Question: Is TCGA PRAD RNA-seq data strand specific?
1
gravatar for musaddeque.ahmed
2.9 years ago by
Canada
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
2
gravatar for neethav
10 months ago by
neethav20
neethav20 wrote:

All TCGA samples are non-stranded.

ADD COMMENTlink written 10 months ago by neethav20
1
gravatar for TriS
2.9 years ago by
TriS3.6k
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
0
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
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