heart Atrial Appendage | SRRT | 0.14 | 0.01 | enet | 10 | 0.02 | 4.5e-02 | 7.0 | 6.2 | 5.5e-10 | 0.90 | 0.01 | 0.88 | FALSE |
22 | GTEx | Heart Atrial Appendage | GIGYF1 | 0.12 | 0.07 | lasso | 8 | 0.05 | 2.8e-03 | 7.0 | 7.7 | 1.7e-14 | 0.85 | 0.02 | 0.85 | TRUE |
23 | GTEx | Lung | FBXO24 | 0.08 | 0.01 | lasso | 4 | 0.00 | 2.2e-01 | -3.8 | -5.2 | 1.7e-07 | -0.17 | 0.10 | 0.05 | FALSE |
24 | GTEx | Lung | GIGYF1 | 0.25 | 0.13 | lasso | 7 | 0.14 | 4.0e-11 | 6.3 | 6.0 | 2.2e-09 | 0.45 | 0.64 | 0.36 | FALSE |
25 | GTEx | Muscle Skeletal | TRIP6 | 0.08 | 0.07 | lasso | 4 | 0.07 | 5.3e-07 | 6.3 | 6.2 | 4.2e-10 | 0.53 | 0.30 | 0.68 | FALSE |
26 | GTEx | Muscle Skeletal | GIGYF1 | 0.10 | 0.03 | enet | 14 | 0.06 | 6.8e-07 | 6.2 | 5.9 | 3.3e-09 | 0.55 | 0.51 | 0.47 | FALSE |
27 | GTEx | Nerve Tibial | ACHE | 0.28 | 0.23 | lasso | 7 | 0.22 | 6.1e-16 | 7.0 | 7.2 | 7.0e-13 | 0.95 | 0.01 | 0.99 | FALSE |
28 | GTEx | Nerve Tibial | SRRT | 0.13 | 0.12 | lasso | 4 | 0.11 | 3.7e-08 | 7.0 | 7.0 | 2.0e-12 | 0.98 | 0.01 | 0.99 | FALSE |
29 | GTEx | Nerve Tibial | ZKSCAN1 | 0.10 | 0.04 | lasso | 6 | 0.04 | 5.5e-04 | 5.1 | 5.6 | 1.8e-08 | 0.11 | 0.01 | 0.99 | TRUE |
30 | GTEx | Nerve Tibial | GIGYF1 | 0.17 | 0.14 | enet | 7 | 0.14 | 2.3e-10 | 6.2 | 6.3 | 3.4e-10 | 0.43 | 0.68 | 0.32 | FALSE |
31 | GTEx | Ovary | GIGYF1 | 0.23 | 0.15 | lasso | 5 | 0.14 | 2.9e-04 | 6.1 | 7.4 | 1.3e-13 | 0.79 | 0.02 | 0.89 | FALSE |
32 | GTEx | Pituitary | GIGYF1 | 0.24 | 0.01 | lasso | 7 | 0.03 | 5.7e-02 | 5.6 | 5.8 | 5.2e-09 | 0.44 | 0.10 | 0.06 | FALSE |
33 | GTEx | Prostate | GIGYF1 | 0.51 | 0.06 | lasso | 10 | 0.05 | 2.0e-02 | 6.3 | 5.6 | 2.2e-08 | 0.53 | 0.04 | 0.44 | FALSE |
34 | GTEx | Skin Not Sun Exposed Suprapubic | TRIP6 | 0.11 | 0.02 | lasso | 6 | 0.01 | 1.3e-01 | -4.6 | 5.7 | 9.9e-09 | 0.54 | 0.07 | 0.31 | FALSE |
35 | GTEx | Skin Not Sun Exposed Suprapubic | GIGYF1 | 0.11 | 0.00 | lasso | 5 | 0.00 | 2.2e-01 | 5.3 | 7.0 | 2.5e-12 | 0.66 | 0.04 | 0.60 | FALSE |
36 | GTEx | Skin Sun Exposed Lower leg | ACHE | 0.07 | 0.10 | lasso | 1 | 0.09 | 3.5e-08 | 7.0 | 7.0 | 3.6e-12 | 0.94 | 0.01 | 0.99 | FALSE |
37 | GTEx | Skin Sun Exposed Lower leg | UFSP1 | 0.06 | 0.01 | lasso | 4 | 0.02 | 3.5e-03 | -3.5 | -5.5 | 4.1e-08 | -0.36 | 0.28 | 0.06 | FALSE |
38 | GTEx | Stomach | GIGYF1 | 0.24 | 0.03 | lasso | 5 | 0.07 | 4.7e-04 | 6.3 | 5.8 | 6.1e-09 | 0.33 | 0.22 | 0.40 | FALSE |
39 | GTEx | Thyroid | ACHE | 0.19 | 0.10 | enet | 33 | 0.14 | 1.5e-10 | 7.0 | 6.4 | 1.5e-10 | 0.76 | 0.01 | 0.99 | FALSE |
40 | GTEx | Thyroid | GIGYF1 | 0.33 | 0.24 | lasso | 7 | 0.24 | 1.5e-18 | 6.3 | 6.4 | 1.3e-10 | 0.47 | 0.64 | 0.36 | FALSE |
