Interactome generated by merging KEGG pathways
extracted using the ROntoTools R package (update: November, 2021).
Format
"kegg" is an igraph network object of 5007 nodes and 44755 edges (41122 directed and 3164/2 = 1582 bidirected) corresponding to the union of 225 KEGG pathways.
References
Kanehisa M, Goto S (1999). KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acid Research 28(1): 27-30. <https://doi.org/10.1093/nar/27.1.29>
Calin Voichita, Sahar Ansari and Sorin Draghici (2021). ROntoTools: R Onto-Tools suite. R package version 2.20.0.
Examples
# \donttest{
library(SEMgraph)
#KEGG graph
properties(kegg)
#> Frequency distribution of graph components
#>
#> n.nodes n.graphs
#> 1 5007 1
#>
#> Percent of vertices in the giant component: 100 %
#>
#> is.simple is.dag is.directed is.weighted
#> TRUE FALSE TRUE TRUE
#>
#> which.mutual.FALSE which.mutual.TRUE
#> 41122 3164
#> [[1]]
#> IGRAPH c39b4a6 DNW- 5007 44286 --
#> + attr: name (v/c), weight (e/n)
#> + edges from c39b4a6 (vertex names):
#> [1] 2065->2549 2065->2885 2065->25759 2065->399694 2065->53358
#> [6] 2065->6464 2065->5335 2065->5336 2065->5290 2065->5291
#> [11] 2065->5293 2065->5295 2065->5296 2065->8503 2065->3716
#> [16] 2065->3717 2065->6714 2065->4609 2065->1499 2065->3667
#> [21] 2065->3091 2064->2549 2064->2885 2064->25759 2064->399694
#> [26] 2064->53358 2064->6464 2064->5335 2064->5336 2064->5290
#> [31] 2064->5291 2064->5293 2064->5295 2064->5296 2064->8503
#> [36] 2064->5594 2064->5595 2064->5604 2064->5605 2064->3265
#> + ... omitted several edges
#>
# }