10xgenomics.com Spatially Resolved Heterogeneity of Triple Negative Breast Cancer 10x Genomics | Visium | Spatial Gene Expression Application Note Highlights • Characterization of intratumoral heteroge- neity within pathologist-annotated invasive carcinoma • Integration of spatial and single cell gene expression data to visually localize enrich- ment of specific cell subtypes and states • Refinement of immune cell boundaries and immune cell-type composition • Identification and localization of putative cancer stem cells Graphical abstract Pathologist annotation Visium Spatial Gene Expression Putative cancer stem cells Intratumoral heterogeneity Infiltrating T cells −15 −10 −5 0 5 10 −10 0 10 UMAP_1 UMAP_2 Single-nuclei RNA-seq + + Tissue-Level Insights with Visium Spatial Gene Expression Triple negative breast cancer (TNBC) is unresponsive to traditional hormone or targeted therapies and highly het- erogeneous. Developing novel treatment options, therefore, requires a deeper understanding of its biological underpin- nings and cell-type composition. In combination with single nuclei RNA-seq data and pathologist annotation, Visium Spatial Gene Expression provided a fuller under- standing of the biology within a TNBC section by enabling improved resolution of intratumoral heterogeneity, localization and characterization of putative cancer stem cells, and cell subtype identification of infiltrating immune cells. ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ● 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