Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Tag-Seq vs RNA-Seq

    Hi all,

    Does anyone know of any papers directly comparing RNA-Seq to Tag-Seq results? (Ideally, DpnII digital expression count data in yeast, but I'd take what I could get.)

    The situation: We have some old data using DpnII tag profiling to compare our homemade microarrays with Illumina digital gene expression counts. Its a rich dataset using two different priming methods to compare across platforms (microarrays vs digital Tag-Seq). Now, I have an additional RNA-seq dataset prepared with random fragmentation, not restriction endonuclease-generated tags. I'd love to be able to use the work we've already done to robustly compare my new RNA-Seq data to the same microarrays, but I'm aware that the Tag-Seq results are not directly comparable to the RNA-Seq results. What I'm wondering is if I can reasonably estimate the relationship by counting DpnII cut sites and scaling RNA-Seq counts by gene length or whether there are some further effects I'm missing.

    Thanks for any insight you can offer!

    Andrea

  • #2
    Hi Andrea,

    Apologies for resurrecting such an old thread, but I wanted to know if you ever got a satisfactory answer to this question, as I have the same one.

    Best,

    -Devin

    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, 03-27-2024, 06:37 PM
    0 responses
    13 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 03-27-2024, 06:07 PM
    0 responses
    11 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 03-22-2024, 10:03 AM
    0 responses
    53 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 03-21-2024, 07:32 AM
    0 responses
    69 views
    0 likes
    Last Post seqadmin  
    Working...
    X