[Gmod-help] Genomic Gap Closure

[Dave Clements, GMOD Help Desk]

Stephanie,

I'm forwarding your question on to the GMOD Developers and the GMOD
GBrowse lists, which I believe are the best two places for your
question within GMOD.

Dave C
GMOD Help Desk

On Thu, Apr 30, 2009 at 8:47 AM, Schwartz, Stephanie (CDC/CCID/NCIRD)
<zqd3 at cdc.gov> wrote:
> Good Morning,
>
> I was referred here from the folks at Open Helix, who said you may be
> helpful in providing guidance as to strategies for genomic gap closure.  I
> have a prokaryotic genome assembly with approximately 10 gaps.
> Unfortunately each gap is flanked by repetitive elements dispersed
> throughout the genome, and I cannot design specific primers for those gaps
> for PCR and sequencing.  Most primers designed in the context of the gaps
> will bind to multiple loci.  I have tried numerous things, including
> projector 2 (open source tool).  Can you recommend any tools, strategies, or
> experts in the field who may be willing to help or provide guidance?  Thank
> you.
>
> Sincerely,
>
> Stephanie Schwartz
> CDC, Div. of Bacterial Diseases

Was this helpful?  Let us know at http://gmod.org/wiki/Help_Desk_Feedback

Learn more about GMOD at SMBE & Arthropod Genomics:
  http://ccg.biology.uiowa.edu/smbe/symposia.php?action=view&sym_ID=27
  http://www.k-state.edu/agc/symp2009/seminar.html