Table 9 The 10 enriched pathways with CePa using the two TC genes lists and the KEGG database. The table summarises the values obtained for each topology measure employed by CePa
From: Using BioPAX-Parser (BiP) to enrich lists of genes or proteins with pathway data
Name | Weight | In degree | Out degree | Betweenness | In reachability | Out reachability |
|---|---|---|---|---|---|---|
(1) Pyrimidine biosynthesis | 0.034 | 0.034 | 0.180 | 0.041 | 0.034 | 0.029 |
(2) Inactivation of APC C via direct inhibition of the APC C complex | 0.047 | 0.0050 | 0.029 | 0.041 | 0.034 | 0.047 |
(3) Generation of second messenger molecules | 0.034 | 0.097 | 0.0059 | 0.118 | 0.091 | 0.118 |
(4) Removal of licensing factors from origins | 0.034 | 0.034 | 0.029 | 0.041 | 0.034 | 0.029 |
(5) CDT1 association with the CDC6 ORC origin complex | 0.047 | 0.034 | 0.041 | 0.0058 | 0.071 | 0.029 |
(6) Association of licensing factors with the pre replicative complex | 0.205 | 0.034 | 0.188 | 1 | 0.066 | 0.233 |
(7) NCAM signaling for neurite out growth | 0.034 | 0.062 | 0.029 | 0.068 | 0.091 | 0.029 |
(8) Switching of origins to a post replicative state | 0.034 | 0.034 | 0.029 | 0.041 | 0.034 | 0.029 |
(9) Fanconi Anemia pathway | 0.034 | 0.034 | 0.029 | 0.041 | 0.034 | 0.029 |
(10) Telomere C strand Lagging Strand Synthesis | 0.0051 | 0.065 | 0.041 | 0.082 | 0.075 | 0.029 |