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Old 01-06-2020, 06:20 PM   #1
0880484929
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Default Would you sequence an RNA-Seq library with this amount of adapter dimer?

I used Lexogen's 3' Quantseq kit and mistakenly used the wrong bead amount for the first cDNA purification (30 ul beads instead of 16). My guess is that resulted in libraries with lower fragment size distribution than I normally see, and several libraries have obvious peaks around 150 bp indicating likely adapter dimer (see attached trace). I was hoping to sequence these libraries with 75 bp SR on Next-seq. What should I expect to get out of the sequencing run if I proceed? I am contemplating trying Ampure Xp purification, but the libraries are already small (most around 300 bp average, or less). So I don't know how it would work. I have some reads to burn so it would be ok if I lost some to adapter dimer (maybe even as much as 30% or 40%). But if most the reads would be lost, I would probably just remake the libraries.
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Old 01-09-2020, 02:02 AM   #2
lexogen
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Dear QuantSeq kit user, please send these details to info@lexogen.com, and our technical support will reply ASAP.

Thank you,
Lukas Paul

Sr. Manager Scientific Affairs
Lexogen GmbH
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