HI
I want to know how to use WGCNA package to find gene expression networks related to your gene of interest. For example, If I want to know how p53 gene is correlated to all other genes in the expression matrix (RNA-Seq experiment), and find the top positively and negatively correlated genes, and then perform co-expression network analysis, gene ontology analysis for those highly positive and negative correlated genes with the P53 gene.
All the tutrials that I have seen in WGCNA from here: https://horvath.genetics.ucla.edu/html/CoexpressionNetwork/Rpackages/WGCNA/Tutorials/
The tutorials concentrate on analyzing the whole gene expression matrix , but I want to start with the correlation with my gene of interest with the rest of the genes, how can I perform this. If you know of any other tools, all the suggestions are welcome. Thanks.
