Question: Per sequence GC content failed in Human RNA-seq Data
gravatar for tahseen.abbas
7 months ago by
tahseen.abbas0 wrote:


I am analyzing Human RNA-Seq data for which i initially did FastQC.Majority of my samples failed Per sequence GC content in FASTQC post trimming also (I haven't trimmed my sequences,just gave the adapter sequences while doing trimmomatic). I also checked my bad samples using FASTQ_Screen that maps reads against various species databases (mouse,rat,fungi,bacteria,rRNA) to find out if there is any contamination in my reads but i couldn't find so.

Any suggestions regarding this?

Thanks Tahseen

rna-seq • 303 views
ADD COMMENTlink modified 7 months ago by genomax73k • written 7 months ago by tahseen.abbas0

Please embed your images according to How to add images to a Biostars post

ADD REPLYlink written 7 months ago by ATpoint24k

is it a normal, ribo-depleted total RNA sample or something more exotic? (eg. amplicon, exome, or such )

ADD REPLYlink written 7 months ago by lieven.sterck6.0k
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: 899 users visited in the last hour