Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • RNA integrity number Drosophila

    Hello @all
    as we want to start an RNA-Seq analysis we try to determine the quality of our RNA (Drosophila heads) first. When we did this via Bioanalyzer an error occurred as expected. The measurement in a TapeStation results in a RIN though. I can`t explain why because still no 28S peak is visible. The RIN is the ration of 28S to 18S as I understood this.
    Therefore I don`t know if I can rely on that. Does someone have experience with that?
    Thank you!
    Jule

    ps: attached you see the trace of one sample with both machines
    Attached Files

  • #2
    It's a result of the 28S from insects being split. See this article: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3016993/

    Comment


    • #3
      As consequence from what Eric wrote, one often has to eyeball the RNA integrity for insect samples on the Bioanalyzer (I am looking ratio of the rRNA peak size to the smaller debris fragments).
      Your example trace looks great.

      Comment


      • #4
        Thanks - I try it with these samples now. Fingers crossed

        Comment


        • #5
          Hi,
          I'd suggest using the Bioanalyzer over the Tapestation in the future. It gives a more granular electropherogram, whereas the Tapestation directly images the gel image from the run. This results in a less detailed electropherogram. Your trace looks good, but the RIN/RINe values are effectively redundant for insect material. Eyes are the best measure.

          The link above is a great explanation!

          Comment

          Latest Articles

          Collapse

          • seqadmin
            Strategies for Sequencing Challenging Samples
            by seqadmin


            Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
            03-22-2024, 06:39 AM
          • seqadmin
            Techniques and Challenges in Conservation Genomics
            by seqadmin



            The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

            Avian Conservation
            Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
            03-08-2024, 10:41 AM

          ad_right_rmr

          Collapse

          News

          Collapse

          Topics Statistics Last Post
          Started by seqadmin, Yesterday, 06:37 PM
          0 responses
          8 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, Yesterday, 06:07 PM
          0 responses
          8 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 03-22-2024, 10:03 AM
          0 responses
          49 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 03-21-2024, 07:32 AM
          0 responses
          67 views
          0 likes
          Last Post seqadmin  
          Working...
          X