Pluto Bioinformatics

GSE75688: Single cell RNA sequencing of primary breast cancer.

Bulk RNA sequencing

We performed single cell RNA sequencing (RNA-seq) for 246 primary breast cancer cells and lymph node metastases from 4 patients with distinct molecular subtypes (BC01; estrogen receptor positive (ER+), BC02; human epidermal growth factor receptor 2 positive (HER2+), BC03; double positive (ER+ and HER2+), BC03LN; lymph node metastasis of BC03, BC04; triple-negative breast cancer (TNBC), BC04LN; lymph node metastasis of BC04) and matched bulk tumors. We separated these single cells into epithelial tumor and tumor-infiltrating immune cells using the epithelial cell adhesion molecule (EPCAM) signature. The refined single cell profiles for the tumor and immune cells provide key expression signatures of breast cancer and the surrounding microenvironment. SOURCE: Woosung Chung Samsung Genome Institute