Spatial transcriptomics of triple negative breast cancer

Triple negative breast cancer (TNBC) is an aggressive and clinically challenging subtype of breast cancer. TNBC disporportionately affects African-American (AA) women, but the biological basis of this disparity is not understood. To gain a better understanding of TNBC, particularly in AA patients, we applied spatial transcriptomics to thoroughly characterize gene expression and tissue architecture in TNBC. Our cohort consisted of 22 patients, 15 of whom were AA, and 7 who were Caucasian. We obtained 2 sections from each patient's tumor (except for patient 19) for a total of 43 samples. 28 tissue sections representing 14 primary TNBC tumors were subject to spatial transcriptomics using the 10x Genomics Visium platform, followed by high throughput sequencing. Raw data not submitted due to patient privacy concerns.