Best TWAS P=2.26e-22 · Best GWAS P=2.65e-26 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 | LOC441454 | 0.05 | 0.01 | lasso | 3 | 0.02 | 1.5e-03 | 6.05 | 6.7 | 1.7e-11 | 0.04 | 0.04 | 0.55 | FALSE |
2 | GTEx | Adipose Subcutaneous | HSD17B3 | 0.21 | 0.01 | enet | 31 | 0.04 | 1.9e-04 | 6.13 | 5.1 | 2.8e-07 | 0.09 | 0.32 | 0.21 | FALSE |
3 | GTEx | Artery Tibial | RP11-435O5.5 | 0.09 | 0.04 | lasso | 2 | 0.02 | 7.3e-03 | 9.98 | -9.7 | 2.3e-22 | -0.95 | 0.01 | 0.94 | TRUE |
4 | GTEx | Breast Mammary Tissue | CDC14B | 0.16 | 0.02 | enet | 21 | 0.02 | 3.7e-02 | 8.30 | -7.1 | 1.0e-12 | -0.02 | 0.06 | 0.86 | FALSE |
5 | GTEx | Cells EBV-transformed lymphocytes | AAED1 | 0.17 | 0.02 | lasso | 3 | 0.04 | 2.4e-02 | 8.28 | 7.4 | 1.6e-13 | 0.02 | 0.05 | 0.51 | FALSE |
6 | GTEx | Cells Transformed fibroblasts | RP11-435O5.5 | 0.14 | 0.04 | lasso | 4 | 0.02 | 7.9e-03 | 5.16 | -5.4 | 8.6e-08 | -0.60 | 0.36 | 0.03 | TRUE |
7 | GTEx | Heart Atrial Appendage | RP11-435O5.4 | 0.18 | 0.00 | lasso | 5 | 0.00 | 6.2e-01 | 2.67 | -5.2 | 1.6e-07 | -0.10 | 0.04 | 0.44 | TRUE |
8 | GTEx | Liver | PTCH1 | 0.25 | 0.06 | enet | 11 | 0.03 | 4.9e-02 | 9.65 | 6.2 | 4.7e-10 | 0.26 | 0.16 | 0.06 | FALSE |
9 | GTEx | Nerve Tibial | HSD17B3 | 0.14 | 0.00 | enet | 20 | 0.00 | 2.4e-01 | 8.03 | 6.3 | 3.6e-10 | 0.05 | 0.08 | 0.40 | FALSE |
10 | GTEx | Nerve Tibial | ZNF367 | 0.10 | 0.05 | lasso | 3 | 0.02 | 7.9e-03 | 8.65 | 7.8 | 5.5e-15 | 0.04 | 0.02 | 0.97 | FALSE |
11 | GTEx | Spleen | PTCH1 | 0.33 | 0.08 | lasso | 8 | 0.18 | 1.9e-05 | -0.26 | 5.5 | 4.3e-08 | 0.28 | 0.17 | 0.10 | TRUE |
12 | GTEx | Testis | HABP4 | 0.19 | 0.22 | lasso | 9 | 0.21 | 1.1e-09 | 8.37 | 8.4 | 5.5e-17 | 0.04 | 0.07 | 0.93 | FALSE |
13 | GTEx | Thyroid | CDC14B | 0.15 | 0.10 | lasso | 5 | 0.08 | 5.3e-07 | 7.97 | -8.1 | 6.6e-16 | -0.04 | 0.24 | 0.75 | FALSE |
14 | NTR | Blood | PTCH1 | 0.04 | 0.02 | blup | 433 | 0.02 | 4.1e-08 | 7.11 | 6.0 | 1.9e-09 | 0.09 | 0.97 | 0.01 | TRUE |
15 | YFS | Blood | HABP4 | 0.08 | 0.09 | enet | 24 | 0.11 | 5.9e-34 | 8.46 | -8.1 | 6.1e-16 | -0.09 | 0.03 | 0.97 | FALSE |
16 | YFS | Blood | PTCH1 | 0.09 | 0.05 | lasso | 8 | 0.05 | 1.2e-15 | 7.08 | 7.8 | 4.4e-15 | 0.42 | 0.99 | 0.01 | FALSE |
17 | The Cancer Genome Atlas | Breast Invasive Carcinoma | CDC14B | 0.02 | 0.01 | lasso | 1 | 0.01 | 3.0e-03 | 8.53 | -8.5 | 1.5e-17 | -0.04 | 0.03 | 0.57 | FALSE |
18 | The Cancer Genome Atlas | Glioblastoma Multiforme | CDC14B | 0.16 | 0.17 | blup | 41 | 0.19 | 2.6e-06 | 8.28 | -7.5 | 4.7e-14 | -0.01 | 0.05 | 0.92 | FALSE |
19 | The Cancer Genome Atlas | Glioblastoma Multiforme | HABP4 | 0.08 | 0.06 | blup | 44 | 0.05 | 1.6e-02 | 7.85 | -8.6 | 5.6e-18 | -0.06 | 0.03 | 0.49 | FALSE |
20 | The Cancer Genome Atlas | Head and Neck Squamous Cell Carcinoma | HABP4 | 0.02 | 0.02 | blup | 44 | 0.02 | 7.1e-03 | 8.28 | 8.6 | 1.1e-17 | 0.04 | 0.03 | 0.66 | FALSE |
21 | The Cancer Genome Atlas | Kidney Renal Clear Cell Carcinoma | CDC14B | 0.03 | 0.02 | blup | 42 | 0.02 | 2.1e-03 | 8.28 | -8.5 | 2.2e-17 | -0.04 | 0.04 | 0.62 | FALSE |
22 | The Cancer Genome Atlas | Brain Lower Grade Glioma | CDC14B | 0.05 | 0.06 | lasso | 5 | 0.06 | 6.5e-07 | 8.29 | -7.7 | 1.9e-14 | -0.04 | 0.08 | 0.92 | FALSE |
23 | The Cancer Genome Atlas | Brain Lower Grade Glioma | HABP4 | 0.05 | 0.08 | lasso | 5 | 0.08 | 6.9e-09 | 7.82 | -8.0 | 1.1e-15 | -0.05 | 0.11 | 0.89 | FALSE |
24 | The Cancer Genome Atlas | Prostate Adenocarcinoma | PTCH1 | 0.02 | 0.01 | blup | 54 | 0.02 | 1.1e-03 | 8.60 | -8.5 | 1.7e-17 | -0.86 | 0.02 | 0.74 | FALSE |
25 | The Cancer Genome Atlas | Stomach Adenocarcinoma | CDC14B | 0.08 | 0.02 | blup | 41 | 0.04 | 1.0e-03 | 6.05 | -8.7 | 2.5e-18 | -0.08 | 0.02 | 0.59 | TRUE |
26 | The Cancer Genome Atlas | Thyroid Carcinoma | CDC14B | 0.05 | 0.07 | blup | 42 | 0.08 | 4.8e-08 | 8.34 | -8.3 | 1.2e-16 | -0.03 | 0.05 | 0.95 | FALSE |