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Old 07-21-2013, 06:20 PM   #1
Location: Georgia

Join Date: Mar 2013
Posts: 15
Default RNA-seq contamination with human mitochondrial sequence?

Can we expect human mitochondrial sequence in Human RNA-seq library? I mean does the presence of mitochondrial sequence in RNA-seq data stands biological significance or likely a result of contamination?

I have over-represented sequences (>0.1% of total reads, up to 0.35%) in my RNA-seq library. Is this normal? Should I be excluding these "contaminating" sequences or leave them as they might reflect some expressed mitochondrial genes?

thoughts please?
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Old 07-22-2013, 06:10 AM   #2
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Location: USA

Join Date: Apr 2009
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Yes, we always see mtRNA in our RNA-Seq libraries. If you don't want it use Ribo-Zero Gold or oligo-dT priming.

Since mtRNA mutations are clinically significant I personally prefer having mtRNA in my libraries. The rRNA I could live without though.
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