How to get KEGG pathway set with its corresponding metabolite ID/names?
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Entering edit mode
8 months ago

Hi Guys,

I am learning metabolomic pathway analysis and new to metabolites analysis. If I would like to use KEGG database to map pathway, I wonder how I extract pathways manually? (using R)

For example, I have three metabolites names: c("Acetoacetic acid", "Beta-Alanine", "Creatine") 1. How to find its KEGG ID? And how to get the pathway list with corresponding compound ID/names? 2. Is there a best practice to standardize metabolites names in order to match KEGG compounds?

Thank you.

metabolomics pathway KEGG signature GSEA • 622 views
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Entering edit mode
8 months ago

Hi, please see this recent question: pathway analysis for metabolites

Kevin

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