Question: Example of complete de novo genome assembly of ion torrent reads
gravatar for fnd501
6.7 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 • 3.3k views
ADD COMMENTlink modified 2.6 years ago by Biostar ♦♦ 20 • written 6.7 years ago by fnd5010

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

ADD REPLYlink written 6.7 years ago by fnd5010
gravatar for Josh Herr
6.7 years ago by
Josh Herr5.7k
University of Nebraska
Josh Herr5.7k 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 6.7 years ago • written 6.7 years ago by Josh Herr5.7k
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