Best TWAS P=2.14e-26 · Best GWAS P=1.35e-22 conditioned to 0.316
# | 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 | CCDC146 | 0.05 | 0.00 | bslmm | 340 | 0.01 | 5.4e-02 | 0.76 | 6.6 | 3.2e-11 | -0.36 | 0.04 | 0.07 | FALSE |
2 | CommonMind | Brain Pre-frontal Cortex | PTPN12 | 0.21 | 0.09 | lasso | 9 | 0.14 | 5.4e-17 | -8.82 | 5.9 | 4.3e-09 | -0.40 | 0.98 | 0.02 | FALSE |
3 | CommonMind | Brain Pre-frontal Cortex | RSBN1L | 0.09 | 0.09 | enet | 9 | 0.09 | 2.0e-11 | 9.34 | 9.7 | 2.0e-22 | -0.81 | 0.06 | 0.94 | FALSE |
4 | GTEx | Adipose Subcutaneous | PTPN12 | 0.17 | 0.08 | lasso | 7 | 0.10 | 7.8e-09 | 1.59 | 5.5 | 4.8e-08 | -0.29 | 0.91 | 0.08 | FALSE |
5 | GTEx | Adipose Subcutaneous | TMEM60 | 0.08 | 0.05 | lasso | 4 | 0.05 | 7.3e-05 | 9.09 | 9.6 | 1.1e-21 | -0.77 | 0.05 | 0.94 | FALSE |
6 | GTEx | Adipose Subcutaneous | RSBN1L-AS1 | 0.23 | 0.13 | enet | 33 | 0.22 | 9.2e-18 | -1.61 | 5.4 | 8.5e-08 | -0.71 | 0.12 | 0.88 | FALSE |
7 | GTEx | Adipose Visceral Omentum | PTPN12 | 0.19 | 0.04 | enet | 28 | 0.02 | 2.5e-02 | -7.94 | 6.6 | 4.3e-11 | -0.56 | 0.31 | 0.53 | FALSE |
8 | GTEx | Adipose Visceral Omentum | TMEM60 | 0.20 | 0.13 | lasso | 8 | 0.11 | 2.3e-06 | 9.25 | 8.6 | 1.0e-17 | -0.70 | 0.09 | 0.91 | FALSE |
9 | GTEx | Adrenal Gland | PTPN12 | 0.16 | 0.10 | lasso | 4 | 0.04 | 1.0e-02 | -8.82 | 8.7 | 3.7e-18 | -0.55 | 0.35 | 0.27 | FALSE |
10 | GTEx | Artery Aorta | PTPN12 | 0.22 | 0.03 | enet | 28 | 0.10 | 3.0e-06 | 1.10 | 5.8 | 5.1e-09 | -0.30 | 0.65 | 0.25 | FALSE |
11 | GTEx | Artery Aorta | RSBN1L-AS1 | 0.26 | 0.18 | lasso | 10 | 0.25 | 5.0e-14 | -1.42 | 6.2 | 4.0e-10 | -0.78 | 0.04 | 0.96 | FALSE |
12 | GTEx | Artery Coronary | PTPN12 | 0.33 | 0.08 | enet | 26 | 0.24 | 1.6e-08 | 6.37 | 5.3 | 1.0e-07 | -0.21 | 0.63 | 0.12 | FALSE |
13 | GTEx | Artery Coronary | RSBN1L-AS1 | 0.37 | 0.09 | enet | 14 | 0.21 | 1.4e-07 | -1.61 | 5.2 | 2.1e-07 | -0.74 | 0.06 | 0.92 | FALSE |
14 | GTEx | Artery Tibial | PTPN12 | 0.25 | 0.13 | lasso | 8 | 0.12 | 1.8e-09 | -9.40 | 9.4 | 6.8e-21 | -0.63 | 0.29 | 0.71 | FALSE |
15 | GTEx | Artery Tibial | TMEM60 | 0.07 | 0.05 | enet | 12 | 0.02 | 6.6e-03 | 9.18 | 6.9 | 3.8e-12 | -0.57 | 0.07 | 0.85 | FALSE |
16 | GTEx | Artery Tibial | RSBN1L-AS1 | 0.28 | 0.13 | enet | 13 | 0.28 | 5.5e-22 | -1.57 | 6.9 | 6.7e-12 | -0.79 | 0.07 | 0.93 | FALSE |
17 | GTEx | Brain Cerebellum | RSBN1L | 0.14 | 0.12 | lasso | 2 | 0.13 | 1.3e-04 | -9.52 | -9.7 | 4.2e-22 | 0.93 | 0.03 | 0.94 | FALSE |
18 | GTEx | Brain Cortex | RSBN1L-AS1 | 0.34 | 0.15 | enet | 23 | 0.23 | 5.8e-07 | -1.57 | 6.8 | 1.2e-11 | -0.78 | 0.04 | 0.95 | FALSE |
19 | GTEx | Breast Mammary Tissue | TMEM60 | 0.13 | 0.04 | lasso | 4 | 0.04 | 5.4e-03 | 9.43 | 7.8 | 6.8e-15 | -0.69 | 0.06 | 0.68 | FALSE |
20 | GTEx | Cells Transformed fibroblasts | PTPN12 | 0.19 | 0.15 | lasso | 4 | 0.18 | 1.7e-13 | 1.74 | 5.5 | 3.1e-08 | -0.32 | 0.97 | 0.03 | FALSE |
21 | GTEx | Cells Transformed fibroblasts | TMEM60 | 0.25 | 0.20 | lasso | 4 | 0.20 | 1.5e-14 | 9.18 | 9.0 | 1.7e-19 | -0.78 | 0.15 | 0.85 | FALSE |
22 | GTEx | Cells Transformed fibroblasts | RSBN1L-AS1 | 0.23 | 0.19 | lasso | 6 | 0.21 | 5.7e-16 | 9.19 | 7.6 | 2.9e-14 | -0.75 | 0.08 | 0.92 | FALSE |
23 | GTEx | Colon Sigmoid | PTPN12 | 0.24 | 0.04 | lasso | 8 | 0.08 | 1.2e-03 | 1.10 | 5.9 | 4.5e-09 | -0.30 | 0.24 | 0.13 | FALSE |
24 | GTEx | Colon Sigmoid | RSBN1L | 0.17 | 0.09 | lasso | 2 | 0.05 | 5.5e-03 | 9.11 | 9.0 | 1.8e-19 | -0.77 | 0.07 | 0.73 | FALSE |
25 | GTEx | Colon Sigmoid | RSBN1L-AS1 | 0.46 | 0.48 | lasso | 6 | 0.50 | 5.0e-20 | 9.19 | 9.2 | 2.8e-20 | -0.74 | 0.05 | 0.95 | FALSE |
26 | GTEx | Colon Transverse | PTPN12 | 0.17 | 0.12 | lasso | 6 | 0.10 | 1.8e-05 | -8.82 | 8.8 | 1.4e-18 | -0.57 | 0.43 | 0.36 | FALSE |
27 | GTEx | Colon Transverse | GSAP | 0.14 | 0.02 | lasso | 7 | 0.05 | 2.2e-03 | -9.01 | -6.6 | 4.6e-11 | 0.41 | 0.12 | 0.19 | FALSE |
28 | GTEx | Colon Transverse | RSBN1L-AS1 | 0.32 | 0.24 | lasso | 9 | 0.22 | 5.7e-11 | 9.19 | 9.0 | 2.8e-19 | -0.80 | 0.04 | 0.96 | FALSE |
29 | GTEx | Esophagus Gastroesophageal Junction | RSBN1L-AS1 | 0.38 | 0.41 | lasso | 12 | 0.44 | 1.2e-17 | 9.25 | 9.5 | 3.0e-21 | -0.78 | 0.04 | 0.96 | FALSE |
30 | GTEx | Esophagus Mucosa | TMEM60 | 0.06 | 0.04 | lasso | 2 | 0.04 | 1.0e-03 | 9.18 | 9.0 | 2.0e-19 | -0.78 | 0.06 | 0.92 | FALSE |
31 | GTEx | Esophagus Muscularis | PTPN12 | 0.34 | 0.17 | enet | 48 | 0.20 | 4.3e-12 | -8.66 | 5.8 | 8.0e-09 | -0.29 | 0.89 | 0.11 | FALSE |
32 | GTEx | Esophagus Muscularis | RSBN1L | 0.07 | 0.03 | lasso | 3 | 0.01 | 4.3e-02 | 6.60 | 6.9 | 4.6e-12 | -0.51 | 0.13 | 0.70 | FALSE |
33 | GTEx | Esophagus Muscularis | RSBN1L-AS1 | 0.35 | 0.51 | lasso | 5 | 0.52 | 3.8e-36 | 9.19 | 9.1 | 1.2e-19 | -0.72 | 0.06 | 0.94 | FALSE |
