What is current the best available rat lung single cell RNA seq dataset for cell type annotation? any recommendations ?
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6 months ago
FantasticAI ▴ 60

I'm trying to perform cell type annotation on my scRNAseq data, I wonder whether is there any published rat lung single cell RNA seq dataset available for cell type annotation now?

Many thanks!

SingleR scRNAseq • 681 views
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Not sure if this is the same here, but these suggestions may apply, basically using published mouse references, then converting genes to rat orthologs (or vice versa):

https://support.bioconductor.org/p/9136905/

I guess there are notably fewer rat samples available than mouse as mouse is the more common model organism.

sra-explorer.info is a good tool to query NCBI for datasets.

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Thanks, I'll go ahead and have a look, really appreciate the help!

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