Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
Duplication levels ege RNA Sequencing 4 05-23-2014 09:16 AM
High duplication levels in FASTQC flobpf Bioinformatics 3 11-27-2013 01:28 PM
high sequence duplication levels for Illumina RNA-Seq meta-transcriptomics Marcus RNA Sequencing 12 07-20-2012 07:41 AM
Apparent duplication levels incongruence between bismark and fastqc with BS-Seq data gcarbajosa Bioinformatics 2 12-13-2011 09:43 AM
Fastqc sequence duplication levels Bruce E Illumina/Solexa 1 07-29-2011 08:13 AM

Thread Tools
Old 06-11-2014, 03:05 AM   #1
Location: Haifa, Israe;

Join Date: Feb 2013
Posts: 23
Default Comparing RNA-seq libraries with different levels of PCR duplication

Hi all,

We are analyzing a set of RNA-seq libraries and noticed that our libraries have very different levels of PCR duplicates, resulting in very different levels of complexity: some libraries have "many shades" of transcription, while others have lots of genes with low or zero expression or with very high levels, but relatively few intermediates. This is likely due to a combination of technical issues with the library construction and the fact that some libraries had much lower RNA amounts.

We cannot re-do the experiment or the library sequencing since we are dealing with material that is hard to get by, so we are looking for a statistical or computational method to deal with the PCR duplicates and different levels of library complexity. Any ideas or recommendations for papers published on this subject? I assume we are not the first to have encountered this issue...

dsher is offline   Reply With Quote

low complexity, pcr duplicates, rna-seq, statistica tools

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 09:24 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO