Using a laser-capture microdissection of cells a group of cells stained with the marker of interest was sequenced. In another cohort of patients (this is all human liver tissue) the whole tissue was sequenced (RNA-seq in both cases)
Can I estimate the contribution of the cells marked in the whole liver ("weight of these cells" in the liver in words of my PI)?
My gut feeling is that it can't be done this way, it would require both single cell sequencing and whole tissue sequencing to estimate the contribution of each cell line. But perhaps there is a tool that given the cell lines or the main expression of other cells lines it can be compared to using GSVA or some similar tool.