differentially coexpressed genes using wgcna?

Question

[tonmoya.app]

I am facing an issue with the WGCNA tool. It works fine to give the coexpressed modules. To find the differentially coexpressed genes I have used the wgcna function of DCGL tool, but it could not find any differentially coexpressed genes. I have tried by changing the parameters of the function but it is not working. Is it normal not to get any differentially coexpressed gene even if we find the coexpressed modules?

Answer 1

[andres.firrincieli]

Hi,

most of the time you get modules from WGCNA but that does not mean that your modules are biologically meaningful. Look at the heatmap of each modules and the check if the gene expression profile changes across your main conditions