SEQanswers

Go Back   SEQanswers > Applications Forums > RNA Sequencing



Similar Threads
Thread Thread Starter Forum Replies Last Post
Differentially expressed genes Parharn Bioinformatics 11 03-04-2014 03:16 AM
Cufflinks, differentially expressed genes statsteam Bioinformatics 5 11-15-2013 12:28 PM
still too many differentially expressed genes. thejustpark Bioinformatics 2 11-03-2013 02:54 PM
What to do after finding differentially expressed genes? sazz Bioinformatics 1 07-15-2013 11:39 AM

Reply
 
Thread Tools
Old 08-26-2015, 03:12 PM   #1
ishasethi7
Junior Member
 
Location: Buffalo, NY

Join Date: Aug 2015
Posts: 1
Question Finding differentially expressed genes between species

I have RNA Seq data from mouse and human skin ( 2 replicates each) and want to compare the expression of the orthologous genes to find any which are differentially expressed. I have quantile normalized the gene expression matrix across all 4 samples (2 mouse + 2 human). I eventually want to calculate the log fold change in expression of all orthologous genes between the 2 species. However before I do this, I should control for gene length, right? Will this be enough to give me an idea of the differentially expressed genes or should I be employing more sophisticated methods?

Can programs like DESeq be used for comparing gene expression between species?
Any comments would be helpful. Thanks a lot.
ishasethi7 is offline   Reply With Quote
Reply

Tags
deseq, differential expression, quantile normalization, rna-seq

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 04:38 PM.


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