Table 1. Significant excess of enriched pathways remain after removing APOE and the genome-wide significant genes.
| Genes removed (number of genes) | enrichment p<0.05 | enrichment p<0.01 | enrichment p<0.001 | |||
|---|---|---|---|---|---|---|
|
| ||||||
| #path | p | #path | p | #path | p | |
| None | 542 | <0.0002 | 177 | <0.0002 | 40 | <0.0002 |
| APOE+1Mb (77) | 446 | 0.0002 | 131 | 0.0006 | 28 | 0.0008 |
| APOE+1Mb+GWS (98) | 402 | 0.0020 | 116 | 0.0008 | 23 | <0.0002 |
| APOE+1Mb+GWS+1Mb (552) | 336 | 0.0094 | 93 | 0.0066 | 22 | 0.0018 |
Genes containing a SNP with p<8.32×10-4 counted as significant. This corresponds to the top 5% of genes (ranked by most significant SNP) when no genes are removed. 0kb window used to assign SNPs to genes. #path = number of pathways