Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Extracting a full length gene from illumina reads?

    Hi all,

    I've recently started a phd and I'm fairly new to all this so apologies if this is the wrong place to post this question.

    I'm trying to see if it's possible to extract full length gene sequences from an illumina sequenced metagenome using partial gene sequences as a guide.

    I have several partial novel gene sequences PCR amplified from a soil environment with degenerate primers.

    I also have paired end Illumina sequence data from the same environment (about 12 million reads).

    Blasting the partial sequences against the illumina data I can see that the sequences are there along with many highly related sequences.

    What I'd like to be able to do is extract at least one of the full length genes in order to design primers for the full gene or have it synthesized.

    is something like this even possible without doing whole genome assembly? any help at all would be greatly appreciated.

    And again apologies if this is the wrong place.

    Thanks

    Jonathan
    Last edited by lordjonwald; 10-27-2014, 07:07 AM.

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
12 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