Go Back   SEQanswers > Sequencing Technologies/Companies > Illumina/Solexa

Similar Threads
Thread Thread Starter Forum Replies Last Post
PhiX removal jamimo Illumina/Solexa 5 04-06-2015 05:50 AM
less PhiX than you think? beardy_man Illumina/Solexa 1 11-08-2013 12:50 PM
PhiX index HMorrison Illumina/Solexa 6 09-28-2011 07:09 AM
V3 PhiX kthai Illumina/Solexa 0 04-01-2011 12:21 PM
Spiking phiX into multiplexed libraries as well as barcode sequences cmawhinney Sample Prep / Library Generation 3 09-16-2010 12:13 PM

Thread Tools
Old 11-20-2014, 10:02 PM   #1
Senior Member
Location: US

Join Date: Dec 2010
Posts: 429
Default PhiX libraries A/T composition

The A bias of PhiX forward reads (please see the attachment) has made me curious about the libraries. Would anybody have an idea how these are generated by Illumina?

PhiX has a single-stranded DNA genome with is enriched for As (1684 As, 1291 Ts, 1254 Gs, 1157 Cs).
Attached Images
File Type: png PhiX.png (7.4 KB, 29 views)
luc is offline   Reply With Quote
Old 11-21-2014, 07:05 PM   #2
Brian Bushnell
Super Moderator
Location: Walnut Creek, CA

Join Date: Jan 2014
Posts: 2,707

I suppose an unamplified library of a single-stranded organism will strongly reflect the organism's own composition bias. So, perhaps it is unamplified? That's probably not a very good decision for something used for calibration, but I'm just speculating.
Brian Bushnell is offline   Reply With Quote
Old 12-03-2014, 07:12 AM   #3
Junior Member
Location: South Africa

Join Date: Oct 2008
Posts: 5

looks like the phiX library is directional, which is interesting. Could be that the orignal material used to make the lib was ssDNA and the library was made using a strand-specific protocol...
Martin_Ranik 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 08:46 AM.

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