34 | GTEx | Heart Left Ventricle | PTPN12 | 0.12 | 0.00 | enet | 21 | 0.01 | 5.6e-02 | -8.82 | 6.8 | 1.5e-11 | -0.36 | 0.06 | 0.13 | FALSE |
35 | GTEx | Heart Left Ventricle | RSBN1L-AS1 | 0.24 | 0.15 | lasso | 7 | 0.14 | 6.3e-08 | -1.42 | 5.5 | 3.8e-08 | -0.69 | 0.10 | 0.90 | FALSE |
36 | GTEx | Lung | PTPN12 | 0.10 | 0.05 | enet | 11 | 0.07 | 5.1e-06 | -8.77 | 7.3 | 2.0e-13 | -0.44 | 0.86 | 0.10 | FALSE |
37 | GTEx | Lung | TMEM60 | 0.12 | 0.05 | enet | 16 | 0.07 | 3.4e-06 | -8.44 | 6.9 | 4.9e-12 | -0.53 | 0.12 | 0.86 | FALSE |
38 | GTEx | Muscle Skeletal | TMEM60 | 0.11 | 0.12 | lasso | 4 | 0.12 | 4.6e-12 | 9.18 | -9.7 | 3.9e-22 | 0.85 | 0.06 | 0.94 | FALSE |
39 | GTEx | Muscle Skeletal | RSBN1L-AS1 | 0.22 | 0.18 | lasso | 4 | 0.22 | 7.3e-21 | -9.52 | 7.3 | 2.1e-13 | -0.85 | 0.03 | 0.97 | FALSE |
40 | GTEx | Nerve Tibial | PTPN12 | 0.18 | 0.13 | enet | 20 | 0.14 | 2.9e-10 | -8.66 | 6.9 | 4.0e-12 | -0.47 | 0.92 | 0.08 | FALSE |
41 | GTEx | Nerve Tibial | TMEM60 | 0.14 | 0.14 | lasso | 8 | 0.12 | 1.1e-08 | 9.18 | 9.6 | 1.0e-21 | -0.82 | 0.04 | 0.96 | FALSE |
42 | GTEx | Nerve Tibial | RSBN1L-AS1 | 0.35 | 0.20 | lasso | 12 | 0.27 | 1.8e-19 | -1.61 | 5.3 | 9.0e-08 | -0.70 | 0.26 | 0.74 | FALSE |
43 | GTEx | Ovary | TMEM60 | 0.23 | 0.19 | enet | 7 | 0.13 | 5.2e-04 | 6.58 | 7.5 | 8.0e-14 | -0.60 | 0.10 | 0.52 | FALSE |
44 | GTEx | Ovary | RSBN1L-AS1 | 0.21 | 0.22 | enet | 20 | 0.16 | 8.1e-05 | 9.19 | 8.7 | 3.8e-18 | -0.72 | 0.07 | 0.79 | FALSE |
45 | GTEx | Pancreas | PTPN12 | 0.26 | 0.13 | lasso | 3 | 0.08 | 2.7e-04 | -8.66 | 7.2 | 6.9e-13 | -0.52 | 0.38 | 0.10 | FALSE |
46 | GTEx | Pancreas | TMEM60 | 0.19 | 0.03 | enet | 15 | 0.10 | 3.4e-05 | 9.18 | 6.0 | 1.4e-09 | -0.52 | 0.07 | 0.71 | FALSE |
47 | GTEx | Pituitary | TMEM60 | 0.19 | 0.06 | lasso | 6 | 0.04 | 2.8e-02 | -9.30 | 10.1 | 3.5e-24 | -0.95 | 0.04 | 0.91 | FALSE |
48 | GTEx | Skin Not Sun Exposed Suprapubic | TMEM60 | 0.14 | 0.08 | lasso | 4 | 0.03 | 1.4e-02 | 9.18 | 8.6 | 9.9e-18 | -0.77 | 0.13 | 0.78 | FALSE |
49 | GTEx | Skin Not Sun Exposed Suprapubic | RSBN1L-AS1 | 0.34 | 0.14 | enet | 25 | 0.29 | 2.8e-16 | -1.61 | 6.5 | 8.1e-11 | -0.72 | 0.02 | 0.98 | FALSE |
50 | GTEx | Skin Sun Exposed Lower leg | TMEM60 | 0.10 | 0.10 | lasso | 3 | 0.09 | 1.4e-07 | 9.18 | 9.2 | 4.3e-20 | -0.77 | 0.08 | 0.92 | FALSE |
