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Old 03-30-2015, 01:02 PM   #1
Elsie
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Location: Australia

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Default Ribo-zero - FastQC plots - Per sequence GC content

Dear all

Running Ribo-zero kits on human data, seen consistent FastQC plots like this.
Looks like a few very highly expressed ncRNAs, a result of the kit producing far more variable coverage and types of transcripts? Any comments appreciated.
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Old 04-10-2018, 01:54 PM   #2
dauble
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Hi Elsie, did you ever figure this out? We are seeing something very similar in some recent RNA-seq data generated using the Ribo-zero kit. We have never seen such things when we use poly A selection. We removed residual rRNA sequences (~2-6%) and that eliminated some of the weirdness, but the profile is still quite odd. David
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Old 04-10-2018, 01:58 PM   #3
GenoMax
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Even though the profile may be odd you should go ahead and analyze the data to see what it looks like. Things may be fine.
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