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Old 01-21-2020, 05:22 AM   #1
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Location: Austria

Join Date: Jan 2020
Posts: 2
Default 10x genomics 3'RNA-seq dual indexing


so I had a discussion with the 10x Genomics support people about sequencing the v3 chemistry 3'RNAseq libraries on a HiSeq3000/4000 system with dual indexing. They don't recommend dual indexed sequencing as in some cases the top surface of the flow cell lane went completely dark, while the bottom surface was fine.

This seems rather odd to me, as I can't imagine why it would be surface dependent?! I was wondering if anyone has ever tried it or experienced this. Dual indexed sequencing would be helpful for us as it would mean higher turn around time for our samples. Do you have any explanation of why this is happening?

Thanks a lot!
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