Best TWAS P=6.3e-24 · Best GWAS P=1.19e-19 conditioned to 8.19e-07
# | 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 | AGBL2 | 0.03 | 0.02 | enet | 7 | 0.03 | 7.9e-05 | -8.31 | -8.5 | 2.5e-17 | 0.70 | 0.29 | 0.68 | FALSE |
2 | CommonMind | Brain Pre-frontal Cortex | ARHGAP1 | 0.16 | 0.04 | enet | 18 | 0.04 | 2.3e-05 | 3.20 | 5.9 | 3.8e-09 | -0.22 | 0.67 | 0.02 | FALSE |
3 | CommonMind | Brain Pre-frontal Cortex | PTPRJ | 0.06 | 0.04 | lasso | 4 | 0.05 | 7.6e-07 | -8.57 | -8.0 | 1.5e-15 | 0.68 | 0.18 | 0.82 | FALSE |
4 | GTEx | Adipose Subcutaneous | ACP2 | 0.08 | 0.03 | enet | 18 | 0.03 | 3.5e-03 | -7.57 | 5.3 | 9.2e-08 | -0.30 | 0.21 | 0.42 | FALSE |
5 | GTEx | Adipose Subcutaneous | PTPRJ | 0.05 | 0.05 | lasso | 2 | 0.04 | 3.9e-04 | -4.57 | -5.2 | 2.0e-07 | 0.80 | 0.17 | 0.48 | FALSE |
6 | GTEx | Adipose Visceral Omentum | ACP2 | 0.08 | 0.05 | lasso | 5 | 0.05 | 1.4e-03 | -7.74 | 8.0 | 1.6e-15 | -0.36 | 0.14 | 0.66 | FALSE |
7 | GTEx | Artery Tibial | MADD | 0.09 | 0.00 | enet | 13 | 0.02 | 1.1e-02 | 7.93 | -5.8 | 8.6e-09 | 0.26 | 0.46 | 0.02 | FALSE |
8 | GTEx | Artery Tibial | ZNF408 | 0.10 | 0.00 | lasso | 6 | 0.04 | 2.0e-04 | -2.91 | 6.5 | 6.0e-11 | -0.19 | 0.12 | 0.68 | FALSE |
9 | GTEx | Brain Cerebellar Hemisphere | MADD | 0.44 | 0.14 | lasso | 7 | 0.21 | 4.0e-06 | -7.57 | 5.9 | 3.7e-09 | -0.24 | 0.11 | 0.72 | FALSE |
10 | GTEx | Brain Cerebellar Hemisphere | ACP2 | 0.29 | 0.05 | enet | 16 | 0.12 | 5.9e-04 | -6.92 | 7.0 | 2.6e-12 | -0.31 | 0.08 | 0.14 | FALSE |
11 | GTEx | Brain Cerebellar Hemisphere | RP11-750H9.5 | 0.17 | 0.25 | lasso | 6 | 0.21 | 3.5e-06 | 7.49 | -7.5 | 6.8e-14 | 0.35 | 0.44 | 0.04 | FALSE |
12 | GTEx | Brain Hypothalamus | NR1H3 | 0.25 | 0.18 | lasso | 5 | 0.10 | 2.7e-03 | -7.59 | -7.7 | 1.0e-14 | 0.34 | 0.14 | 0.16 | FALSE |
13 | GTEx | Brain Putamen basal ganglia | CKAP5 | 0.25 | 0.07 | lasso | 3 | 0.14 | 4.4e-04 | -9.02 | -5.6 | 2.7e-08 | 0.29 | 0.02 | 0.69 | FALSE |
14 | GTEx | Breast Mammary Tissue (Female) | ACP2 | 0.03 | 0.00 | lasso | 1 | 0.02 | 1.0e-01 | -8.59 | 8.6 | 1.0e-17 | -0.60 | 0.03 | 0.12 | FALSE |
15 | GTEx | Breast Mammary Tissue (Female) | PSMC3 | 0.02 | 0.01 | lasso | 1 | 0.04 | 2.5e-02 | -7.10 | 7.1 | 1.2e-12 | -0.61 | 0.03 | 0.07 | FALSE |
