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Old 10-03-2019, 06:55 AM   #3
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Location: Midwest USA

Join Date: Jun 2019
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Originally Posted by olafblue1955 View Post
What RNA-seq method are you wanting to use? Typically, DNAse treatment in solution works fine, followed by rRNA depletion. Our library preps are done using a stranded system (any DNA reads would be "unstranded" or map to both strands). I have even taken to total nucleic acids sample, treated with Turbo DNAse, run rRNA depletion and then standard TruSeq Total RNA library prep. This should be done sequencing tomorrow or Monday; then we run RNA-Seq alignment and look at the stranded percentage. If there is excessive DNA in your samples, then percent stranded metric will be lower than 97% or so.
HI! Thanks for your message. I will send the samples to our Core for TruSeq Small RNA library prep or SMARTer smRNA-Seq. Did you perform PicoGreen of QubIt DNA HS assay for your RNA sample? If yes, how much DNA do you see?
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