Comparative Single Cell RNA Sequencing of Notch2 and RBPJ-deficient mononuclear phagocyte cells and myeloid progenitors from the spleen and bone marrow

Mononuclear phagocytes and their myeloid progenitors are critical in various homeostatic processes as well as immune responses. We employed single-cell RNA sequencing to investigate myeloid progenitors and mononuclear phagocytic cell subsets, including monocytes, splenic red pulp macrophages and dendritic cells in the spleen and in the bone marrow, with a focus on how Notch2 and its nuclear mediator Rbpj regulate these subsets. Our study offers a comparative analysis of mononuclear phagocytes and their progenitors examining cells isolated from the spleens or bone marrow of myeloid Notch2 (N2?Cx3cr1)-, and Rbpj (Rbpj?Cx3cr1)-deficient mice or control animals. Our findings may provide further insights into the heterogeneity of the mononuclear phagocytic cells in the spleen and bone marrow and show the critical role of Notch signaling in their development. Overall design: Mononuclear phagocytic cells and their myeloid progenitors from Ctrl, Notch2- and Rbpj deficient mouse spleens or bone marrow (two mice of each genotype) were labeled with different HTOs, pooled as spleen or bone marrow, and isolated using fluorescence-activated cell (FACS)-sorting. *************************************************************** The table below lists GEO accessions reused/reanalyzed for this study. ***************************************************************