This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Getting a list of up and down regulated genes in a pathway

Hi

I need a list of up and down regulated genes in EGFR pathway

In googling I found 2 things one is not downloadable one is not with gene symbol

https://www.jneurosci.org/content/jneuro/suppl/2006/07/12/26.28.7532.DC1/liu-Table_S3.pdf

http://amp.pharm.mssm.edu/Harmonizome/gene_set/EGF$slash$EGFR+Signaling+Pathway(Homo+sapiens)/Wikipathways+Pathways

any suggestion please?

gene pathway
• 1,765 views • link
updated by Gabriel Gabriel • written by zizigolu zizigolu

Up/down in comparison to what?

• 0 views • link
written by ATpoint ATpoint

Sorry I am not sure

Do you know a source for such genes?

• 0 views • link
written by zizigolu zizigolu

1 answer

Download the WIKIPATHWAYS gmt files, load them into R, then select the genes from said pathway, and find the differentially expressed genes from said gene vector

• 0 views • link
written by Gabriel Gabriel

What? In the link you sent it says there are 50 proteins in the geneset

• 0 views • link
written by Gabriel Gabriel

Sorry you know how from a list of genes in a pathway which one is activator and which one is inhibitor?

• 0 views • link
written by zizigolu zizigolu

Log in to answer this question.

More posts like this

No similar posts found.