Question: RNA Seq analysis vs. Single cell RNA seq analysis
0
gravatar for fawazfebin
2.2 years ago by
fawazfebin30
fawazfebin30 wrote:
Hi I would like to know how similar is scRNA Seq analysis to normal RNA seq analysis. What are the additional steps to be followed in scRNA Seq analysis, especially during differential expression step?
rnaseq edger scrnaseq • 477 views
ADD COMMENTlink modified 2.1 years ago • written 2.2 years ago by fawazfebin30
Answer: RNA Seq analysis vs. Single cell RNA seq analysis
2
gravatar for James W. MacDonald
2.2 years ago by
United States
James W. MacDonald52k wrote:

They aren't very similar at all. That said, this support site is intended to help people with specific questions about Bioconductor packages, not as a source of generalized knowledge about various analysis methods. There are any number of manuscripts and blog posts as well as vignettes for the various Bioconductor packages that are dedicated to scRNA. You might start by reading some of those.

ADD COMMENTlink written 2.2 years ago by James W. MacDonald52k
Ok. Thanks for the guidance.
ADD REPLYlink written 2.2 years ago by fawazfebin30
1

This would a good place to start: https://www.biorxiv.org/content/early/2017/05/28/143289

Initial publications on scRNA-seq assumed that DE methods developed for bulk RNA-seq would not work well. More recent comparison studies have tended to show that, when applied in an appropriate ways, for example with reasonably strong appropriate filtering, bulk RNA-seq DE methods perform relatively well on scRNA-seq data.

ADD REPLYlink modified 2.2 years ago • written 2.2 years ago by Gordon Smyth39k
1

Another relevant paper:

https://www.biorxiv.org/content/early/2017/06/30/157982

ADD REPLYlink written 2.2 years ago by davide risso830
Answer: RNA Seq analysis vs. Single cell RNA seq analysis
0
gravatar for fawazfebin
2.1 years ago by
fawazfebin30
fawazfebin30 wrote:

Great thanks !

ADD COMMENTlink written 2.1 years ago by fawazfebin30
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