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

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