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

I want to download all the genes related to each metabolic pathways in KEGG. However, I can only do it in bulk like in the link: http://www.genome.jp/dbget-bin/get_linkdb?-t+genes+path:hsa01100 So I can get the list of all metabolic genes but cannot split them into each sub-pathway. Does anyone know how to do this?

gene
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updated by EagleEye EagleEye • written by moonlhy2010 • moonlhy2010

Do you use R? There is a package called KEGG.db in bioconductor.

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written by Benn Benn

1 answer

Gene Set Clustering based on Functional annotation (GeneSCF)

Advantages

  • Real-time analysis, do not have to depend on enrichment tools to get updated.

  • Easy for computational biologists to integrate this simple tool with their NGS pipeline.

  • GeneSCF supports more organisms.

  • Enrichment analysis for Multiple gene list in single run.

  • Enrichment analysis for Multiple gene list using Multiple source database (GO,KEGG, REACTOME and NCG) in single run.

  • Download complete GO terms/Pathways/Functions with associated genes as simple table format in a plain text file (Check "Two step process" below in "GeneSCF USAGE" section).

Related publications

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written by EagleEye EagleEye

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