Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • #16
    Still interested in your percentages of remaining rDNA sequence after ribodepletion

    I have one more question concerning what are the unmapped reads in the ribodepleted experiments. When looking at the overall mapping rate to hg19 and the overall mapping rate to rDNA for my 4 samples, one can see that Mapping Rate to hg19 + Mapping Rate to rDNA is beyond 100%:

    Code:
    Sample  MappingRateTohg19  MappingRateTorDNA
    Sample 1  79.8  24.3
    Sample 2  88.2  14.1
    Sample 3  84.7  18.1
    Sample 4  87.8  13.3
    What are those reads common to hg19 and rDNA: multimapped reads? rDNA sequences included in hg19 (Human ribosomal DNA complete repeating unit - http://www.ncbi.nlm.nih.gov/nuccore/U13369.1 - contains ~43kb. Isn't it too large)? Any feedback?

    Thank you
    Last edited by Jane M; 05-09-2016, 07:35 AM.

    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
    11 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, Yesterday, 06:07 PM
    0 responses
    10 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 03-22-2024, 10:03 AM
    0 responses
    51 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 03-21-2024, 07:32 AM
    0 responses
    68 views
    0 likes
    Last Post seqadmin  
    Working...
    X