Question: Example of complete de novo genome assembly of ion torrent reads
gravatar for fnd501
4.7 years ago by
United Kingdom
fnd5010 wrote:

Does anyone know of any examples where a previously known complete genome has been assembled de novo using ion torrent reads?

ion torrent de novo assembly • 2.6k views
ADD COMMENTlink modified 6 months ago by Biostar ♦♦ 20 • written 4.7 years ago by fnd5010

Thank you, sorry my question was unclear but that is exactly what I was looking for!

ADD REPLYlink written 4.7 years ago by fnd5010
gravatar for Josh Herr
4.7 years ago by
Josh Herr5.6k
University of Nebraska
Josh Herr5.6k wrote:

Your question is not entirely clear -- you're looking for a resequencing project with Ion Torrent data that was then de novo assembled and compared to a known reference to understand assembly quality?

I'm sure there are many, but the one to comes to my mind is the E. coli O104:H4 European outbreak strain sequencing from a few years ago.  A complete reference for a similar strain was known and the variant strain was sequenced with Ion Torrent, de novo assembled, and then compared.

Here's a good blog post from Nick Loman about his experiences with the Ion Torrent sequencing.

ADD COMMENTlink modified 4.7 years ago • written 4.7 years ago by Josh Herr5.6k
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