extracting Uniprot IDs for Kegg pathways
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12 weeks ago
Assa Yeroslaviz ★ 1.8k

I would like to know if it is possible to extract the UniProt IDs for each of the KEGG pathways for specific organisms.

From reading the clusterProfiler documentation, I think the information is all there, I'm just not sure, how one can access it.

For example, I would like to download all the gene symbols and uniProt IDs for each of the ~400 different pathways, without needing to go into each of them and extract them manually.

I know I can use the package to convert kegg IDs to uniprot with bitr_kegg, but I can't find a way to extract the genes for each pathway.

I would appreciate, if someone can help me achieve this.

thanks

mapping uniprot R kegg clusterprofiler • 180 views
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