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Hi. So I have performed differential expression (DE) for mRNA, miRNA, and lncRNA of a control and a cancer cell line. I have one file for each of them, obtained using DESeq2. Now, I want to see how these RNAs are interacting with each other. Like a miRNA targeting a mRNA and a lncRNA which acts like ceRNA for the particular miRNA, etc. I know I can do this by finding the targets of all the RNAs manually, but I want to know if there is a tool, or a software, or a command or a script/package, which I can use to get the interaction network. Thank you.
