Go Back   SEQanswers > Sequencing Technologies/Companies > Ion Torrent

Similar Threads
Thread Thread Starter Forum Replies Last Post
Look for somatic mutation from Ion Proton Exome Sequencing lethalfang Bioinformatics 2 09-11-2014 01:42 AM
hybridization failure- Target exome sequencing Ion proton vandy Ion Torrent 2 07-30-2013 02:12 AM
Library prep kits for Ion PGM or Ion Proton Bioo Scientific Vendor Forum 0 02-18-2013 06:25 AM
Ion Torrent libraries on proton? Apex Ion Torrent 2 12-12-2012 06:33 AM
Ion Torrent $1000 Genome!? Benchtop Ion Proton Sequencer aeonsim Ion Torrent 88 10-28-2012 04:50 AM

Thread Tools
Old 02-14-2014, 08:25 AM   #1
Senior Member
Location: Brazil

Join Date: Nov 2010
Posts: 146
Default Sequencing Ion PGM libraries using Ion Proton

Has anyone sucessfully sequenced 200 bp libraries originally constructed for Ion PGM, using Ion Proton.

We have been told by tech support that it was possible and should work well but our experience so far has been proven disastrous.

After some tests we know for a fact we don't have any instrument nor reagents problem. When we sequenced the same libraries in the PGM we got median lengths around 170 bp and in the PGM around 75 bp. The amount of reads with low quality and polyclonals is very big.

I am not convinced Proton chemistry can handle 200 bp PGM libraries.
MissDNA is offline   Reply With Quote
Old 02-14-2014, 08:45 AM   #2
Senior Member
Location: Brazil

Join Date: Nov 2010
Posts: 146

I got an answer from tech support:

PGM libraries are not compatible with available Proton chemistry due to their size. Proton libraries may have only up to 270 bp.

Size is critical for sequencing with Proton and even a 10bp difference can cause severe problems.

Imagine 60 pb!
MissDNA is offline   Reply With Quote
Old 03-03-2014, 11:07 AM   #3
albert liu
Junior Member
Location: michigan

Join Date: Dec 2012
Posts: 6
Default running 60 pool Ampliseq libraries for PGM on one Proton


Just did two run of pooled samples on Proton.
With new Proton Seq 200 v3 kit, we run with 60 pool of ampliseq on one PI v2 chip.
The result was very similar to PGM run.
We did comparison before with early proton reagent ( PI chip and proton 200 kit ) which did not match PGM's perfromace.
albert liu is offline   Reply With Quote

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 08:01 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO