Tweet
Hello,
I am trying to decide if I wish to do paired end vs single read for a RNA-Seq experiments using human samples, the goal is to compare transcripts across different subjects for gene expression purposes.
50 bp single read is cheaper and also logistically quicker since it is a common run for most cores. My understanding from reading this forum is that 50bp single read is sufficient is to assign genes and that 50bp paired end will not give much additional information for the purpose of my study. So would people agree that I would be better off doing a single read run and using the savings to either get more read depth (I was planning on 20 million a sample) or to add additional subjects?
Thanks, Scott
I am trying to decide if I wish to do paired end vs single read for a RNA-Seq experiments using human samples, the goal is to compare transcripts across different subjects for gene expression purposes.
50 bp single read is cheaper and also logistically quicker since it is a common run for most cores. My understanding from reading this forum is that 50bp single read is sufficient is to assign genes and that 50bp paired end will not give much additional information for the purpose of my study. So would people agree that I would be better off doing a single read run and using the savings to either get more read depth (I was planning on 20 million a sample) or to add additional subjects?
Thanks, Scott