I have used WGCNA by integrating several datasets which are processed in a similar way. Identified 17 modules, followed by performed pathway analysis with the genes present in those modules.
Among all the protein-coding genes,ncRNAs and other genes, I'm particularly interested in a specific lncRNA
I found that
MALAT1 is co-expressed with more than 800 genes in a module named
blue. I have few questions, can anyone please help me in this?
I would like to check which are the closest co-expressed genes to
MALAT1. How can I know that?
Once I get the closest genes to
MALAT1, I would like to make a network with those genes and MALAT1. How to do this network?