The editor has been updated to markdown! Please see more info at: Tutorial: Updated Support Site Editor

Question: How to get the latest KEGG pathway
gravatar for Raymond
12 months ago by
Raymond0 wrote:


    I want to draw KEGG pathways with my nodes colored correlated to p-value*log(foldchange).

From :

I used "" to get all human kegg pathways, and "' + pathwayid + '/kgml" to download the correspond pathway for cytoscape input.

However, when I checked the xml files, it showed that they were created in May 14, 2014 .

Anyone here knows how to get the latest version of KEGG pathways?

Also, my current strategy is to use "KEGGscape" and my own script to color all nodes according to my own p-values. Any other suggestions?




kegggraph kegg kegg.db • 284 views
ADD COMMENTlink written 12 months ago by Raymond0

This site is for questions about Bioconductor software, but you don't seem to be using any. If you are not using Bioconductor, please send you questions to another forum such as Biostars.

Anyway, what you get from is, by definition, the latest KEGG information. KEGG licensing arrangements prevent anyone from downloading and redistributing KEGG information, so what is on is by far the latest. All other sources are years out of date.

ADD REPLYlink modified 12 months ago • written 12 months ago by Gordon Smyth36k

Thanks for the information, Smyth. 

ADD REPLYlink written 12 months ago by Raymond0
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 373 users visited in the last hour