kegg: KEGG interactome

In SEMgraph: Network Analysis and Causal Inference Through Structural Equation Modeling

KEGG interactome

Description

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

Usage

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.

Source

https://www.genome.jp/kegg/

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)

# KEGG degrees of freedom
vcount(kegg)*(vcount(kegg) - 1)/2 - ecount(kegg)

SEMgraph documentation built on Sept. 11, 2024, 8:36 p.m.