ploting a network of mRNAs and miRNAs

Question

[zizigolu]

hi,

I have expression profiles of 192 miRNAs and experimentaly validated targets in two separate txt files, how I can plot which miRNA connected with which mRNA via a network??? I tried parmigene R package but depending on miRNAs and mRNAs placed in row network contains only miRNAs or mRNA. then what to do please???

Answer 1

[andrew.j.skelton73]

This sounds like a visualisation problem, so Cytoscape seems appropriate, unless you want to stick with R, in which case I'd suggest iGraph.

[Dave Tang]

I would recommend igraph as well and found this tutorial extremely useful: http://kateto.net/netscix2016