16 | GTEx | Cells EBV-transformed lymphocytes | ACP2 | 0.17 | 0.03 | lasso | 6 | 0.03 | 4.2e-02 | -7.15 | 10.1 | 6.3e-24 | -0.47 | 0.04 | 0.87 | TRUE |
17 | GTEx | Esophagus Gastroesophageal Junction | NUP160 | 0.18 | 0.02 | enet | 18 | 0.11 | 7.1e-05 | 4.23 | -7.0 | 2.1e-12 | 0.33 | 0.27 | 0.07 | FALSE |
18 | GTEx | Esophagus Gastroesophageal Junction | CKAP5 | 0.11 | 0.04 | lasso | 3 | 0.03 | 2.1e-02 | -4.42 | -5.8 | 6.2e-09 | 0.26 | 0.23 | 0.24 | FALSE |
19 | GTEx | Esophagus Mucosa | ACP2 | 0.07 | 0.04 | enet | 11 | 0.04 | 6.2e-04 | -8.15 | 8.9 | 3.8e-19 | -0.43 | 0.02 | 0.98 | FALSE |
20 | GTEx | Esophagus Mucosa | C11orf49 | 0.19 | 0.05 | enet | 21 | 0.12 | 3.2e-08 | -6.67 | -6.4 | 1.2e-10 | 0.28 | 0.71 | 0.12 | FALSE |
21 | GTEx | Heart Atrial Appendage | ACP2 | 0.10 | 0.12 | enet | 7 | 0.10 | 2.7e-05 | -7.11 | 5.4 | 7.3e-08 | -0.26 | 0.18 | 0.47 | FALSE |
22 | GTEx | Heart Left Ventricle | MADD | 0.14 | 0.01 | enet | 17 | 0.05 | 7.0e-04 | -8.94 | 7.9 | 2.9e-15 | -0.43 | 0.02 | 0.96 | FALSE |
23 | GTEx | Heart Left Ventricle | ACP2 | 0.11 | 0.06 | enet | 18 | 0.10 | 9.2e-06 | -8.94 | 8.2 | 3.3e-16 | -0.35 | 0.03 | 0.96 | FALSE |
24 | GTEx | Heart Left Ventricle | ARHGAP1 | 0.06 | 0.03 | lasso | 2 | 0.02 | 2.1e-02 | -5.92 | 5.6 | 2.3e-08 | -0.24 | 0.08 | 0.66 | FALSE |
25 | GTEx | Lung | ACP2 | 0.04 | 0.03 | lasso | 2 | 0.04 | 4.3e-04 | -7.01 | 8.6 | 1.3e-17 | -0.39 | 0.06 | 0.89 | FALSE |
26 | GTEx | Muscle Skeletal | FNBP4 | 0.05 | 0.03 | lasso | 5 | 0.04 | 5.0e-05 | -8.15 | -7.0 | 1.8e-12 | 0.39 | 0.30 | 0.56 | FALSE |
27 | GTEx | Nerve Tibial | C11orf49 | 0.17 | 0.01 | enet | 21 | 0.05 | 9.5e-05 | -8.76 | -6.6 | 4.9e-11 | 0.33 | 0.08 | 0.83 | FALSE |
28 | GTEx | Nerve Tibial | CELF1 | 0.08 | 0.02 | enet | 15 | 0.06 | 4.3e-05 | 4.58 | -5.2 | 1.6e-07 | 0.34 | 0.21 | 0.04 | FALSE |
29 | GTEx | Pancreas | LRP4 | 0.11 | 0.10 | enet | 16 | 0.14 | 1.8e-06 | -4.42 | 5.7 | 1.1e-08 | -0.26 | 0.87 | 0.06 | FALSE |
30 | GTEx | Skin Not Sun Exposed Suprapubic | DDB2 | 0.07 | 0.02 | enet | 13 | 0.04 | 3.5e-03 | -7.01 | -5.5 | 4.8e-08 | 0.25 | 0.14 | 0.08 | FALSE |
