SEQanswers

Go Back   SEQanswers > Literature Watch



Similar Threads
Thread Thread Starter Forum Replies Last Post
ALEXA-Seq : Alternative expression analysis by RNA sequencing paper malachig RNA Sequencing 23 04-22-2012 04:28 AM
What should be included to make a good transcriptome/RNA-seq paper? poisson200 Bioinformatics 5 06-27-2011 06:39 AM
RNA-Seq: Design and validation issues in RNA-seq experiments. Newsbot! Literature Watch 0 04-19-2011 03:10 AM
RNA-Seq: A pipeline for RNA-seq data processing and quality assessment. Newsbot! Literature Watch 0 01-15-2011 02:50 AM
New Paper: High Quality SNP Calling Using Illumina Data at Shallow Coverage nmalhis Bioinformatics 0 03-01-2010 02:40 PM

Reply
 
Thread Tools
Old 03-16-2012, 03:39 AM   #1
paulig
Junior Member
 
Location: Ireland

Join Date: Nov 2010
Posts: 2
Default Review paper about quality issues in RNA-seq data??

Hi everyone,

I'm wondering if there exists a paper discussing things like sequence quality degradation, sequence duplication, library contamination, etc. and approaches currently used to address these issues in NGS/RNA-seq?

I haven't been able to find anything decent but I'd imagine there must be something like this out there?

Thanks!
paulig is offline   Reply With Quote
Old 03-27-2012, 06:26 AM   #2
steven
Senior Member
 
Location: Southern France

Join Date: Aug 2009
Posts: 269
Default

Here is an "old" one:
Comprehensive comparative analysis of strand-specific RNA sequencing methods
http://www.nature.com/nmeth/journal/...meth.1491.html
steven is offline   Reply With Quote
Old 03-27-2012, 07:38 AM   #3
protist
Senior Member
 
Location: Ireland

Join Date: Jan 2009
Posts: 101
Default

Here is a few useful papers:

Nucleic Acids Res. 2012 Feb 9;
Summarizing and correcting the GC content bias in high-throughput sequencing.
http://www.ncbi.nlm.nih.gov/pubmed/22323520


Biotechniques. 2012 Feb;52(2):87-94. doi: 10.2144/000113809.
Length and GC-biases during sequencing library amplification: a comparison of various polymerase-buffer systems with ancient and modern DNA sequencing libraries.
http://www.ncbi.nlm.nih.gov/pubmed/2...?dopt=Abstract

Nucleic Acids Res. 2011 Aug;39(15):e103. Epub 2011 Jun 6.
Systematic bias in high-throughput sequencing data and its correction by BEADS.
http://www.ncbi.nlm.nih.gov/pubmed/21646344

Nucleic Acids Res. 2010 July; 38(12): e131.
Biases in Illumina transcriptome sequencing caused by random hexamer priming
http://nar.oxfordjournals.org/conten...r.gkq224.short
protist 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 04:25 PM.


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