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dviraran / xCell

Cell types enrichment analysis
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non-human data #26

Open laurabuggiotti opened 5 years ago

laurabuggiotti commented 5 years ago

Hi,

im working on cattle rnaseq data (whole blood) and wondering whether i could use the methodology for gene deconvolution...do i need to build a signature matrix bovine specific?

Thanks, Laura

dviraran commented 5 years ago

Hi,

Yes, I don't think that human and cattle are similar enough to get reliable results with orthologs.

Note that the xCell pipeline is a bit more complicated than just a signature matrix.

Best, Dvir

laurabuggiotti commented 5 years ago

thanks a lot for your answer!

arne-claeys commented 4 years ago

Dear dr. Aran We have a similar question. Do you expect that your method produces reliable results when it is applied on data from more closely related species (e.g. mice and other (supra)primates) after mapping the genes to the human orthologs? We've obtained a few interesting results and are wondering whether they can be trusted.

Kind regards Arne