Question: Is TCGA PRAD RNA-seq data strand specific?
gravatar for musaddeque.ahmed
2.9 years ago by
musaddeque.ahmed20 wrote:

I have been trying to find if TCGA PRAD (prostate cancer) RNA-seq data strand specific or not. I can not find any relevant info. I did find that it is Illumina protocol, but nothing more. Does anyone if they are strand specific? Do you have the right link? Thanks

prad strand rna-seq tcga • 1.6k views
ADD COMMENTlink modified 4 weeks ago by Zhenyu Zhang240 • written 2.9 years ago by musaddeque.ahmed20
gravatar for neethav
10 months ago by
neethav20 wrote:

All TCGA samples are non-stranded.

ADD COMMENTlink written 10 months ago by neethav20
gravatar for TriS
2.9 years ago by
United States, Buffalo
TriS3.6k wrote:

at the top of my head I don't know, however, there is a similar questions here on Biostar if you can find out the library preparation method/kit that might help.

ADD COMMENTlink modified 2.9 years ago • written 2.9 years ago by TriS3.6k
gravatar for Zhenyu Zhang
4 weeks ago by
Zhenyu Zhang240
United States
Zhenyu Zhang240 wrote:

The short answer is no.

The specific RNA-Seq library preparation kit TCGA used actually "could" support stranded library; however, it was used in a manner that libraries are actually strandless.

ADD COMMENTlink written 4 weeks ago by Zhenyu Zhang240
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1200 users visited in the last hour