31 | GTEx | Skin Not Sun Exposed Suprapubic | SLC39A13 | 0.07 | 0.11 | lasso | 2 | 0.10 | 5.2e-06 | -8.15 | -8.2 | 2.9e-16 | 0.55 | 0.20 | 0.47 | FALSE |
32 | GTEx | Skin Sun Exposed Lower leg | ACP2 | 0.16 | 0.14 | enet | 15 | 0.15 | 1.8e-12 | -7.57 | 6.2 | 4.2e-10 | -0.30 | 1.00 | 0.00 | FALSE |
33 | GTEx | Spleen | ACP2 | 0.19 | -0.01 | lasso | 5 | 0.04 | 4.1e-02 | -6.85 | 5.4 | 6.2e-08 | -0.29 | 0.07 | 0.42 | FALSE |
34 | GTEx | Testis | NR1H3 | 0.10 | 0.10 | lasso | 6 | 0.08 | 2.9e-04 | -7.61 | 7.7 | 9.6e-15 | -0.34 | 0.17 | 0.73 | FALSE |
35 | GTEx | Thyroid | ACP2 | 0.19 | 0.14 | lasso | 4 | 0.12 | 3.0e-09 | -7.74 | 7.6 | 3.7e-14 | -0.34 | 0.82 | 0.18 | FALSE |
36 | METSIM | Adipose | NR1H3 | 0.03 | 0.03 | lasso | 6 | 0.04 | 4.7e-06 | 7.99 | -9.3 | 1.4e-20 | 0.40 | 0.13 | 0.82 | FALSE |
37 | METSIM | Adipose | RAPSN | 0.11 | 0.01 | enet | 21 | 0.06 | 7.9e-09 | -4.90 | -5.3 | 9.2e-08 | 0.36 | 0.98 | 0.01 | FALSE |
38 | NTR | Blood | ACP2 | 0.01 | 0.00 | enet | 7 | 0.01 | 2.5e-03 | -8.15 | 7.3 | 2.2e-13 | -0.40 | 0.01 | 0.97 | FALSE |
39 | NTR | Blood | DDB2 | 0.01 | 0.00 | lasso | 7 | 0.01 | 2.2e-03 | -6.85 | 8.2 | 3.3e-16 | -0.37 | 0.07 | 0.77 | FALSE |
40 | NTR | Blood | PTPRJ | 0.04 | 0.01 | blup | 285 | 0.02 | 8.5e-08 | -4.51 | -5.2 | 2.2e-07 | 0.35 | 0.65 | 0.34 | FALSE |
41 | ROSMAP | Brain Pre-frontal Cortex | NR1H3 | 0.06 | 0.01 | blup | 302 | 0.04 | 1.5e-05 | -8.15 | -6.7 | 2.8e-11 | 0.39 | 0.18 | 0.80 | FALSE |
42 | ROSMAP | Brain Pre-frontal Cortex | PTPMT1 | 0.03 | 0.02 | blup | 270 | 0.02 | 3.8e-04 | -8.15 | -5.5 | 3.7e-08 | 0.48 | 0.08 | 0.87 | FALSE |
43 | ROSMAP | Brain Pre-frontal Cortex | LRP4 | 0.04 | 0.06 | blup | 286 | 0.05 | 3.5e-07 | -6.92 | -7.9 | 2.4e-15 | 0.36 | 0.30 | 0.70 | FALSE |
44 | ROSMAP | Brain Pre-frontal Cortex | ACP2 | 0.03 | 0.00 | blup | 295 | 0.02 | 1.5e-03 | -0.91 | 6.0 | 2.1e-09 | -0.40 | 0.13 | 0.70 | FALSE |
45 | ROSMAP | Brain Pre-frontal Cortex | C11orf49 | 0.02 | 0.02 | blup | 322 | 0.02 | 3.3e-04 | -4.24 | -6.3 | 2.1e-10 | 0.31 | 0.49 | 0.47 | FALSE |
46 | ROSMAP | Brain Pre-frontal Cortex | ZNF408 | 0.04 | 0.02 | blup | 243 | 0.03 | 5.0e-05 | -3.96 | 5.4 | 5.3e-08 | -0.22 | 0.12 | 0.87 | FALSE |
