I am trying to find how best I can design an experiment to detect linc noncoding RNA, Even though it is not related to downstream aspects per se, but before coming into real bioinformatics I am getting confused whether I am able to really detect and quantify such noncoding RNA or not. So far as I have read various papers have published using some kine of Ribo depletion and followed by RNA-seq which may obviously give me linc RNA. However following two posts (looks like users are quite expert in this filed), suggest otherwise
It appear that simple enrichment with ribo-depletion is not very relevant. Any suggestion what should be the best way to go - just ribodepleted or both polA vs Ribo-depleted libraries should be best to detect linc noncoding RNA.