KEGG pathways and modules

Question

[amborella]

Hello everyone,

I was wondering if someone could help me understand the concept of KEGG modules because I don't seem to be able to fully comprehend it. According to what I read, KEGG modules are manually curated and a repetitive pattern that can be found in different pathways and organisms. Nevertheless, I have a come across a few cases where the genes contained in a module, are not considered genes within the pathway (eg. Pathway hsa00020 and Module hsa_M00003 - gene ENO1 K01689 ).

Why are they not considered? What am I missing?

Thanks in advance

[natasha.sernova]

Some posts on KEGG from Biostars:

A: mapping file for KEGG IDs - there is some information here about KEGG pathways and modules

How To Get Kegg Pathway Interaction Network In A Tabular Format Easy To Manipulate? and here as well :

KEGG pathways and modules

There are some other useful KEGG features discussed in the posts below:

KEGG pathway gene list different from the picture

Quick way to download KEGG pathway images

how to download the genes in a sub-pathway in KEGG

mapping file for KEGG IDs

Is There Any Way To Retrieve Genes' Sequences In Fasta Format Using The Kegg Orthology Code?

How can I get all pathways for a given EC number in KEGG?

Answer 1

[EagleEye]

Try GeneSCF.