SEQanswers

Go Back   SEQanswers > Applications Forums > RNA Sequencing



Similar Threads
Thread Thread Starter Forum Replies Last Post
DEG analysis with paired sample without replication younko RNA Sequencing 0 05-02-2014 01:06 AM
Post DEG analysis wetSEQer Bioinformatics 1 12-21-2013 02:16 AM
DEG analysis without gff/gtf file syintel87 Bioinformatics 6 01-11-2013 01:06 AM
How to map short reads to a distant genome? ynwh Illumina/Solexa 5 08-03-2011 05:56 AM

Reply
 
Thread Tools
Old 02-18-2015, 02:33 PM   #1
shuixiangyuer
Junior Member
 
Location: hangzhou

Join Date: Dec 2012
Posts: 3
Default DEG analysis between distant species

Hi all,

I am recently thinking about how to implement DEG analyses on two distant species. My idea is to get the expression values (like RPKM that corrected by GC and length bias), then use limma to call DEGs. The problem is, all DEGs might be confounded by evolutionary processes. I want to sort out those genes that significantly changed between species given that gene expression may fluctuate during evolution. One idea is to set a cutoff on their divergence, but I don't know what cutoff should be reasonable? Also, does anybody have other ideas?

Thanks,

Xuepeng
shuixiangyuer is offline   Reply With Quote
Reply

Tags
rna-seq, statistical analysis, statistical tests

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 11:32 PM.


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