Regarding Differential Gene Expression Analysis

Question

[shaikhfarahdeeba]

Hi,I have done differential gene expression analysis using limma,then did gene set enrichment analysis and annotation now i have to do clustering of genes and find interactions between them using R and bioconductor packages.Can anybody provide with the packages that can be used coz i have to do network generation using R.Thank you.

[Diwan]

You can check R package: WGCNA. They have a nice tutorial. (or) you can just create correlation matrix using 'cor' function and create a network based on that too

Answer 1

[Sean Davis]

Take a look at the Bioconductor Task View for gene expression networks:

http://www.bioconductor.org/packages/release/BiocViews.html#___Networks