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  • #1

    Rat Exome Sequencing

    Hi all,
    Is there a commercial kit for sequencing rat exome? We just a few samples, therefore a bespoke design will be too expensive.
    Tags: exome, rat, sequencing
  • #2
    Hi,

    I am also working on a rat model and planning for a whole exome sequencing. We are planned to make a custom designed exome panel from a company, and do the whole exome sequencing at our end. As they dont do it for 2 or 3 samples, it bit costly.. But you can join us, and think of reducing the cost.. Let me know if you are interested. Send me an email.

    Regards

    Dinesh

    Comment

    • #3
      We recently pablished an article for "Rat Exome" which covers the sequence of exons and concerved non-coding sequence.

      Design and application of a target capture sequencing of exons and conserved non-coding sequences for the rat - BMC Genomics
      https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-016-2975-9
      Background Target capture sequencing is an efficient approach to directly identify the causative mutations of genetic disorders. To apply this strategy to laboratory rats exhibiting various phenotypes, we developed a novel target capture probe set, TargetEC (target capture for exons and conserved non-coding sequences), which can identify mutations not only in exonic regions but also in conserved non-coding sequences and thus can detect regulatory mutations. Results TargetEC covers 1,078,129 regions spanning 146.8 Mb of the genome. We applied TargetEC to four inbred rat strains (WTC/Kyo, WTC-swh/Kyo, PVG/Seac, and KFRS4/Kyo) maintained by the National BioResource Project for the Rat in Japan, and successfully identified mutations associated with these phenotypes, including one mutation detected in a conserved non-coding sequence. Conclusions The method developed in this study can be used to efficiently identify regulatory mutations, which cannot be detected using conventional exome sequencing, and will help to deepen our understanding of the relationships between regulatory mutations and associated phenotypes.


      Our prode set, TargetEC, is available from Roche NimbleGenunder the design name 140929_RN5_MS_EZ_HX1.

      Please feel free contact us on this target capture method for the rat.

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