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  • Bias between NEBnext and Truseq RNA kits?

    Hey gang, I've got a bunch of samples already sequenced with libraries built with Illumina's truseq v2 kits. I have a few left to do but am running into the small-potatoes user problem of not needing 48 reactions and am thus loathe to buy another full v2 kit. I also have a strong suspicion that NEB provides the enzymes for those kits. So: has anybody here ever tried to compare libraries made by truseq with libraries of the same RNA made with NEBnext? If there's very little bias, I will be sorely tempted to go that route.

    Thanks for any insights!

  • #2
    There is some data showing polymerase bias:
    Last edited by rnaeye; 08-12-2014, 04:53 PM. Reason: spelling error

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    • #3
      NEBNext RNA library prep kit - For Single-end or Paired-end?

      Does anyone know whether the multiplex oligos for NEBNext RNA library prep kit allow for paired-end sequencing, and compatible to MiSeq? There is only one index primer added onto the PCR reaction, together with the universal primer.

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      • #4
        Yes. The NEBNext multiplex oligos are compatible with paired-end sequencing and MiSeq.
        Here a link to a series of webinars you might find useful:

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        • #5
          Originally posted by DRod View Post
          Yes. The NEBNext multiplex oligos are compatible with paired-end sequencing and MiSeq.
          Here a link to a series of webinars you might find useful:
          http://neb-online.de/index.php/de/neb-aktionen/260
          How about NEBnext multiplex small RNA library prep set (cat. no. E7330S) ? Is library prepared using this kit also compatible with Miseq ? Do I have to send separate custom primer since custom primer read seems to be different from what is found on Truseq universal adapter sequence.
          Thanks

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          • #6
            Yes, it's compatible with Miseq. You do not need separate primers. You can give them a call to double check if you like.

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