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Old 08-27-2013, 07:39 AM   #1
nareshvasani
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Location: NC

Join Date: Apr 2013
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Post 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
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Old 07-23-2015, 03:12 AM   #2
super0925
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Posts: 206
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Quote:
Originally Posted by nareshvasani View Post
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?

Last edited by super0925; 07-23-2015 at 03:27 AM.
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