47 | YFS | Blood | DDB2 | 0.02 | 0.00 | bslmm | 306 | 0.01 | 1.9e-04 | -8.94 | 5.3 | 1.1e-07 | -0.30 | 0.02 | 0.92 | FALSE |
48 | YFS | Blood | NR1H3 | 0.34 | 0.15 | enet | 66 | 0.24 | 3.1e-76 | -7.08 | 5.3 | 1.2e-07 | -0.18 | 1.00 | 0.00 | FALSE |
49 | The Cancer Genome Atlas | Breast Invasive Carcinoma | ACP2 | 0.02 | 0.01 | blup | 44 | 0.02 | 2.7e-04 | -7.74 | 5.6 | 1.8e-08 | -0.26 | 0.03 | 0.32 | FALSE |
50 | The Cancer Genome Atlas | Breast Invasive Carcinoma | C11orf49 | 0.05 | 0.00 | blup | 90 | 0.02 | 3.0e-04 | -7.39 | -6.0 | 2.2e-09 | 0.26 | 0.00 | 0.98 | FALSE |
51 | The Cancer Genome Atlas | Breast Invasive Carcinoma | C1QTNF4 | 0.02 | 0.01 | lasso | 5 | 0.02 | 2.1e-04 | -8.20 | -7.0 | 2.9e-12 | 0.57 | 0.00 | 0.94 | FALSE |
52 | The Cancer Genome Atlas | Colon Adenocarcinoma | PSMC3 | 0.09 | 0.05 | blup | 39 | 0.05 | 1.0e-03 | 7.49 | -6.7 | 2.9e-11 | 0.20 | 0.08 | 0.12 | FALSE |
53 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | ACP2 | 0.02 | 0.03 | lasso | 1 | 0.02 | 1.5e-03 | -7.74 | 7.7 | 1.0e-14 | -0.35 | 0.04 | 0.54 | FALSE |
54 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | ACP2 | 0.03 | 0.03 | blup | 44 | 0.04 | 3.5e-05 | -7.61 | 8.3 | 8.7e-17 | -0.39 | 0.17 | 0.79 | FALSE |
55 | The Cancer Genome Atlas | Brain Lower Grade Glioma | ACP2 | 0.09 | 0.04 | enet | 12 | 0.06 | 5.0e-07 | -7.57 | 5.4 | 7.1e-08 | -0.31 | 0.38 | 0.61 | FALSE |
56 | The Cancer Genome Atlas | Lung Squamous Cell Carcinoma | DDB2 | 0.02 | 0.03 | lasso | 1 | 0.02 | 1.0e-03 | -7.08 | -7.1 | 1.5e-12 | 0.29 | 0.12 | 0.25 | FALSE |
57 | The Cancer Genome Atlas | Testicular Germ Cell Tumors | MADD | 0.21 | 0.04 | blup | 64 | 0.07 | 1.3e-03 | -8.76 | 6.0 | 1.7e-09 | -0.27 | 0.01 | 0.81 | FALSE |
58 | The Cancer Genome Atlas | Thyroid Carcinoma | DDB2 | 0.06 | 0.04 | enet | 17 | 0.03 | 1.3e-03 | -8.95 | -7.8 | 5.0e-15 | 0.39 | 0.00 | 1.00 | FALSE |
59 | The Cancer Genome Atlas | Thyroid Carcinoma | MADD | 0.07 | 0.00 | enet | 11 | 0.03 | 6.7e-04 | -8.15 | 5.7 | 1.2e-08 | -0.26 | 0.01 | 0.80 | FALSE |
60 | The Cancer Genome Atlas | Uterine Corpus Endometrial Carcinoma | ZNF408 | 0.27 | 0.01 | blup | 27 | 0.09 | 1.5e-03 | -6.59 | 5.7 | 1.0e-08 | -0.25 | 0.00 | 0.83 | FALSE |