T-cell receptor sequencing of tumor-infiltrating lymphocytes (TIL) in breast cancer

Study ID Alternative Stable ID Type
EGAS00001007125 Other

Study Description

The spatial distribution of tumor-infiltrating lymphocytes (TIL) predicts breast cancer outcome and response to systemic therapy, highlighting the importance of an intact tissue structure for characterizing patients’ tumors. Here, we present ST-FFPE, a spatial transcriptomics method for the analysis of formalin-fixed paraffin-embedded samples, which opens the possibility of interrogating widely available archival tissue. The method involves extraction, exome capture and sequencing of RNA from different tumor compartments microdissected by laser-capture, and can be used to study the cellular composition of various tumor environments. Focusing on triple-negative breast cancer (TNBC), we characterized T cells, B cells, dendritic cells, fibroblasts and endothelial cells in both stromal and intra-epithelial compartments. We found a highly variable spatial distribution of immune cell subsets among tumors. This analysis revealed that the immune repertoires of intra-epithelial T and B cells were consistently less diverse than those of stromal T and B cells. T-cell receptor (TCR) ... (Show More)

Study Datasets 1 dataset.

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Dataset ID Description Technology Samples
Spatial characterization by TCR sequencing in tumor core and matched stroma in seven cases of triple negative breast cancer.
Illumina MiSeq 14

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