51 | GTEx | Skin Sun Exposed Lower leg | RSBN1L-AS1 | 0.25 | 0.18 | enet | 22 | 0.28 | 4.1e-23 | -9.53 | 7.2 | 6.0e-13 | -0.81 | 0.03 | 0.97 | FALSE |
52 | GTEx | Spleen | PTPN12 | 0.41 | 0.07 | lasso | 11 | 0.14 | 2.2e-04 | -8.66 | 5.8 | 5.3e-09 | -0.23 | 0.38 | 0.23 | FALSE |
53 | GTEx | Spleen | RSBN1L-AS1 | 0.36 | 0.02 | enet | 20 | 0.06 | 1.5e-02 | -7.89 | 6.8 | 7.5e-12 | -0.66 | 0.05 | 0.60 | FALSE |
54 | GTEx | Stomach | RSBN1L-AS1 | 0.11 | 0.04 | enet | 5 | 0.11 | 9.0e-06 | 9.19 | 6.7 | 2.7e-11 | -0.72 | 0.05 | 0.91 | FALSE |
55 | GTEx | Testis | RSBN1L-AS1 | 0.16 | 0.12 | lasso | 8 | 0.16 | 1.5e-07 | 9.58 | 9.5 | 1.8e-21 | -0.65 | 0.05 | 0.95 | FALSE |
56 | GTEx | Thyroid | PTPN12 | 0.13 | 0.08 | lasso | 7 | 0.08 | 9.5e-07 | -8.81 | 7.4 | 1.4e-13 | -0.44 | 0.64 | 0.34 | FALSE |
57 | GTEx | Thyroid | TMEM60 | 0.06 | 0.04 | lasso | 8 | 0.04 | 8.2e-04 | 6.60 | 7.0 | 2.4e-12 | -0.55 | 0.08 | 0.91 | FALSE |
58 | GTEx | Uterus | RSBN1L-AS1 | 0.33 | 0.08 | lasso | 7 | 0.05 | 3.0e-02 | -9.52 | 6.8 | 1.3e-11 | -0.80 | 0.04 | 0.62 | FALSE |
59 | GTEx | Whole Blood | TMEM60 | 0.05 | 0.04 | enet | 7 | 0.03 | 5.4e-04 | 9.34 | 9.2 | 4.8e-20 | -0.77 | 0.09 | 0.91 | FALSE |
60 | METSIM | Adipose | TMEM60 | 0.10 | 0.07 | enet | 9 | 0.08 | 2.1e-12 | -9.53 | 9.6 | 8.8e-22 | -0.92 | 0.03 | 0.97 | FALSE |
61 | NTR | Blood | CCDC146 | 0.05 | 0.03 | enet | 13 | 0.05 | 8.4e-16 | -4.96 | 5.1 | 2.8e-07 | -0.01 | 1.00 | 0.00 | FALSE |
62 | NTR | Blood | FGL2 | 0.03 | 0.02 | lasso | 3 | 0.02 | 3.7e-07 | 4.31 | 5.4 | 8.4e-08 | 0.01 | 0.87 | 0.01 | FALSE |
63 | ROSMAP | Brain Pre-frontal Cortex | RSBN1L | 0.09 | 0.07 | enet | 42 | 0.08 | 9.9e-11 | 9.19 | 9.1 | 6.7e-20 | -0.66 | 0.05 | 0.95 | FALSE |
64 | ROSMAP | Brain Pre-frontal Cortex | RSBN1L-AS1 | 0.25 | 0.24 | lasso | 6 | 0.26 | 1.3e-33 | -1.42 | 5.5 | 3.2e-08 | -0.69 | 1.00 | 0.00 | FALSE |
65 | YFS | Blood | RSBN1L | 0.03 | 0.02 | enet | 13 | 0.02 | 1.1e-06 | -9.58 | -9.1 | 6.2e-20 | 0.87 | 0.04 | 0.96 | FALSE |
66 | YFS | Blood | TMEM60 | 0.14 | 0.16 | lasso | 4 | 0.18 | 1.8e-55 | 9.18 | 8.7 | 2.6e-18 | -0.79 | 0.08 | 0.92 | FALSE |
67 | The Cancer Genome Atlas | Breast Invasive Carcinoma | FGL2 | 0.03 | 0.01 | blup | 27 | 0.02 | 6.2e-05 | -4.96 | 5.3 | 9.6e-08 | 0.00 | 0.01 | 0.98 | FALSE |
68 | The Cancer Genome Atlas | Breast Invasive Carcinoma | PHTF2 | 0.02 | 0.01 | lasso | 1 | 0.01 | 3.0e-03 | -9.36 | 9.4 | 7.7e-21 | -0.68 | 0.16 | 0.72 | FALSE |
