KEGG interactome

Source: R/keggInteractome.R

Interactome generated by merging KEGG pathways extracted using the ROntoTools R package (update: November, 2021).

kegg

Format

"kegg" is an igraph network object of 5143 nodes and 43734 edges (40424 directed and 3310/2 = 1655 bidirected) corresponding to the union of 227 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 (2023). ROntoTools: R Onto-Tools suite. R package version 2.30.0.

Examples


# KEGG graph
summary(kegg)
#> IGRAPH 46880a7 DN-- 5147 43734 -- 
#> + attr: name (v/c)

# KEGG degrees of freedom
vcount(kegg)*(vcount(kegg) - 1)/2 - ecount(kegg)
#> [1] 13199497