Go Back   SEQanswers > Applications Forums > Sample Prep / Library Generation

Similar Threads
Thread Thread Starter Forum Replies Last Post
TruSeq or Nextera kit for library prep? rooty Sample Prep / Library Generation 12 10-29-2013 07:02 AM
cDNA prep for Illumina using the Nextera kit fgoetz Sample Prep / Library Generation 3 07-09-2012 07:34 PM
Nextera vs Illumina Library Prep maggie Illumina/Solexa 6 03-01-2012 07:01 PM
Illumina PE library prep with AmpureXP lboston Sample Prep / Library Generation 5 01-19-2011 11:11 AM
Nextera vs Illumina Library Prep maggie Illumina/Solexa 2 12-30-2010 10:58 AM

Thread Tools
Old 08-07-2012, 04:27 AM   #1
Location: SW UK

Join Date: Nov 2011
Posts: 83
Default Illumina Nextera for exome library prep versus sonicated approachs


Does anyone have any experience comparing exome library prep coverage results using Illumina's Nextera library prep which relies on enzymatic 'tagmentation' (transposon-mediated addition of indexes and adapters and fragmentation) compared to alternate approaches that rely on sonication such as Agilent SureSelect or Illumina's TruSeq?

swNGS is offline   Reply With Quote
Old 12-04-2012, 11:02 AM   #2
Location: Dallass

Join Date: Nov 2009
Posts: 49

I'm also curious about this. We are being strongly encouraged to use nextera over Truseq for exome sequencing and I'd like to get some feedback before we jump in. My understanding is that the lovely pricing we currently enjoy for the TruSeq Exome kits will be going away after the first of the year, but that the Nextera kits will remain affordable.
VanessaS is offline   Reply With Quote
Old 12-04-2012, 03:32 PM   #3
--Site Admin--
Location: SF Bay Area, CA, USA

Join Date: Oct 2007
Posts: 1,358

Moving to sample prep. Try to hit the right forum.
ECO is offline   Reply With Quote
Old 01-21-2014, 06:08 AM   #4
Location: Padova ITALY

Join Date: Jul 2009
Posts: 32

What is your esperience with the Nextera Exome kit so far?
Are you getting the same % of reads on targett? I am mostly interested about the coverage that I can get using these libraries compared to the TrueSeq exome enrichment libraries (62 Mb target) I have used so far.

If you have any suggestion when approaching Exome library prep with the Nextera' protocols, it will be much appreciated.

dottomarco is offline   Reply With Quote
Old 01-22-2014, 06:20 AM   #5
james hadfield
Cambridge, UK
Community Forum
Location: Cambridge, UK

Join Date: Feb 2008
Posts: 221

We've run 96 rapid-exomes but not done the direct comparison to TruSeq etal. The on-target rates were good, duplication rate was a bit higher than we'd previously seen and at some level I'd say the exome is not as "good". This is all relative though.

The biggest advantage from our perspective is the ability to perform exome analysis using 50ng of DNA routinely. Nextera also removes the need for any fragmentation or sonication making the lab work easier. I'd argue these workflow improvements need to be considered aginst other metrics.

You can only assesses the quality in light of your own very specific needs.

I'm sure comparisons will follow but they'll be out of date upon publication. I'd say just dive in a do an experiment, your almost certain to find something interesting!
james hadfield 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 04:14 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO