how to group/cluster gene by pathways

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9.5 years ago

marina.kimyr ▴ 20

I have 200 differentially expressed genes from an RNAseq analysis. I saw some heatmap in the literature where people clustered their genes by functionality or pathway. Without doing this one by one, how can I group genes by pathways or by functionality? Let's say that all NFKB genes should cluster under the category inflammatory response or NFKB pathways etc..

I'm looking for a platform where I can simply input my list of genes, I already have a heatmap of our genes, I can use R to cluster if needed.

RNAseq gene pathways transcriptome • 2.5k views

ADD COMMENT • link updated 23 months ago by Ram 44k • written 9.5 years ago by marina.kimyr ▴ 20

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You can try inputting your transcripts to KEGG KAAS. It assigns KO ID to each of your transcript and lists out the KO ID's under each pathway.

ADD REPLY • link updated 23 months ago by Ram 44k • written 9.4 years ago by Prakki Rama ★ 2.7k

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