Kegg pathways

[Nagasai Hemasree]

Hi, I am hema. I have a diffentially expressed genes set extracted from geo dataset and I have to find the kegg patgways. I tried to use Keggscape and cytokegg app. But I couldn't proceed further. Can anyone guide me how to find kegg enriched pathways. Is there any input format except the gene list.

[Scooter Morris]

Hi Hema,

   You could use the stringApp for that.  Just enter your gene list to get a PPI back, then use the STRING Enrichment functions to get the enrichment values.  Once you've done that, you can filter by KEGG pathways.

-- scooter

[Nagasai Hemasree]

Hi scooter,

Thank you for your suggestion. I will try and get back to you again.

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[Nagasai Hemasree]

Hi scooter, I have a network created using string. When I tried to set the network as string network in cytoscape. The option is not getting enabled. How can I do that?