SEQanswers

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



Similar Threads
Thread Thread Starter Forum Replies Last Post
PubMed: Digital RNA sequencing minimizes sequence-dependent bias and amplification no Newsbot! Literature Watch 0 01-11-2012 02:30 AM
PubMed: Nucleotide Bias Observed with a Short SELEX RNA Aptamer Library. Newsbot! Literature Watch 0 07-29-2011 02:00 AM
Extreme nucleotide bias at fragment ends of Illumina mate pair library kmcarr Sample Prep / Library Generation 3 03-17-2011 01:03 PM
Nucleotide distribution useful? foxyg Bioinformatics 2 09-21-2010 09:11 AM
How to present the nucleotide bias of small RNAs using weblogo satp Bioinformatics 0 02-09-2010 11:51 PM

Reply
 
Thread Tools
Old 01-16-2009, 11:54 AM   #1
sem
Junior Member
 
Location: PA

Join Date: Dec 2008
Posts: 6
Default Bias toward G in first nucleotide in sequence?

I recently obtained strange results from a ChIP-seq experiment. Rather than having relatively thorough coverage of the genome, my reads were separated by large gaps and many were identical to each other and stacked right on top of each other. (I should note that I did also see enrichment at predicted areas.) We have not observed this pattern before. Then only thing that we see abnormal in the Illumina sequencer output info is that there was a large bias for G as the first nucleotide in the sequences. Could be related to the large stacks of identical reads? Any thoughts on why this may be occuring? Do you think it could be an inefficient ligation or amplification issue? TIA!
sem is offline   Reply With Quote
Reply

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 02:01 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2018, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO