@EpiDemos82 Depends on how good your depletion is. We have had good results with ~1-2m CDS reads per genome, but I'm mainly interested in more-abundant transcripts for my applications… Fig 2 in this paper is helpful: https://t.co/5dBxwdrSC9
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@JCoutoPhoenix I’d say you always want at least 3. Another way to approach it would be to consider how much depth you need and if you can add more samples overall anyway, without reducing biological replicates per strain. This paper is a bit old but might
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This is a very nice paper and a MUST for anyone considering an RNA-seq expt http://t.co/zD6aHnWchb