RNAseq: Biological replicates vs sequencing depth
If you are gearing up to do a RNAseq experiment and wondering if you should sequence deeper or sequence more biological replicates, this article - which I find still relevant - would be very useful.
RNA-seq differential expression studies: more sequence, or more replication?
Liu, Zhou and White 2013
Moreover, there is another source for getting some help designing an RNAseq experiment: Scotty.
Finally, a comprehensive review of RNAseq methodology is here: