Question: mitichondrial marker genes in SCRNAseq
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gravatar for rob.costa1234
5 weeks ago by
rob.costa1234140
United States
rob.costa1234140 wrote:

I am working on ScRNAseq and am using Saurat package. On the page http://satijalab.org/seurat/pbmc3k_tutorial.html there is mention of mitochondrial genes- mito.genes <- grep(pattern = "^MT-", x = rownames(x = pbmc@data), value = TRUE)

Is there a list of mitochondrial marker genes? Any pointer will be helpful.

Thanks

rna-seq • 111 views
ADD COMMENTlink modified 5 weeks ago by igor5.0k • written 5 weeks ago by rob.costa1234140
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gravatar for igor
5 weeks ago by
igor5.0k
United States
igor5.0k wrote:

Based on the code, they are just searching for genes that start with "MT-".

Alternatively, you can search for search for genes on "chrM" in your GTF.

ADD COMMENTlink written 5 weeks ago by igor5.0k
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