Question: Per sequence GC content failed in Human RNA-seq Data
gravatar for tahseen.abbas
22 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 • 834 views
ADD COMMENTlink modified 22 months ago by GenoMax94k • written 22 months ago by tahseen.abbas0

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

ADD REPLYlink written 22 months ago by ATpoint44k

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

ADD REPLYlink written 22 months ago by lieven.sterck9.5k
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