Bulk RNAseq with cell type deconvolution?

Question

[shuaizh117]

Hello! I understand there are multiple tools (i.e. MuSic, Cibersort, etc.) nowadays to perform cell type deconvolution from whole tissue bulk rnaseq data. I wonder if there is any method to extract a specific cell type (i.e. smooth muscle cells) from the deconvolution data so I can perform further secondary analysis (i.e pathway enrichment analysis) on this specific type? Thank you!

Answer 1

[theodore.killian]

To my knowledge, CIBERSORTx is the only bulk deconvolution tool that can impute cell-specific expression profiles: https://cibersortx.stanford.edu/