I am planning to investigate how immune cells infiltrated in certain tissues may change between different mouse models. If I don't want to focus on a specific immune cell type, is it possible to sort CD45+ cells from WT and KO mice and then use scRNA sequencing to 1. understand which differences are present between the genotypes in that tissue and 2. in which immune cell subset these differences are mostly present (therefore excluding the subsets that do not change)?

Thank you very much in advance for your help!