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verified publisher icon StevenWingett

Interpreting ribosomal RNA contamination

Open PietroD opened this issue 1 year ago • 1 comments

Hi Thanks for the wonderful tool I am struggling to interpret the results. I am attaching the results on the read 1 of a paired end library from split-pool single cell RNA-seq (mouse). Looking at these results, can I conclude that my library is contaminated with ribosomal RNA? Thanks a lot

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PietroD avatar Nov 14 '24 17:11 PietroD

Hi,

Sorry for not responding immediately. The rRNA samples are a collection of mouse (version 38) rRNA sequences I extracted from a database (I believe it was NCBI). It appears that around half of your dataset are rRNA reads. I presume this is a mouse sample, but the rRNA is cross-mapping to human.

Best, Steven

StevenWingett avatar Jan 10 '25 18:01 StevenWingett