Question: Distinguish Single Cell DNA Sequencing: Human vs Mouse
0
gravatar for ResearchR
12 months ago by
ResearchR70
ResearchR70 wrote:

Hey guys,

I have a quick question -

When doing single cell DNA sequencing from human mouse xenograft models - how to confirm via bioinformatic way that the sequence alignment obtained, is from human cell and not mouse cell contamination.

Do you think it is enough to look at sequence alignment statistics ( for example: STAR alignment log file) or is there a specific single cell program available, like "disambiguate" for bulk data?

Cheers, Chris

ADD COMMENTlink modified 12 months ago by h.mon27k • written 12 months ago by ResearchR70
2
gravatar for h.mon
12 months ago by
h.mon27k
Brazil
h.mon27k wrote:

You can use bbsplit.sh from the BBMap / BBTools package to split your sequencing into human-ony, mouse-only, ambiguous (aligns to both genomes) and unmapped reads.

ADD COMMENTlink written 12 months ago by h.mon27k
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