Are there any tools which can perform pathway enrichment analysis for bacteria like pseudomonas ?

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Shabhonam Caim

You can run Interproscan on your assembled transcripts with kegg pathway.

Mrigaya Mehra

Dear Shabhonam,

I have the annotations of the genes with me. I just want to create a pathways enrichment for these genes.

Yair Gatt

I like using DAVID for this, it's a very popular tool (>26,000 citations):

https://david-d.ncifcrf.gov/home.jsp

Some of the popular tools :

DAVID (free online tool)

GSEA (free)

Ingenuity (licence required)

Reactome (free)

Best wishes

Venkatesh Chellappa

Dear Mrigaya,

You will find all that you are looking for and even more here.

http://bioinformatics.forsyth.org/mtd/

Let me know if this is what you are in need of. Hope this helps.

Good luck,