Oncogenic calreticulin induces TGF-β expression and Treg expansion in the bone marrow microenvironment as a mechanism of immune escape

This repository contains all necessary scRNA-seq inputs to reproduce the results described in "Oncogenic calreticulin induces TGF-β expression and Treg expansion in the bone marrow microenvironment as a mechanism of immune escape" by Schmidt et al. (Cancer Research 2024). Content: "MPN_calreticulin_bm.R" --> R script containing all code "cells_table.RDS" --> cells table containing, cell_id, UMAP coordinates, complexity, cell type annotation and metadata "normalized_matrix.RDS" --> quality control filtered, log2-normalized and centered expression matrix "reference_signatures.RDS" --> all external signatures used for this study "EV2_*", "EV5_*", "MPN2_*", "MPN5_*", --> cellranger outputs