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-   -   de novo Transcriptome analysis to get differential expression data (http://seqanswers.com/forums/showthread.php?t=33156)

nareshvasani 08-27-2013 07:39 AM

de novo Transcriptome analysis to get differential expression data
 
Hello All User,

I need your help with downstream analysis. I have fastq file containing sinlge end read from ion proton instrument. I have generated de novo assembly using Trinity.
From there on wards, I am quite not sure how to get gene expression data?

Hope you guys can guide proper direction.

Thanks,
Naresh
:)

super0925 07-23-2015 03:12 AM

Quote:

Originally Posted by nareshvasani (Post 114601)
Hello All User,

I need your help with downstream analysis. I have fastq file containing sinlge end reads from ion proton instrument. I have generated de novo assembly using Trinity.
From there on wards, I am quite not sure how to get gene expression data?

Hope you guys can guide proper direction.

Thanks,
Naresh
:)

Hi Naresh
Have you done that? I want to do the similar issue which focus on DE genes analysis.
I thought after Trinity , the downstream is RSEM and DESeq , am I right?


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