Gene expression profiles at single cell level of CD45+ tumor-infiltrating immune cells in intra- and extra-cranial tumors

Tumor cells and the anatomical location determine the composition and functionality of the non-malignant tumor microenvironment (TME). To determine the influence of the anatomical location, we have compared the transcriptome of CD45+ tumor-infiltrating immune cells isolated from intra- and extra-cranial tumors, respectively. The same tumor cell line was used to generate both tumor models. Overall design: Fluorescence-activated cell sorting was used to isolate CD45+ immune cells from intra- and extra-cranial tumors established through orthotopic injection of a breast cancer (BC) brain metastasis (BrM) cell line either in the brain or the mammary fat pad (MFP), and analyzed using scRNAseq.