kegg.pathways: KEGG pathways

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

KEGG pathways

Description

KEGG pathways extracted using the ROntoTools R package (update: February, 2024).

Usage

kegg.pathways

Format

"kegg.pathways" is a list of 227 igraph objects corresponding to the 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

library(igraph)

# KEGG pathways
names(kegg.pathways)

i<-which(names(kegg.pathways)=="Type II diabetes mellitus");i
ig<- kegg.pathways[[i]]
summary(ig)
V(ig)$name
E(ig)$weight

gplot(ig, l="fdp", psize=50, main=names(kegg.pathways[i]))

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