69 | The Cancer Genome Atlas | Breast Invasive Carcinoma | TMEM60 | 0.02 | 0.02 | lasso | 1 | 0.02 | 2.3e-05 | -9.47 | 9.5 | 2.8e-21 | -0.83 | 0.03 | 0.97 | FALSE |
70 | The Cancer Genome Atlas | Cervical Squamous Cell Carcinoma | TMEM60 | 0.08 | 0.06 | blup | 29 | 0.05 | 2.1e-03 | -9.47 | 7.5 | 8.3e-14 | -0.47 | 0.01 | 0.41 | FALSE |
71 | The Cancer Genome Atlas | Glioblastoma Multiforme | TMEM60 | 0.10 | 0.10 | blup | 29 | 0.09 | 1.4e-03 | -9.58 | 8.3 | 1.1e-16 | -0.94 | 0.01 | 0.82 | FALSE |
72 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | TMEM60 | 0.08 | 0.02 | blup | 29 | 0.04 | 1.2e-05 | 9.58 | 6.1 | 9.1e-10 | -0.52 | 0.02 | 0.98 | FALSE |
73 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | PHTF2 | 0.02 | 0.03 | lasso | 1 | 0.02 | 8.0e-04 | -9.30 | 9.3 | 1.3e-20 | -0.65 | 0.12 | 0.63 | FALSE |
74 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | TMEM60 | 0.05 | 0.01 | enet | 7 | 0.02 | 1.9e-03 | 9.34 | 6.5 | 8.5e-11 | -0.40 | 0.02 | 0.92 | FALSE |
75 | The Cancer Genome Atlas | Kidney Renal Papillary Cell Carcinoma | TMEM60 | 0.05 | 0.02 | blup | 29 | 0.03 | 7.9e-03 | -9.47 | 7.8 | 5.2e-15 | -0.51 | 0.01 | 0.52 | FALSE |
76 | The Cancer Genome Atlas | Brain Lower Grade Glioma | FGL2 | 0.10 | 0.10 | lasso | 1 | 0.10 | 5.8e-11 | -5.38 | 5.4 | 7.4e-08 | -0.01 | 0.00 | 0.99 | TRUE |
77 | The Cancer Genome Atlas | Brain Lower Grade Glioma | RSBN1L | 0.02 | 0.02 | blup | 58 | 0.02 | 3.4e-03 | 9.18 | -10.6 | 2.1e-26 | 0.87 | 0.03 | 0.76 | TRUE |
78 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | TMEM60 | 0.02 | 0.03 | blup | 29 | 0.02 | 6.8e-03 | -9.47 | 9.5 | 1.7e-21 | -0.74 | 0.02 | 0.79 | FALSE |
79 | The Cancer Genome Atlas | Pancreatic Adenocarcinoma | TMEM60 | 0.12 | 0.05 | blup | 29 | 0.02 | 3.1e-02 | 9.58 | 6.8 | 1.4e-11 | -0.46 | 0.01 | 0.64 | FALSE |
80 | The Cancer Genome Atlas | Soft Tissue Sarcoma | PHTF2 | 0.06 | 0.04 | blup | 72 | 0.04 | 2.0e-03 | -7.94 | 9.9 | 4.7e-23 | -0.89 | 0.02 | 0.84 | FALSE |
81 | The Cancer Genome Atlas | Thyroid Carcinoma | PTPN12 | 0.04 | 0.04 | enet | 4 | 0.04 | 1.0e-04 | -9.01 | 9.0 | 1.8e-19 | -0.62 | 0.02 | 0.97 | FALSE |
82 | The Cancer Genome Atlas | Thyroid Carcinoma | TMEM60 | 0.12 | 0.06 | enet | 6 | 0.06 | 1.2e-06 | 9.18 | 6.9 | 5.7e-12 | -0.58 | 0.05 | 0.95 | FALSE |