Poly(A) tail 5'/3' bias

0

Entering edit mode

6.3 years ago

biostar.anon • 0

Is the abundance of Poly(A) tail (A^25), in sample isolated using poly-A mRNA, potentially caused by a 3' bias in the isolation ?

Could using uneven specimen cause bias in analysis (even when filtered)?

RNA-Seq rna-seq sequencing • 1.3k views

ADD COMMENT • link updated 6.3 years ago by GenoMax 141k • written 6.3 years ago by biostar.anon • 0

0

Entering edit mode

You need to be a bit more specific - I'm not sure what you are asking...?

ADD REPLY • link 6.3 years ago by Kristoffer Vitting-Seerup ★ 4.0k

0

Entering edit mode

I am asking if a overabundance in poly(A) sequences (>1%) in RNA-seq data of a sample could be caused by RNA break during isolation (thus resulting in a 3' bias).

I found a specimen file with an overabundance of A* sequences in fastqc compared all other specimens.

Second, even when filtered for poly(A), tail would such a bias affect DE analysis ?

ADD REPLY • link 6.3 years ago by biostar.anon • 0

Login before adding your answer.