41 | GTEx | Thyroid | UFSP1 | 0.06 | 0.04 | lasso | 8 | 0.03 | 4.3e-03 | 5.2 | -5.3 | 9.0e-08 | -0.49 | 0.51 | 0.05 | FALSE |
42 | GTEx | Whole Blood | ACHE | 0.08 | 0.00 | enet | 11 | 0.02 | 9.2e-03 | 5.1 | 5.9 | 3.9e-09 | 0.43 | 0.08 | 0.35 | FALSE |
43 | GTEx | Whole Blood | GIGYF1 | 0.04 | 0.02 | lasso | 5 | 0.01 | 5.5e-02 | 6.2 | 6.4 | 1.3e-10 | 0.46 | 0.09 | 0.44 | TRUE |
44 | ROSMAP | Brain Pre-frontal Cortex | SRRT | 0.05 | 0.02 | bslmm | 331 | 0.02 | 1.1e-03 | 7.0 | 5.7 | 9.1e-09 | 0.81 | 0.01 | 0.98 | FALSE |
45 | ROSMAP | Brain Pre-frontal Cortex | SLC12A9 | 0.07 | 0.05 | lasso | 4 | 0.07 | 7.6e-10 | -4.0 | 5.6 | 1.7e-08 | 0.63 | 0.90 | 0.10 | FALSE |
46 | ROSMAP | Brain Pre-frontal Cortex | MCM7 | 0.04 | 0.04 | lasso | 6 | 0.03 | 2.2e-04 | 5.7 | 5.5 | 3.0e-08 | 0.04 | 0.00 | 0.99 | FALSE |
47 | YFS | Blood | TRIP6 | 0.08 | 0.10 | lasso | 6 | 0.11 | 6.7e-35 | 7.0 | -6.2 | 4.5e-10 | -0.90 | 0.01 | 0.99 | TRUE |
48 | The Cancer Genome Atlas | Breast Invasive Carcinoma | ACHE | 0.03 | 0.01 | blup | 56 | 0.01 | 1.8e-03 | 6.2 | 6.1 | 1.2e-09 | 0.82 | 0.01 | 0.72 | TRUE |
49 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | UFSP1 | 0.09 | 0.03 | blup | 53 | 0.05 | 1.2e-03 | 4.4 | -6.9 | 5.4e-12 | -0.79 | 0.02 | 0.57 | FALSE |
50 | The Cancer Genome Atlas | Glioblastoma Multiforme | EPHB4 | 0.16 | 0.11 | enet | 7 | 0.07 | 3.8e-03 | 7.0 | -6.1 | 9.9e-10 | -0.93 | 0.00 | 0.91 | FALSE |
51 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | GNB2 | 0.15 | 0.01 | blup | 32 | 0.01 | 1.0e-01 | 6.3 | 5.2 | 2.3e-07 | 0.23 | 0.00 | 0.47 | FALSE |
52 | The Cancer Genome Atlas | Brain Lower Grade Glioma | GIGYF1 | 0.05 | 0.06 | lasso | 3 | 0.06 | 4.7e-07 | 6.2 | 6.2 | 7.0e-10 | 0.42 | 0.00 | 0.99 | FALSE |
53 | The Cancer Genome Atlas | Lung Adenocarcinoma | GIGYF1 | 0.03 | 0.02 | blup | 30 | 0.02 | 4.7e-03 | 6.3 | 5.9 | 3.6e-09 | 0.42 | 0.00 | 0.86 | TRUE |
54 | The Cancer Genome Atlas | Lung Adenocarcinoma | ZSCAN21 | 0.02 | 0.02 | blup | 41 | 0.02 | 1.3e-03 | 5.1 | -5.4 | 8.0e-08 | -0.10 | 0.02 | 0.84 | FALSE |
55 | The Cancer Genome Atlas | Pheochromocytoma and Paraganglioma | EPHB4 | 0.20 | 0.07 | blup | 50 | 0.10 | 6.9e-05 | 3.8 | -5.2 | 1.7e-07 | -0.79 | 0.02 | 0.74 | FALSE |
56 | The Cancer Genome Atlas | Thyroid Carcinoma | ACHE | 0.04 | 0.04 | lasso | 2 | 0.03 | 3.0e-04 | 7.0 | 7.0 | 2.1e-12 | 0.98 | 0.01 | 0.98 | FALSE |
57 | The Cancer Genome Atlas | Thyroid Carcinoma | GIGYF1 | 0.04 | 0.03 | blup | 30 | 0.03 | 8.4e-04 | 6.3 | 5.2 | 2.2e-07 | 0.40 | 0.01 | 0.85 | FALSE |