IMC Matched Primary and Metastatic Breast Cancer

This repository contains all raw MCD files and the fully annotated dataset file (backup_output.rds) that pertain to imaging mass cytometry analysis of primary and metastatic breast cancers in the manuscript by Grasset et al. "Mapping the breast tumor microenvironment: proximity analysis reveals spatial relationships between macrophage subtypes and metastasis-initiating cancer cells".

Otherlegends.zip contains the antibody panel, maps of ROI assignments for each of the 5 TMAs used, and legends/metadata related to all of the individual ROIs.

R scripts used for the analysis of this dataset are available on https://github.com/wjhlab/BreastMetIMC/