Table 3 |.
Significant pathways (q value ≤ 0.05) from MAGMA pathway analysis for common and rare variant subsets
| Pathway | No. of genes in the pathway in the dataset | Common variant Pa | Common variant q value | Rare variant Pa | Rare variant q value | Pathway description |
|---|---|---|---|---|---|---|
| GO:65005 | 20 | 1.4 × 10−7a | 9.5 × 10−4 | 6.7 × 10−2 | 8.4 × 10−1 | Protein−lipid complex assembly |
| GO:1902003 | 10 | 4.5 × 10−7a | 1.4 × 10−3 | 4.9 × 10−2 | 8.4 × 10−1 | Regulation of Aβ formation |
| GO:32994 | 39 | 1.1 × 10−6a | 2.5 × 10−3 | 1.7 × 10−2 | 8.1 × 10−1 | Protein−lipid complex |
| GO:1902991 | 12 | 3.5 × 10−6a | 5.8 × 10−3 | 5.6 × 10−2 | 8.4 × 10−1 | Regulation of amyloid precursor protein catabolic process |
| GO:43691 | 17 | 5.5 × 10−6a | 6.7 × 10−3 | 3.0 × 10−2 | 8.1 × 10−1 | Reverse cholesterol transport |
| GO:71825 | 35 | 6.1 × 10−6a | 6.7 × 10−3 | 1.2 × 10−1 | 8.4 × 10−1 | Protein−lipid complex subunit organization |
| GO:34377 | 18 | 1.6 × 10−5a | 1.5 × 10−2 | 1.8 × 10−1 | 8.4 × 10−1 | Plasma lipoprotein particle assembly |
| GO:48156 | 10 | 3.1 × 10−5a | 2.6 × 10−2 | 7.7 × 10−1 | 8.5 × 10−1 | Tau protein binding |
| GO:2253 | 382 | 6.3 × 10−5a | 4.6 × 10−2 | 2.0 × 10−1 | 8.4 × 10−1 | Activation of immune response |
a
Significant after FDR correction (q value ≤ 0.05).