Multi-organ CD45+ immune cell atlas

File description MultiOrganMetaAtlas_total.rds: an rds file containing a Seurat object 114275 cells (RNA integrated assays, PCA and UMAP reductions) Methodology 162 loom files were downloaded from the 12 different projects of the HCA consortium. In more detail, we focused on 14 different organs: prostate gland, eye, heart, skeletal muscle organ, blood, liver, spleen, brain, kidney, colon, esophagus, lung, thymus, and bone marrow. The files were transformed into Seurat objects with the function as.Seurat() from Seurat package in R. After incorporating metadata information, each object was screened for immune cells based on the expression of the CD45 immune marker. Specifically, cells were considered immune cells if they exhibited at least one read of the PTPRC - CD45 surface marker gene. Metadata All the file contains the following donor metadata variables: Tissue: Organ/tissues Project: Project of HCA Library_prep: single cell technology Sample_ID: assigned patient identifiers Tissue_part: specific location of the sampling Sex: the donor's sex Age: the donor's age percent.mt: Calculation of mitochondrial proportion percent.ribo: Calculation of ribosomal proportion annotation_level1: characterization of cells into the main immune compartments annotation_level2: focusing on each annotation_level1 category and performing in-depth characterization of the immune cells macrophages: If a cell is a macrophage or no Tregs: If a cell is a Treg or no