Output from KEGG pathway analysis: multiple genes correspond to the same enzyme

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5.2 years ago

abbeysj20 • 0

Hello,

I am performing a transcriptomic analysis between control and treatment group. Using BLAST2GO, I have downloaded all KEGG pathways that my DE genes are involved in. However, I have multiple genes that then correspond to the same enzyme. For example, I have 10 different genes that all have ATPase activity within the purine metabolism pathway. Some of these genes are upregulated in my treatment group and some are downregulated, so I'm not sure how this then affects the overall enzymatic activity within the pathway. Does anyone have experience with this issue? I do not have access to expensive pathway analysis software such as IPA.

Thanks in advance for any advice!

kegg pathway enzyme RNA-Seq • 1.6k views

ADD COMMENT • link updated 5.1 years ago by Biostar 20 • written 5.2 years ago by abbeysj20 • 0

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I am assuming you're actually interested in doing some sort of enrichment analysis, i.e. whether your DE genes are enriched for certain types of pathway. There are many solutions out there (BLAST2GO not necessarily being one of them), such as GSEA or Enrichr. A starting point to familiarize yourself with some of the concepts could be these papers: Mathur 2018, Chen 2013, Hung2012.

ADD REPLY • link 5.2 years ago by Friederike 8.9k

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