Tools for bulk RNA-seq celltype deconvolution

1

Hi all,

I've got some bulk RNA-seq data (mouse brain/hippocampus) and I'm looking for tools to extract celltype composition proportions from the data. I've been looking around and most of the tools focus on using associated single-cell data, which I do not have.

Do you know of any tool which provides celltype predictions (mouse brain) by only inputting bulk RNA-seq (e.g. using internal cell reference datasets)?

If not, is the best strategy to get some public single-cell data to use with my bulk RNA-seq (from what I've read, via MuSiC or CIBERSORTx for example)? In that case, could you recommend (if there exist) databases providing single-cell data with annotated celltypes (instead of raw, unannotated data) which I could use?

If not, what would be the best strategy to achieve this goal?

thanks for your help


composition


deconvolution


bulk


RNA-seq


celltypes

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