Normalization for RNA-Seq samples
0
0
Entering edit mode
12 months ago
ATCG ▴ 350

Hi I want to extract genes that are expressed in a tissue-specific manner, not expressed, expressed across tissues. I am working with RNA-Seq data across different tissues.

I’m sure others have done this experiment already. I have the following questions:

  1. I will start with a counts table, output of featureCounts, how would I normalize samples, usually I would use DESeq2, but in this case, I am not using DESeq2. (I will have data generated in different batches, labs, library size, technical variation.)

  2. What is an appropriate threshold for expressed vs. non-expressed, and can this information be derived accurately from RNA-seq data.

I hope this makes sense. Best!

RNA-Seq Tissue specific Transcriptome • 373 views
ADD COMMENT

Login before adding your answer.

Traffic: 2484 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6